Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9139585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 37885 characters in sequence are not A, C, G, or T
File 19 of 19
Found at i:8635558 original size:12 final size:13
Alignment explanation
Indices: 8635525--8635561 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
8635515 AGCAAAATGT
8635525 GAAAGAAAAAGCAA
1 GAAAGAAAAAG-AA
8635539 -AAAGAAAAAGAA
1 GAAAGAAAAAGAA
8635551 GAAA-AAAAAGA
1 GAAAGAAAAAGA
8635562 GAGAGAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAAGAA
Found at i:8639351 original size:2 final size:2
Alignment explanation
Indices: 8639333--8639376 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
8639323 TTTAACTTCT
* *
8639333 GA GA GA GG GA GA CA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8639375 GA
1 GA
8639377 TCAACAATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8649102 original size:11 final size:10
Alignment explanation
Indices: 8649075--8649103 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
8649065 ACCTTAACCC
8649075 TTATTTTTGT
1 TTATTTTTGT
8649085 TTATTTTTGT
1 TTATTTTTGT
8649095 TTATTTTTG
1 TTATTTTTG
8649104 ATCCCAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (10 bp):
TTATTTTTGT
Found at i:8651769 original size:37 final size:39
Alignment explanation
Indices: 8651728--8651803 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
8651718 ATTCAGATTT
* *
8651728 TTTTTAAAAAAATTATT-T-TC-AGTTTTTTATTTTTTAG
1 TTTTTAAAAAAATAATTATCTCTA-TTTTTAATTTTTTAG
*
8651765 TTTTTCAAAAAATAATTATCTCTATTTTTAATTTTTTAG
1 TTTTTAAAAAAATAATTATCTCTATTTTTAATTTTTTAG
8651804 GAAATTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 15 0.45
38 1 0.03
39 16 0.48
40 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (39 bp):
TTTTTAAAAAAATAATTATCTCTATTTTTAATTTTTTAG
Found at i:8653859 original size:46 final size:46
Alignment explanation
Indices: 8653799--8653887 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
8653789 GTAAATGATT
8653799 TTGTGCAATCTATATATATTAAACTTCCTTCTTGAAGATGTGATAG
1 TTGTGCAATCTATATATATTAAACTTCCTTCTTGAAGATGTGATAG
* *
8653845 TTGTGCAATTTATATATATTAAACTTCTTTCTTGAAGATGTGA
1 TTGTGCAATCTATATATATTAAACTTCCTTCTTGAAGATGTGA
8653888 CAGACTTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (46 bp):
TTGTGCAATCTATATATATTAAACTTCCTTCTTGAAGATGTGATAG
Found at i:8660352 original size:26 final size:26
Alignment explanation
Indices: 8660323--8660379 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
8660313 CTTATATTTA
* *
8660323 AAATTTTTTAA-ATTTGTTTATAATAT
1 AAATTTTTTAATATTT-TTTAAAAAAT
*
8660349 AAA-TATTTAATATTTTTTAAAAAAT
1 AAATTTTTTAATATTTTTTAAAAAAT
8660374 AAATTT
1 AAATTT
8660380 ATAAGGAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AAATTTTTTAATATTTTTTAAAAAAT
Found at i:8663390 original size:24 final size:24
Alignment explanation
Indices: 8663363--8663411 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8663353 TCCATCTAGA
8663363 AGGTATTGCCTCGTGCATCCCCGC
1 AGGTATTGCCTCGTGCATCCCCGC
8663387 AGGTATTGCCTCGTGCATCCCCGC
1 AGGTATTGCCTCGTGCATCCCCGC
8663411 A
1 A
8663412 CTTATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.14, C:0.37, G:0.24, T:0.24
Consensus pattern (24 bp):
AGGTATTGCCTCGTGCATCCCCGC
Found at i:8672566 original size:23 final size:23
Alignment explanation
Indices: 8672529--8672572 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8672519 ATATCTATAT
**
8672529 TATAAAATATTTTAAAATTTTCA
1 TATAAAATACATTAAAATTTTCA
*
8672552 TATAAAATACATTAAAGTTTT
1 TATAAAATACATTAAAATTTT
8672573 GGTCTTAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (23 bp):
TATAAAATACATTAAAATTTTCA
Found at i:8685376 original size:19 final size:22
Alignment explanation
Indices: 8685354--8685399 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
8685344 TGTCATATAA
8685354 TATTTTT-ATAT-TATA-AATT
1 TATTTTTCATATATATATAATT
8685373 TATTTTTCATATATATATAATT
1 TATTTTTCATATATATATAATT
8685395 T-TTTT
1 TATTTT
8685400 ATTAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 8 0.33
22 5 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTTTCATATATATATAATT
Found at i:8700517 original size:17 final size:18
Alignment explanation
Indices: 8700497--8700531 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
8700487 TTATGAGTTA
8700497 ATATATTT-TATTTAATT
1 ATATATTTCTATTTAATT
8700514 ATATATTTCGTATTTAAT
1 ATATATTTC-TATTTAAT
8700532 AAATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
ATATATTTCTATTTAATT
Found at i:8700560 original size:22 final size:21
Alignment explanation
Indices: 8700526--8700569 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
8700516 ATATTTCGTA
8700526 TTTAATAAATAAATAATTAATT
1 TTTAATAAATAAAT-ATTAATT
** *
8700548 TTTAATACTTAAATTTTAATT
1 TTTAATAAATAAATATTAATT
8700569 T
1 T
8700570 AATTAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATAAATAAATATTAATT
Found at i:8701192 original size:16 final size:14
Alignment explanation
Indices: 8701158--8701186 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8701148 TCGGTAAATT
8701158 TTTTTTATAAGTTA
1 TTTTTTATAAGTTA
8701172 TTTTTTATAAGTTA
1 TTTTTTATAAGTTA
8701186 T
1 T
8701187 AATTTTGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTTTATAAGTTA
Found at i:8703936 original size:18 final size:20
Alignment explanation
Indices: 8703899--8703937 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8703889 GATTTAATCT
*
8703899 ACTAATATAATAAAGAATTA
1 ACTAATATAACAAAGAATTA
8703919 ACTAATA-AACAAAG-ATTA
1 ACTAATATAACAAAGAATTA
8703937 A
1 A
8703938 GGAAATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (20 bp):
ACTAATATAACAAAGAATTA
Found at i:8727265 original size:396 final size:396
Alignment explanation
Indices: 8726531--8727456 Score: 1331
Period size: 396 Copynumber: 2.3 Consensus size: 396
8726521 CATTACTCTT
*
8726531 AATGTCTTACGTCACTTGGAAAACAAATTCTTACATGTCACCTTAATTAACCATTTAAGATGACA
1 AATGTCTTACGTCACTTGGGAAACAAATTCTTACATGTCACCTTAATTAACCATTTAAGATGACA
* * * * * *
8726596 ACT-GTAGATACAAGAGAGGCAATAAGTCCCCACATCAACAAAAGCAACAGTAACACCGCACACT
66 ACTAG-AGATACAAGAGAGGCCATAAGTCCCCACAACGACAAAAGCAACAGTAACACCACATATT
* * *
8726660 GACTATCACAAAAGAACTTCACACATGTTATTGGTAAACCCTAATAGAACCAATTATATAGCCAC
130 GACTATCACAAAAGAACATCACACATGTTATTGGTAAACCCCAATAGAACCAATTATAGAGCCAC
* *
8726725 ATAAAGTACAAAAAAACTGACATGAAAAATTAATAACTCAGCACACGTATGTCAAGTTGCACTGG
195 ATAAAGTACAAAAAAACAGACATGAAAAATTAATAACGCAGCACACGTATGTCAAGTTGCACTGG
* **********
8726790 CGCTAACTCACTCAAGCTACCATATAAATCAGCATTNNNNNNNNNNTCATTTACAGAAATGCATT
260 CGCTAACTCACACAAGCTACCATATAAATCAGCATTAATTCTGGTCTCATTTACAGAAATGCATT
* * *
8726855 TAGGAAATATCATCAATAATTGTCAGTGAGAAAGAAGGAACATAAGTATTCACTGCCACGTGCAT
325 TAGGAAACATCATCAATAATTGTCAGTGAGAAAGAAAGAACACAAGTATTCACTGCCACGTGCAT
8726920 CACTATC
390 CACTATC
* *
8726927 AATGTCTTACGTCACTTGGGAAACAATTTCTTACGTGTCACCTTAATTAACCATTTAAGATGACA
1 AATGTCTTACGTCACTTGGGAAACAAATTCTTACATGTCACCTTAATTAACCATTTAAGATGACA
* *
8726992 ACTAGAGATACAAGAGAGGCCATAAGTCCCCACAACGACAAAAGCATCAGTAACTCCACATATTG
66 ACTAGAGATACAAGAGAGGCCATAAGTCCCCACAACGACAAAAGCAACAGTAACACCACATATTG
* *
8727057 ACTATCACAAAAAGAACATCACA-AGTGTTATTGGTAAACCCCAATTGAACCAATTATAGAGGCA
131 ACTATCAC-AAAAGAACATCACACA-TGTTATTGGTAAACCCCAATAGAACCAATTATAGAGCCA
* * *
8727121 CATAAAGTACAAATAAACAGACATGAAAAATTAATTACGCAGCACACGTATGTCAAGTTGCGCTG
194 CATAAAGTACAAAAAAACAGACATGAAAAATTAATAACGCAGCACACGTATGTCAAGTTGCACTG
* * *
8727186 GGGC-AGACTCACACACGCTACCA-ATAAATCAGCATTAATTCTGGTCTCCTTTACAGAAATGCA
259 GCGCTA-ACTCACACAAGCTACCATATAAATCAGCATTAATTCTGGTCTCATTTACAGAAATGCA
* * * *
8727249 TTTAGGAAACATCATCATTAATTGTTAGTGAGAAAGAAAGAACACAAGTATTCTCTGCCATGTGC
323 TTTAGGAAACATCATCAATAATTGTCAGTGAGAAAGAAAGAACACAAGTATTCACTGCCACGTGC
8727314 ATCACTATC
388 ATCACTATC
* * *
8727323 AAAGTCTTACGTCACTTGAGAAACAAATTCTTACATGTCACCTTAGTTAACCATTTAAGATGACA
1 AATGTCTTACGTCACTTGGGAAACAAATTCTTACATGTCACCTTAATTAACCATTTAAGATGACA
* * * *
8727388 ACTAGAGATACAAGAGAGGCCATAAGTCCCCAC-ATGAACAAAACCAACATTAACAACACATATT
66 ACTAGAGATACAAGAGAGGCCATAAGTCCCCACAACG-ACAAAAGCAACAGTAACACCACATATT
8727452 GACTA
130 GACTA
8727457 GACTAGAATA
Statistics
Matches: 472, Mismatches: 53, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
395 2 0.00
396 343 0.73
397 127 0.27
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.24
Consensus pattern (396 bp):
AATGTCTTACGTCACTTGGGAAACAAATTCTTACATGTCACCTTAATTAACCATTTAAGATGACA
ACTAGAGATACAAGAGAGGCCATAAGTCCCCACAACGACAAAAGCAACAGTAACACCACATATTG
ACTATCACAAAAGAACATCACACATGTTATTGGTAAACCCCAATAGAACCAATTATAGAGCCACA
TAAAGTACAAAAAAACAGACATGAAAAATTAATAACGCAGCACACGTATGTCAAGTTGCACTGGC
GCTAACTCACACAAGCTACCATATAAATCAGCATTAATTCTGGTCTCATTTACAGAAATGCATTT
AGGAAACATCATCAATAATTGTCAGTGAGAAAGAAAGAACACAAGTATTCACTGCCACGTGCATC
ACTATC
Found at i:8729330 original size:21 final size:22
Alignment explanation
Indices: 8729304--8729344 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
8729294 GAAAATGTAA
8729304 AAATTTAATTT-TTAA-AAATTT
1 AAATTT-ATTTATTAACAAATTT
8729325 AAATTTATTTATTAACAAAT
1 AAATTTATTTATTAACAAAT
8729345 ATTGTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATTTATTTATTAACAAATTT
Found at i:8737283 original size:43 final size:43
Alignment explanation
Indices: 8737221--8737305 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
8737211 AGCTTGATAA
*
8737221 CTTTTCTGTCTTAACTTCACTATGAAGTTCTAACCACAGAAAT
1 CTTTTCTGTCTTAACTTCACTATGAAATTCTAACCACAGAAAT
*
8737264 CTTTTCTGTCTTAAGTTCACTATGAAATTCTAACCACAGAAA
1 CTTTTCTGTCTTAACTTCACTATGAAATTCTAACCACAGAAA
8737306 AACGGCAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (43 bp):
CTTTTCTGTCTTAACTTCACTATGAAATTCTAACCACAGAAAT
Found at i:8758077 original size:28 final size:29
Alignment explanation
Indices: 8758021--8758077 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8758011 ACACAAAATC
* **
8758021 TTTTTACTTTTTTATATTATAAATTTATT
1 TTTTTACTTTTTCATATTATAAAAATATT
*
8758050 TTTTTTCTTTTTCATATTA-AAAAATATT
1 TTTTTACTTTTTCATATTATAAAAATATT
8758078 GACTACATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTTACTTTTTCATATTATAAAAATATT
Found at i:8768145 original size:30 final size:30
Alignment explanation
Indices: 8768082--8768145 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
8768072 AGTGATAATT
* *
8768082 ACTTATTTGACTCAAAATAAAAGTAAAATA
1 ACTTATTCGACTCAAAATAAAAATAAAATA
8768112 ACTTATTCGACTCAAAATAAAAATATAAA-A
1 ACTTATTCGACTCAAAATAAAAATA-AAATA
8768142 ACTT
1 ACTT
8768146 CATTAAATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (30 bp):
ACTTATTCGACTCAAAATAAAAATAAAATA
Found at i:8769308 original size:2 final size:2
Alignment explanation
Indices: 8769301--8769328 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8769291 AAGCAAACTG
8769301 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8769329 ACTTAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8772720 original size:16 final size:17
Alignment explanation
Indices: 8772699--8772755 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 17
8772689 AGGAAGATTT
*
8772699 TATTAAAAAT-TTTATA
1 TATTAAAAATATTTAAA
*
8772715 TATTAATAATATTTAAA
1 TATTAAAAATATTTAAA
*
8772732 TATTTTAAAAAAATTTAAA
1 TA--TTAAAAATATTTAAA
8772751 TATTA
1 TATTA
8772756 TCAAAAATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 9 0.26
17 10 0.29
19 15 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTAAAAATATTTAAA
Found at i:8772761 original size:19 final size:19
Alignment explanation
Indices: 8772725--8772762 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8772715 TATTAATAAT
*
8772725 ATTTAAATATTTTAAAAAA
1 ATTTAAATATTATAAAAAA
*
8772744 ATTTAAATATTATCAAAAA
1 ATTTAAATATTATAAAAAA
8772763 TAGATTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTAAATATTATAAAAAA
Found at i:8772773 original size:15 final size:15
Alignment explanation
Indices: 8772753--8772786 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8772743 AATTTAAATA
8772753 TTATC-AAAAATAGAT
1 TTATCAAAAAATA-AT
8772768 TTATCAAAAAATAAT
1 TTATCAAAAAATAAT
8772783 TTAT
1 TTAT
8772787 ATATTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
TTATCAAAAAATAAT
Found at i:8778030 original size:29 final size:29
Alignment explanation
Indices: 8777954--8778031 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 29
8777944 TTAAATATAA
* *
8777954 CGTGTAACAACAATATTTTTTCAACATAG
1 CGTGTAACAACATTTTTTTTTCAACATAG
* ** *
8777983 CATGTAATGACAGTATTTTTTTTCAACATGG
1 CGTGTAACAACA-T-TTTTTTTTCAACATAG
8778014 CGTGTAACAACATTTTTT
1 CGTGTAACAACATTTTTT
8778032 AATTATGGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
29 14 0.37
30 1 0.03
31 23 0.61
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (29 bp):
CGTGTAACAACATTTTTTTTTCAACATAG
Found at i:8778221 original size:119 final size:118
Alignment explanation
Indices: 8778081--8778301 Score: 271
Period size: 119 Copynumber: 1.9 Consensus size: 118
8778071 CAATAGTATT
* * * * *
8778081 TTTTTAACATGGCGTAAAACAACCTAACCATAGCGTGTCACATATTTTTGTATATGACGTGTAAC
1 TTTTTAACATAGCGTAAAACAACCTAACCATAACATGTCACATATTTTTGTACATGACATGTAAC
** *
8778146 AATTTAACCATGGCGTGTCACATATTTTTATACATGGTATGACGTGTCACATG
66 AACCTAACCATGACGTGTCACATATTTTTATACATGGTATGACGTGTCACATG
** ** * **
8778199 TTTTTATACATAGCGTGTAACAACCTAATTATAACATGTCACATGTTTTTGTACATGGTATGTAA
1 TTTTTA-ACATAGCGTAAAACAACCTAACCATAACATGTCACATATTTTTGTACATGACATGTAA
* * *
8778264 CAACCTAACCATGACGTGTCATATTTTTTTGTACATGG
65 CAACCTAACCATGACGTGTCACATATTTTTATACATGG
8778302 CATGTAATAA
Statistics
Matches: 84, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
118 6 0.07
119 78 0.93
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (118 bp):
TTTTTAACATAGCGTAAAACAACCTAACCATAACATGTCACATATTTTTGTACATGACATGTAAC
AACCTAACCATGACGTGTCACATATTTTTATACATGGTATGACGTGTCACATG
Found at i:8778241 original size:45 final size:45
Alignment explanation
Indices: 8778184--8778535 Score: 303
Period size: 45 Copynumber: 7.8 Consensus size: 45
8778174 TATACATGGT
* * **
8778184 ATGACGTGTCACATGTTTTTATACATAGCGTGTAACAACCTAATT
1 ATGACATGTCACATGTTTTTGTACATAGCGTGTAACAACCTAACC
* * **
8778229 ATAACATGTCACATGTTTTTGTACATGGTATGTAACAACCTAACC
1 ATGACATGTCACATGTTTTTGTACATAGCGTGTAACAACCTAACC
* * * * * * *
8778274 ATGACGTGTCATATTTTTTTGTACATGGCATGTAATAACTTAACC
1 ATGACATGTCACATGTTTTTGTACATAGCGTGTAACAACCTAACC
* * * * * *
8778319 ATAACATGTTACATATTTTTGTATAT-GACGTATAACAACCTAATC
1 ATGACATGTCACATGTTTTTGTACATAG-CGTGTAACAACCTAACC
* * * *
8778364 ATGACGTGTCACATGTTTTTGTATATAGCGCGTAACAACCTAACT
1 ATGACATGTCACATGTTTTTGTACATAGCGTGTAACAACCTAACC
* * * * *
8778409 ATGGCGTGTCACATGTTTTTGTATATAGTGCGTAACAACCTAACC
1 ATGACATGTCACATGTTTTTGTACATAGCGTGTAACAACCTAACC
* * * *
8778454 ATGGCATGTCACATGTTTTTATACA-CGACGTATAACAACCTAACC
1 ATGACATGTCACATGTTTTTGTACATAG-CGTGTAACAACCTAACC
* * * * * * *
8778499 ATGACGTGTAATATATTTCTGTACATGGTGTGTAACA
1 ATGACATGTCACATGTTTTTGTACATAGCGTGTAACA
8778536 TCATAACGTG
Statistics
Matches: 249, Mismatches: 54, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
44 2 0.01
45 245 0.98
46 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (45 bp):
ATGACATGTCACATGTTTTTGTACATAGCGTGTAACAACCTAACC
Found at i:8778293 original size:90 final size:89
Alignment explanation
Indices: 8778184--8778497 Score: 344
Period size: 90 Copynumber: 3.5 Consensus size: 89
8778174 TATACATGGT
*
8778184 ATGACGTGTCACATGTTTTTATACATAGCGTGTAACAACCTAATTATAACATGTCACATGTTTTT
1 ATGACGTGTCACATGTTTTTATACATAGCGTGTAACAACCTAACTATAACATGTCACATGTTTTT
*
8778249 GTACATGGTATGTAACAACCTAACC
66 GTATATGGTA-GTAACAACCTAACC
* * * * * * * * * *
8778274 ATGACGTGTCATATTTTTTTGTACATGGCATGTAATAACTTAACCATAACATGTTACATATTTTT
1 ATGACGTGTCACATGTTTTTATACATAGCGTGTAACAACCTAACTATAACATGTCACATGTTTTT
*
8778339 GTATATGACGTA-TAACAACCTAATC
66 GTATATG--GTAGTAACAACCTAACC
* * * ** *
8778364 ATGACGTGTCACATGTTTTTGTATATAGCGCGTAACAACCTAACTATGGCGTGTCACATGTTTTT
1 ATGACGTGTCACATGTTTTTATACATAGCGTGTAACAACCTAACTATAACATGTCACATGTTTTT
* *
8778429 GTATATAGTGCGTAACAACCTAACC
66 GTATATGGT-AGTAACAACCTAACC
* * * *
8778454 ATGGCATGTCACATGTTTTTATACA-CGACGTATAACAACCTAAC
1 ATGACGTGTCACATGTTTTTATACATAG-CGTGTAACAACCTAAC
8778498 CATGACGTGT
Statistics
Matches: 182, Mismatches: 37, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
88 2 0.01
89 1 0.01
90 176 0.97
92 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (89 bp):
ATGACGTGTCACATGTTTTTATACATAGCGTGTAACAACCTAACTATAACATGTCACATGTTTTT
GTATATGGTAGTAACAACCTAACC
Found at i:8778534 original size:135 final size:133
Alignment explanation
Indices: 8778190--8778535 Score: 379
Period size: 135 Copynumber: 2.6 Consensus size: 133
8778180 TGGTATGACG
* * * * *
8778190 TGTCACATGTTTTTATACATAGCGTGTAACAACCTAATTATAACATGTCACATGTTTTTGTACAT
1 TGTCACATGTTTTTATACAGA-CGTATAACAACCTAATCATGACGTGTCACATGTTTTTGTACAT
* * * * *
8778255 GGTATGTAACAACCTAACCATGACGTGTCATATTTTTTTGTACATGGCATGTAATAACTTAACCA
65 GGTGTGTAACAACCTAACCATGACGTGTCACATGTTTTTGTACATGGCA-GTAACAACCTAACCA
8778320 TAACA
129 TAACA
* * * * *
8778325 TGTTACATATTTTTGTATATGACGTATAACAACCTAATCATGACGTGTCACATGTTTTTGTATAT
1 TGTCACATGTTTTTATACA-GACGTATAACAACCTAATCATGACGTGTCACATGTTTTTGTACAT
* * * * * *
8778390 AGCGCGTAACAACCTAACTATGGCGTGTCACATGTTTTTGTATATAGTGC-GTAACAACCTAACC
65 GGTGTGTAACAACCTAACCATGACGTGTCACATGTTTTTGTACAT-G-GCAGTAACAACCTAACC
**
8778454 ATGGCA
128 ATAACA
* * * * *
8778460 TGTCACATGTTTTTATACACGACGTATAACAACCTAACCATGACGTGTAATATATTTCTGTACAT
1 TGTCACATGTTTTTATACA-GACGTATAACAACCTAATCATGACGTGTCACATGTTTTTGTACAT
8778525 GGTGTGTAACA
65 GGTGTGTAACA
8778536 TCATAACGTG
Statistics
Matches: 171, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
135 167 0.98
136 2 0.01
137 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (133 bp):
TGTCACATGTTTTTATACAGACGTATAACAACCTAATCATGACGTGTCACATGTTTTTGTACATG
GTGTGTAACAACCTAACCATGACGTGTCACATGTTTTTGTACATGGCAGTAACAACCTAACCATA
ACA
Found at i:8778746 original size:32 final size:32
Alignment explanation
Indices: 8778676--8778737 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
8778666 TTACTTTTAC
*
8778676 AAAATTATATCGATAACATTTCATTAAATAAT
1 AAAATTATATCAATAACATTTCATTAAATAAT
* * *
8778708 AAAATTATATCAATCAGATTTCGTTAAATA
1 AAAATTATATCAATAACATTTCATTAAATA
8778738 GTTTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (32 bp):
AAAATTATATCAATAACATTTCATTAAATAAT
Found at i:8779435 original size:21 final size:19
Alignment explanation
Indices: 8779399--8779438 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
8779389 GATATTGTTT
*
8779399 TATAAAAAATTAAATAAAA
1 TATAAAAAATGAAATAAAA
8779418 TATAAAAAATGGATAATAAAA
1 TATAAAAAAT-GA-AATAAAA
8779439 AAAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (19 bp):
TATAAAAAATGAAATAAAA
Found at i:8779885 original size:11 final size:11
Alignment explanation
Indices: 8779869--8779909 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
8779859 ATAATTATAA
*
8779869 TATATACAAAT
1 TATATATAAAT
8779880 TATATATAAAT
1 TATATATAAAT
*
8779891 TAAATATAAA-
1 TATATATAAAT
8779901 TATATATAA
1 TATATATAA
8779910 TATATTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
TATATATAAAT
Found at i:8780272 original size:214 final size:212
Alignment explanation
Indices: 8779879--8780323 Score: 535
Period size: 214 Copynumber: 2.1 Consensus size: 212
8779869 TATATACAAA
*
8779879 TTATATATAAATTAAATATAAATATATATAATATATTATTTTATTATATATATAATTAATGACAC
1 TTATATATAAATTAAATATAAATATATATAATATATTACTTTATTATATATATAATTAATGACAC
8779944 AACTTATATGTTATAATATTTTAATTTTTATATCAAAGTTTGTATAAATAATAATAAATTATAAA
66 AACTTATATGTTATAATATTTTAA---TTATA-CAAAGTTTGTATAAATAATAATAAATTATAAA
* * * * *
8780009 TAATATGTTATAAAAATTAAAGCAACAACTAAAAAATTTATTGAGTGTAATCATATAAATAAAGT
127 CAATATGTTATAAAAACTAAAG-AACAACTAAAAAAGTTATTAAGTGTAATCATATAAATAAAAT
* *
8780074 CTATCATAAGTTATAGTAATAT
191 CTATCATAAGTTATAATAATAC
***
8780096 TTATATATAAATTAAATATGTGTATATATATATAATATTACTTTATTATGTATATATGAAATTAA
1 TTATATATAAATTAAATATAAATATATATA-AT-ATATTACTTTATTA--TATATAT--AATTAA
*
8780161 TGACA-AACTTATATGTTATAATGTTTT-A-TATA-AAA-TTTGTATAAATAATAACT-AATTAT
60 TGACACAACTTATATGTTATAATATTTTAATTATACAAAGTTTGTATAAATAATAA-TAAATTAT
** * *
8780220 AAACAATATGTTATAAAAACT-AAGATGATTATTAATAAAGTTATTAAGTGTAATCATATAAATA
124 AAACAATATGTTATAAAAACTAAAGA--ACAACTAAAAAAGTTATTAAGTGTAATCATATAAATA
* * *
8780284 AAATTTATTATAAGTTATAATAATGC
187 AAATCTATCATAAGTTATAATAATAC
*
8780310 TTATGTATAAATTA
1 TTATATATAAATTA
8780324 TATACATAAT
Statistics
Matches: 199, Mismatches: 20, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
212 1 0.01
213 3 0.02
214 105 0.53
215 4 0.02
217 31 0.16
218 2 0.01
219 13 0.07
221 8 0.04
222 21 0.11
223 11 0.06
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (212 bp):
TTATATATAAATTAAATATAAATATATATAATATATTACTTTATTATATATATAATTAATGACAC
AACTTATATGTTATAATATTTTAATTATACAAAGTTTGTATAAATAATAATAAATTATAAACAAT
ATGTTATAAAAACTAAAGAACAACTAAAAAAGTTATTAAGTGTAATCATATAAATAAAATCTATC
ATAAGTTATAATAATAC
Found at i:8780488 original size:21 final size:20
Alignment explanation
Indices: 8780451--8780489 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8780441 CTATCATATA
*
8780451 TTATAATATTAACATATAAG
1 TTATAATATTAAAATATAAG
*
8780471 TTATATTATTTAAAATATA
1 TTATAATA-TTAAAATATA
8780490 TAACTTGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTATAATATTAAAATATAAG
Found at i:8780529 original size:4 final size:4
Alignment explanation
Indices: 8780520--8780544 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8780510 ATATAGATTT
8780520 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
8780545 ATTATTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:8784622 original size:12 final size:12
Alignment explanation
Indices: 8784605--8784641 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8784595 TAAAGGGCGA
8784605 CATACTCGGGCT
1 CATACTCGGGCT
8784617 CATACTCGGGCT
1 CATACTCGGGCT
* *
8784629 CATTCTTGGGCT
1 CATACTCGGGCT
8784641 C
1 C
8784642 TCTTCTCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.14, C:0.32, G:0.24, T:0.30
Consensus pattern (12 bp):
CATACTCGGGCT
Found at i:8786631 original size:22 final size:24
Alignment explanation
Indices: 8786587--8786631 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
8786577 CAACCAAAAA
8786587 ACAAACACACCAATGTCTAATGAT
1 ACAAACACACCAATGTCTAATGAT
*
8786611 ACAAAC-CACCACTGT-TAATGA
1 ACAAACACACCAATGTCTAATGA
8786632 ATCTTATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.44, C:0.27, G:0.09, T:0.20
Consensus pattern (24 bp):
ACAAACACACCAATGTCTAATGAT
Found at i:8788570 original size:2 final size:2
Alignment explanation
Indices: 8788563--8788589 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8788553 TTCTAATGTC
8788563 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8788590 TTATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8789033 original size:28 final size:27
Alignment explanation
Indices: 8788969--8789033 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
8788959 TTATGTAAAT
* *
8788969 ATAAATTAAAAAATAAAAATTTAATTT
1 ATAAATAAAAAAATAAAAATTTAATTC
* * *
8788996 ATGTACTAAAAAAATAAGAATTTAATTGC
1 AT-AAATAAAAAAATAAAAATTTAATT-C
8789025 ATAAATAAA
1 ATAAATAAA
8789034 TATAGGTAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
27 2 0.07
28 25 0.86
29 2 0.07
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (27 bp):
ATAAATAAAAAAATAAAAATTTAATTC
Found at i:8792681 original size:42 final size:42
Alignment explanation
Indices: 8792634--8792739 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
8792624 CTCTTGTTCT
*
8792634 TCTATGTTCTC-TTGTTC-TCTCAGCTCTACCATTCAGTCTTGG
1 TCTATGTTCTCATTCTTCAT-TC-GCTCTACCATTCAGTCTTGG
** *
8792676 TCTATGTTCTCATTCTTCATTCTTTGTACCATTCAGTCTTGG
1 TCTATGTTCTCATTCTTCATTCGCTCTACCATTCAGTCTTGG
*
8792718 TCTATGGTCTCATTCTTCATTC
1 TCTATGTTCTCATTCTTCATTC
8792740 TTTATACTGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 49 0.86
43 7 0.12
44 1 0.02
ACGTcount: A:0.13, C:0.26, G:0.12, T:0.48
Consensus pattern (42 bp):
TCTATGTTCTCATTCTTCATTCGCTCTACCATTCAGTCTTGG
Found at i:8792731 original size:23 final size:23
Alignment explanation
Indices: 8792663--8792732 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
8792653 TCAGCTCTAC
*
8792663 CATTCAGTCTTGGTCTATGTTCT
1 CATTCAGTCTTGGTCTATGGTCT
* * *
8792686 CATTC-TTCAT--TCT-TTGTAC-
1 CATTCAGTCTTGGTCTATGGT-CT
8792705 CATTCAGTCTTGGTCTATGGTCT
1 CATTCAGTCTTGGTCTATGGTCT
8792728 CATTC
1 CATTC
8792733 TTCATTCTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 12
0.64 0.13 0.23
Matches are distributed among these distances:
19 7 0.21
20 7 0.21
22 7 0.21
23 13 0.38
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.47
Consensus pattern (23 bp):
CATTCAGTCTTGGTCTATGGTCT
Found at i:8792740 original size:42 final size:42
Alignment explanation
Indices: 8792660--8792742 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
8792650 CTCTCAGCTC
*
8792660 TACCATTCAGTCTTGGTCTATGTTCTCATTCTTCATTCTTTG
1 TACCATTCAGTCTTGGTCTATGGTCTCATTCTTCATTCTTTG
8792702 TACCATTCAGTCTTGGTCTATGGTCTCATTCTTCATTCTTT
1 TACCATTCAGTCTTGGTCTATGGTCTCATTCTTCATTCTTT
8792743 ATACTGACGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.14, C:0.24, G:0.12, T:0.49
Consensus pattern (42 bp):
TACCATTCAGTCTTGGTCTATGGTCTCATTCTTCATTCTTTG
Found at i:8809541 original size:24 final size:24
Alignment explanation
Indices: 8809504--8809567 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 24
8809494 GACGTAATGT
8809504 AATTAATATATTTATTAAACATG-TAG
1 AATTAA-AT-TTTATTAAA-ATGATAG
*
8809530 AATTAAATTTTATATAAAATGATAT
1 AATTAAATTTTAT-TAAAATGATAG
8809555 AA-T-AATTTTATTA
1 AATTAAATTTTATTA
8809568 TTTAAATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.06
23 8 0.23
24 9 0.26
25 10 0.29
26 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (24 bp):
AATTAAATTTTATTAAAATGATAG
Found at i:8817192 original size:17 final size:17
Alignment explanation
Indices: 8817170--8817214 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
8817160 GATAAATTAT
8817170 TTATTTTAATTTATAAA
1 TTATTTTAATTTATAAA
*
8817187 TTA-TTTAA-ATATAAA
1 TTATTTTAATTTATAAA
8817202 TT-TTATTAATTTA
1 TTATT-TTAATTTA
8817215 ATTTTGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 9 0.39
16 9 0.39
17 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTTTAATTTATAAA
Found at i:8820535 original size:22 final size:23
Alignment explanation
Indices: 8820510--8820553 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
8820500 TGTTATCTCT
8820510 TTTCAGCAGGTAAATTT-ATTTG
1 TTTCAGCAGGTAAATTTGATTTG
*
8820532 TTTCAGCTGGTAAATTTGATTT
1 TTTCAGCAGGTAAATTTGATTT
8820554 CTTCCACCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (23 bp):
TTTCAGCAGGTAAATTTGATTTG
Found at i:8823025 original size:32 final size:32
Alignment explanation
Indices: 8822989--8823053 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
8822979 CTGGGAGATC
8822989 ATTTCATTCAATTCTTTAATATTAGCATGGGA
1 ATTTCATTCAATTCTTTAATATTAGCATGGGA
8823021 ATTTCATTCAATTCTTTAATATTAGCATGGGA
1 ATTTCATTCAATTCTTTAATATTAGCATGGGA
8823053 A
1 A
8823054 ATTCTATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (32 bp):
ATTTCATTCAATTCTTTAATATTAGCATGGGA
Found at i:8825838 original size:108 final size:109
Alignment explanation
Indices: 8825650--8825852 Score: 275
Period size: 108 Copynumber: 1.9 Consensus size: 109
8825640 ACATTTTGAA
* ** * *
8825650 TAAATTTAAAGAAAAGGTAAATTGAGTAAGAGTTAAAATAATTTCAAACGAATGTGTATTTACAA
1 TAAATTTAAAGAAAAGATAAATTGAGTAAGAGTTAAAATAATTTCAAAAAAATATGTAATTACAA
*
8825715 ATTGTGAAAGTTGTAACCAAATCAACATATTTTGTTAATTTCAG
66 ATTGTGAAACTTGTAACCAAATCAACATATTTTGTTAATTTCAG
* * * **
8825759 TAAATTTAAATAAAAGATAAATTTG-GTAAGAGTT-GAATAATTTTAAAAAAATATGTAATTGTA
1 TAAATTTAAAGAAAAGATAAA-TTGAGTAAGAGTTAAAATAATTTCAAAAAAATATGTAATTACA
*
8825822 AATTGTGAAACTTGTAACTAAATCAACATAT
65 AATTGTGAAACTTGTAACCAAATCAACATAT
8825853 CTAATCATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
108 50 0.62
109 28 0.35
110 3 0.04
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.34
Consensus pattern (109 bp):
TAAATTTAAAGAAAAGATAAATTGAGTAAGAGTTAAAATAATTTCAAAAAAATATGTAATTACAA
ATTGTGAAACTTGTAACCAAATCAACATATTTTGTTAATTTCAG
Found at i:8826944 original size:20 final size:22
Alignment explanation
Indices: 8826902--8826952 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
8826892 AAAAAATATT
*
8826902 TAAATATTATTTAATATATTAA
1 TAAATATTAATTAATATATTAA
*
8826924 TATATATTAATTAAT-TA-TAA
1 TAAATATTAATTAATATATTAA
8826944 TAAATATTA
1 TAAATATTA
8826953 TAAAGGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 11 0.42
21 2 0.08
22 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATATTAATTAATATATTAA
Found at i:8826992 original size:45 final size:45
Alignment explanation
Indices: 8826920--8827021 Score: 127
Period size: 45 Copynumber: 2.2 Consensus size: 45
8826910 ATTTAATATA
* *
8826920 TTAATATATATTAATTAATTATAATAAATATTATAAAGGAA-ATTAT
1 TTAATAT-TATTAATTAATTATAATAAATATAATAAA-AAATATTAT
*
8826966 TTAATATTATTATTTGAA-TATAATAAATATAATAAAAAATATTAT
1 TTAATATTATTAATT-AATTATAATAAATATAATAAAAAATATTAT
*
8827011 TTAGTATTATT
1 TTAATATTATT
8827022 TAAATTTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
44 2 0.04
45 39 0.78
46 9 0.18
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (45 bp):
TTAATATTATTAATTAATTATAATAAATATAATAAAAAATATTAT
Found at i:8827109 original size:46 final size:44
Alignment explanation
Indices: 8827044--8827176 Score: 149
Period size: 46 Copynumber: 3.0 Consensus size: 44
8827034 AGAATATATT
* *
8827044 TTATTTTTTAATATTAAATATTATTTAATTATAATACAAAGTTTAA
1 TTATATTTTAATA-AAAATATTATTTAATTATAATA-AAAGTTTAA
* * * * * *
8827090 TTATCTTTTAATACAAAATATTGTTAAATTATAATAAAAATATAT
1 TTATATTTTAATA-AAAATATTATTTAATTATAATAAAAGTTTAA
* *
8827135 TTATATTTTGATAAAAATATTATTTAATTATAGTAAAAGTTT
1 TTATATTTTAATAAAAATATTATTTAATTATAATAAAAGTTT
8827177 TTTGATTTTA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 24 0.33
45 17 0.24
46 31 0.43
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (44 bp):
TTATATTTTAATAAAAATATTATTTAATTATAATAAAAGTTTAA
Found at i:8827130 original size:22 final size:21
Alignment explanation
Indices: 8827098--8827172 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
8827088 AATTATCTTT
8827098 TAATACAAAATATTGTTAAATTA
1 TAATA-AAAATATT-TTAAATTA
* *
8827121 TAATAAAAATATATTTATATTT
1 TAATAAAAATAT-TTTAAATTA
* *
8827143 TGATAAAAATATTATTTAATTA
1 TAATAAAAATATT-TTAAATTA
*
8827165 TAGTAAAA
1 TAATAAAA
8827173 GTTTTTTGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.02
22 35 0.83
23 6 0.14
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (21 bp):
TAATAAAAATATTTTAAATTA
Found at i:8827506 original size:27 final size:28
Alignment explanation
Indices: 8827456--8827511 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
8827446 TTTATAAATT
* *
8827456 TATTTATAAAATAATTTTTTTATT-TTA
1 TATTTATAAAATAATTATTCTATTCTTA
*
8827483 TATTTTTAAAATAATTATTCTATTCTTA
1 TATTTATAAAATAATTATTCTATTCTTA
8827511 T
1 T
8827512 TCTATTCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TATTTATAAAATAATTATTCTATTCTTA
Found at i:8844441 original size:2 final size:2
Alignment explanation
Indices: 8844434--8844464 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8844424 GCAACCCTTT
8844434 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8844465 TACTGTGCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8848319 original size:25 final size:26
Alignment explanation
Indices: 8848272--8848325 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
8848262 TTTTCTATAT
* *
8848272 AATAAATTAAAATTCACTTATAAA-A
1 AATAAATTAAAATTCAATAATAAATA
*
8848297 AATAAATTAAAATTTAATAATAAATA
1 AATAAATTAAAATTCAATAATAAATA
8848323 AAT
1 AAT
8848326 TTTAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
AATAAATTAAAATTCAATAATAAATA
Found at i:8848321 original size:22 final size:23
Alignment explanation
Indices: 8848272--8848326 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
8848262 TTTTCTATAT
*
8848272 AATAAATTAAAATTCACTTATAAAA
1 AATAAATTAAAATT--CTAATAAAA
*
8848297 AATAAATTAAAATT-TAATAATA
1 AATAAATTAAAATTCTAATAAAA
8848319 AATAAATT
1 AATAAATT
8848327 TTAATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 14 0.50
25 14 0.50
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AATAAATTAAAATTCTAATAAAA
Found at i:8848336 original size:18 final size:19
Alignment explanation
Indices: 8848296--8848336 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
8848286 CACTTATAAA
8848296 AAATAAATTAAAATTTAAT
1 AAATAAATTAAAATTTAAT
*
8848315 -AATAAA-TAAATTTTAAT
1 AAATAAATTAAAATTTAAT
8848332 AAATA
1 AAATA
8848337 TTATATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATAAATTAAAATTTAAT
Found at i:8851732 original size:16 final size:17
Alignment explanation
Indices: 8851711--8851742 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8851701 ACTCCTTCGG
8851711 TCTC-TTTTTATTTTAA
1 TCTCTTTTTTATTTTAA
8851727 TCTCTTTTTTATTTTA
1 TCTCTTTTTTATTTTA
8851743 TTGTATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (17 bp):
TCTCTTTTTTATTTTAA
Found at i:8856781 original size:1 final size:1
Alignment explanation
Indices: 8856775--8856807 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
8856765 CCCATGAATA
*
8856775 GGGGGGGGGGGGGGGGGGGGGGGGGGGGTGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
8856808 TGTTCGTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.97, T:0.03
Consensus pattern (1 bp):
G
Found at i:8863667 original size:20 final size:20
Alignment explanation
Indices: 8863617--8863667 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
8863607 TATTTCACAT
8863617 ATATTATAA-ATTTTTAAAAA
1 ATATT-TAACATTTTTAAAAA
* * *
8863637 ATA-TCATCATTTTTATAAA
1 ATATTTAACATTTTTAAAAA
8863656 ATATTTAACATT
1 ATATTTAACATT
8863668 GCATCAACAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 9 0.38
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTTAACATTTTTAAAAA
Found at i:8865659 original size:21 final size:20
Alignment explanation
Indices: 8865607--8865672 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
8865597 AGTGTGAATT
8865607 TAAAATATT-AATAATTATA
1 TAAAATATTAAATAATTATA
*
8865626 -AATATGATATAAATAATTATA
1 TAAAAT-AT-TAAATAATTATA
8865647 TTAAAATATTAAAT-A-TATA
1 -TAAAATATTAAATAATTATA
8865666 TAAAATA
1 TAAAATA
8865673 AATATATAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 11 0.28
19 6 0.15
20 2 0.05
21 15 0.38
22 2 0.05
23 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TAAAATATTAAATAATTATA
Found at i:8865672 original size:32 final size:33
Alignment explanation
Indices: 8865607--8865679 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 33
8865597 AGTGTGAATT
8865607 TAAA-ATATTAATAATTATAAATATGATATAAA
1 TAAATATATTAATAATTATAAATATGATATAAA
*
8865639 TAATTATATTAA-AA-TATTAAATAT-ATATAAAA
1 TAAATATATTAATAATTA-TAAATATGATAT-AAA
8865671 TAAATATAT
1 TAAATATAT
8865680 AACATGATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
31 6 0.17
32 23 0.64
33 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (33 bp):
TAAATATATTAATAATTATAAATATGATATAAA
Found at i:8865674 original size:15 final size:15
Alignment explanation
Indices: 8865623--8865680 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
8865613 ATTAATAATT
8865623 ATAAATATGATAT-AA
1 ATAAATAT-ATATAAA
*
8865638 ATAATTATAT-TAAAA
1 ATAAATATATAT-AAA
8865653 TATTAAATATATATAAA
1 -A-TAAATATATATAAA
8865670 ATAAATATATA
1 ATAAATATATA
8865681 ACATGATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 19 0.53
16 2 0.06
17 11 0.31
18 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAATATATATAAA
Found at i:8866985 original size:101 final size:101
Alignment explanation
Indices: 8866809--8867010 Score: 334
Period size: 101 Copynumber: 2.0 Consensus size: 101
8866799 CTTTTCCTCC
* *
8866809 CACAAGAATTGTAAATTGACTGTACTATGTATATATTTATTTATTTTTCTGGTCTAAAAATTTTG
1 CACAAGAATCGTAAATTGACTGTAC--T-TATATATTTATTTATTTTTCTAGTCTAAAAATTTTG
*
8866874 ATTTTGTATATTATTTTGAAAATTTTTAAATTAAAAAAGA
63 ATTTTATATATTATTTTGAAAATTTTTAAA-TAAAAAAGA
8866914 CACAAGAATCGTAAATTGACTGTAC-TATATATTTATTTATTTTTCTAGTCTAAAAATTTTGATT
1 CACAAGAATCGTAAATTGACTGTACTTATATATTTATTTATTTTTCTAGTCTAAAAATTTTGATT
8866978 TTATATATTATTTTGAAAATTTTTAAATAAAAA
66 TTATATATTATTTTGAAAATTTTTAAATAAAAA
8867011 GAGATATCTT
Statistics
Matches: 94, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
100 6 0.06
101 64 0.68
105 24 0.26
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (101 bp):
CACAAGAATCGTAAATTGACTGTACTTATATATTTATTTATTTTTCTAGTCTAAAAATTTTGATT
TTATATATTATTTTGAAAATTTTTAAATAAAAAAGA
Found at i:8873654 original size:34 final size:34
Alignment explanation
Indices: 8873616--8873716 Score: 106
Period size: 34 Copynumber: 3.1 Consensus size: 34
8873606 TTAATTAAAA
8873616 GTGTTAAGATTGATATGATTAATTAAACATGAAT
1 GTGTTAAGATTGATATGATTAATTAAACATGAAT
* * *
8873650 GTGTTAAGATCGATATAATTAATT----AT--AC
1 GTGTTAAGATTGATATGATTAATTAAACATGAAT
* * *
8873678 GTGTTAAAATTGACATGATTAATTAAACGTGAAT
1 GTGTTAAGATTGATATGATTAATTAAACATGAAT
8873712 GTGTT
1 GTGTT
8873717 TATGACACTA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
28 21 0.40
30 2 0.04
32 1 0.02
34 28 0.54
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (34 bp):
GTGTTAAGATTGATATGATTAATTAAACATGAAT
Found at i:8873707 original size:28 final size:28
Alignment explanation
Indices: 8873600--8873708 Score: 101
Period size: 28 Copynumber: 3.7 Consensus size: 28
8873590 ATTTATTTAA
*
8873600 ACATGATTAATTAAAAGTGTTAAGATTG
1 ACATGATTAATTAAACGTGTTAAGATTG
* *
8873628 ATATGATTAATTAAACATGAATGTGTTAAGATCG
1 ACATGATTAATTAAAC------GTGTTAAGATTG
* * * *
8873662 ATATAATTAATTATACGTGTTAAAATTG
1 ACATGATTAATTAAACGTGTTAAGATTG
8873690 ACATGATTAATTAAACGTG
1 ACATGATTAATTAAACGTG
8873709 AATGTGTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
28 40 0.62
34 25 0.38
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.37
Consensus pattern (28 bp):
ACATGATTAATTAAACGTGTTAAGATTG
Found at i:8873747 original size:28 final size:25
Alignment explanation
Indices: 8873709--8873764 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 25
8873699 ATTAAACGTG
8873709 AATGTGTTTATGACACTATTTATTAAAA
1 AATGTGTTTAT--CA-TATTTATTAAAA
*
8873737 AATGTGTTTATTATATTTATTAAAA
1 AATGTGTTTATCATATTTATTAAAA
8873762 AAT
1 AAT
8873765 TAAATTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 15 0.56
26 1 0.04
28 11 0.41
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (25 bp):
AATGTGTTTATCATATTTATTAAAA
Found at i:8880317 original size:24 final size:24
Alignment explanation
Indices: 8880270--8880317 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8880260 TTATCTCATT
* * **
8880270 TTCTTCCTCATCCTCCTCTTCCTC
1 TTCTTCCTCATCATCCCCCACCTC
8880294 TTCTTCCTCATCATCCCCCACCTC
1 TTCTTCCTCATCATCCCCCACCTC
8880318 ATGCCTCTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.08, C:0.52, G:0.00, T:0.40
Consensus pattern (24 bp):
TTCTTCCTCATCATCCCCCACCTC
Found at i:8890242 original size:6 final size:6
Alignment explanation
Indices: 8890231--8890261 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
8890221 AAGGGGCGAA
8890231 AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG A
1 AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG A
8890262 AGAAAGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.32, G:0.32, T:0.00
Consensus pattern (6 bp):
AGCCAG
Found at i:8891135 original size:28 final size:28
Alignment explanation
Indices: 8891088--8891151 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
8891078 GTTGTTACAT
* *
8891088 TATGTT-AAAAATTTAGTTATTATATAC
1 TATGTTAAAAAATGTAATTATTATATAC
**
8891115 TATGTTAAAAAATGTAATTATTATATGT
1 TATGTTAAAAAATGTAATTATTATATAC
8891143 TATGTTAAA
1 TATGTTAAA
8891152 GATTTTATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (28 bp):
TATGTTAAAAAATGTAATTATTATATAC
Found at i:8891177 original size:27 final size:27
Alignment explanation
Indices: 8891141--8891383 Score: 145
Period size: 27 Copynumber: 8.9 Consensus size: 27
8891131 ATTATTATAT
* *
8891141 GTTATGTTAAAGATTTTATTGTTACAC
1 GTTATATTAAAGATTTAATTGTTACAC
8891168 GTTATATTAAAGATTTAATTGTTACAC
1 GTTATATTAAAGATTTAATTGTTACAC
* *
8891195 GTTATATTAAAAAATATAATTGTTATC-C
1 GTTATATT-AAAGATTTAATTGTTA-CAC
* * *
8891223 GCTATATTGAAA-ATTTAATTGTTATAT
1 GTTATATT-AAAGATTTAATTGTTACAC
* * * *
8891250 GTCATATTGAAAAATGTAATTATTACAC
1 GTTATATT-AAAGATTTAATTGTTACAC
* * * *
8891278 GTCATGTTGAAA-ATTTAGTTATTACAC
1 GTTATATT-AAAGATTTAATTGTTACAC
** * * *
8891305 ACTATATTGAAAAATGTAGTTGTTATC-C
1 GTTATATT-AAAGATTTAATTGTTA-CAC
* * *
8891333 GTTATATTGAAA-ATTTAGTTATCACAC
1 GTTATATT-AAAGATTTAATTGTTACAC
* * *
8891360 GTTATGTTGAAGATTTAGTTGTTA
1 GTTATATTAAAGATTTAATTGTTA
8891384 TAAGATTTAG
Statistics
Matches: 175, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.02
27 102 0.58
28 68 0.39
29 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (27 bp):
GTTATATTAAAGATTTAATTGTTACAC
Found at i:8891229 original size:55 final size:54
Alignment explanation
Indices: 8891170--8891500 Score: 236
Period size: 55 Copynumber: 5.9 Consensus size: 54
8891160 TGTTACACGT
* * *
8891170 TATATT-AAAGATTTAATTGTTACACGTTATATTAAAAAATATAATTGTTATCCG
1 TATATTGAAA-ATTTAATTATTACACGTTATATTGAAAAATGTAATTGTTATCCG
* * * * *
8891224 CTATATTGAAAATTTAATTGTTATATGTCATATTGAAAAATGTAATTATTA-CACG
1 -TATATTGAAAATTTAATTATTACACGTTATATTGAAAAATGTAATTGTTATC-CG
* * ** *
8891279 TCATGTTGAAAATTTAGTTATTACACACTATATTGAAAAATGTAGTTGTTATCCG
1 T-ATATTGAAAATTTAATTATTACACGTTATATTGAAAAATGTAATTGTTATCCG
* * * * * * *
8891334 TTATATTGAAAATTTAGTTATCACACGTTATGTTGAAGATTTAGTTGTTATAAGATTTAGT-TG
1 -TATATTGAAAATTTAATTATTACACGTTATATTGAA-A---A-ATGTAAT-TG--TTA-TCCG
* *
8891397 TTATACATTGAAAATTTAGTTATTACACGTTATATTGAAAAATATAATTGTTATCCG
1 -TAT--ATTGAAAATTTAATTATTACACGTTATATTGAAAAATGTAATTGTTATCCG
* * * * *
8891454 ATTTATTGAAAATTTAATTATTACATGTCATGTTGAAAAATATAATT
1 -TATATTGAAAATTTAATTATTACACGTTATATTGAAAAATGTAATT
8891501 TTTACATGTC
Statistics
Matches: 220, Mismatches: 39, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
54 2 0.01
55 152 0.69
56 7 0.03
57 6 0.03
59 2 0.01
60 8 0.04
61 2 0.01
63 8 0.04
64 2 0.01
65 31 0.14
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (54 bp):
TATATTGAAAATTTAATTATTACACGTTATATTGAAAAATGTAATTGTTATCCG
Found at i:8891291 original size:82 final size:83
Alignment explanation
Indices: 8891205--8891384 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 83
8891195 GTTATATTAA
* * * * *
8891205 AAAATATAATTGTTATC-CGCTATATTG-AAAATTTAATTGTTATATGTCATATTGAAAAATGTA
1 AAAATTTAGTTGTTATCACACTATATTGAAAAATGTAATTGTTATACGTCATATTG-AAAATGTA
*
8891268 ATTATTACACGTCATGTTG
65 ATTATCACACGTCATGTTG
* * * * * *
8891287 AAAATTTAGTTATTA-CACACTATATTGAAAAATGTAGTTGTTATCCGTTATATTGAAAATTTAG
1 AAAATTTAGTTGTTATCACACTATATTGAAAAATGTAATTGTTATACGTCATATTGAAAATGTAA
*
8891351 TTATCACACGTTATGTTG
66 TTATCACACGTCATGTTG
*
8891369 AAGATTTAGTTGTTAT
1 AAAATTTAGTTGTTAT
8891385 AAGATTTAGT
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 1 0.01
82 57 0.71
83 22 0.28
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.42
Consensus pattern (83 bp):
AAAATTTAGTTGTTATCACACTATATTGAAAAATGTAATTGTTATACGTCATATTGAAAATGTAA
TTATCACACGTCATGTTG
Found at i:8891390 original size:16 final size:16
Alignment explanation
Indices: 8891369--8891401 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8891359 CGTTATGTTG
8891369 AAGATTTAGTTGTTAT
1 AAGATTTAGTTGTTAT
8891385 AAGATTTAGTTGTTAT
1 AAGATTTAGTTGTTAT
8891401 A
1 A
8891402 CATTGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (16 bp):
AAGATTTAGTTGTTAT
Found at i:8891436 original size:27 final size:27
Alignment explanation
Indices: 8891403--8891527 Score: 92
Period size: 28 Copynumber: 4.6 Consensus size: 27
8891393 GTTGTTATAC
*
8891403 ATTGAAAATTTAGTTATTACACGTTAT
1 ATTGAAAATTTAATTATTACACGTTAT
* *
8891430 ATTGAAAAATATAATTGTTATC-CGATT-T
1 ATTG-AAAATTTAATTATTA-CACG-TTAT
* *
8891458 ATTGAAAATTTAATTATTACATGTCAT
1 ATTGAAAATTTAATTATTACACGTTAT
* * * * *
8891485 GTTGAAAAATATAATTTTTACATGTCAT
1 ATTG-AAAATTTAATTATTACACGTTAT
* *
8891513 GTTGAAGATTTAATT
1 ATTGAAAATTTAATT
8891528 GTTATACACC
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
26 2 0.03
27 31 0.39
28 44 0.55
29 3 0.04
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.44
Consensus pattern (27 bp):
ATTGAAAATTTAATTATTACACGTTAT
Found at i:8891499 original size:28 final size:28
Alignment explanation
Indices: 8891462--8891518 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
8891452 CGATTTATTG
*
8891462 AAAATTTAATTATTACATGTCATGTTGA
1 AAAATATAATTATTACATGTCATGTTGA
*
8891490 AAAATATAATTTTTACATGTCATGTTGA
1 AAAATATAATTATTACATGTCATGTTGA
8891518 A
1 A
8891519 GATTTAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (28 bp):
AAAATATAATTATTACATGTCATGTTGA
Found at i:8891598 original size:230 final size:229
Alignment explanation
Indices: 8891180--8891609 Score: 549
Period size: 230 Copynumber: 1.9 Consensus size: 229
8891170 TATATTAAAG
* * *
8891180 ATTTAATTGTTACACGTTATATTAAAAAATATAATTGTTATCCGCTATATTGAAAATTTAATTGT
1 ATTTAATTATTACACGTTATATTAAAAAATATAATTGTTATCCGATATATTGAAAATTTAATTAT
* * * *
8891245 TATATGTCATATTGAAAAATGTAATTATTACACGTCATGTTGAAAATTTAGTTATTACACACTAT
66 TACATGTCATATTGAAAAATATAATTATTACACGTCATGTTGAAAATTTAATTATTACACACCAT
* * * *
8891310 ATTGAAAAATGTAGTTGTTATCCGTTATATTGAAAATTTAGTTATCACACGTTATGTTGAAGATT
131 ATTGAAAAATGTAGTTGTTATACG-TATATTGAAAATATAGTTATCACACGCTATGTTGAAAATT
8891375 TAGTTGTTATAAGATTTAGTTGTTATACATTGAAA
195 TAGTTGTTATAAGATTTAGTTGTTATACATTGAAA
* * *
8891410 ATTTAGTTATTACACGTTATATTGAAAAATATAATTGTTATCCGATTTATTGAAAATTTAATTAT
1 ATTTAATTATTACACGTTATATTAAAAAATATAATTGTTATCCGATATATTGAAAATTTAATTAT
* * * * * *
8891475 TACATGTCATGTTGAAAAATATAATTTTTACATGTCATGTTGAAGATTTAATTGTTATACACCAT
66 TACATGTCATATTGAAAAATATAATTATTACACGTCATGTTGAAAATTTAATTATTACACACCAT
* * * * *****
8891540 GTT-AAAAATTTAGTTGTTATATACG-ATGTTGAAAAATATAGTTGTTGTTTGCTATGTTGAAAA
131 ATTGAAAAATGTAGTTG-T-TATACGTATATTG-AAAATATAGTTATCACACGCTATGTTGAAAA
8891603 TTTAGTT
193 TTTAGTT
8891610 ATTACACGTG
Statistics
Matches: 168, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
229 17 0.10
230 146 0.87
231 5 0.03
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.43
Consensus pattern (229 bp):
ATTTAATTATTACACGTTATATTAAAAAATATAATTGTTATCCGATATATTGAAAATTTAATTAT
TACATGTCATATTGAAAAATATAATTATTACACGTCATGTTGAAAATTTAATTATTACACACCAT
ATTGAAAAATGTAGTTGTTATACGTATATTGAAAATATAGTTATCACACGCTATGTTGAAAATTT
AGTTGTTATAAGATTTAGTTGTTATACATTGAAA
Found at i:8891602 original size:28 final size:28
Alignment explanation
Indices: 8891483--8891585 Score: 86
Period size: 27 Copynumber: 3.8 Consensus size: 28
8891473 ATTACATGTC
* * * *
8891483 ATGTTGAAAAATATAATTTTTACATGTC-
1 ATGTTGAAAAATATAGTTGTTATAT-ACG
* * * * *
8891511 ATGTTG-AAGATTTAATTGTTATACACC
1 ATGTTGAAAAATATAGTTGTTATATACG
*
8891538 ATGTT-AAAAATTTAGTTGTTATATACG
1 ATGTTGAAAAATATAGTTGTTATATACG
8891565 ATGTTGAAAAATATAGTTGTT
1 ATGTTGAAAAATATAGTTGTT
8891586 GTTTGCTATG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.02
27 40 0.66
28 20 0.33
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.43
Consensus pattern (28 bp):
ATGTTGAAAAATATAGTTGTTATATACG
Found at i:8891683 original size:111 final size:111
Alignment explanation
Indices: 8891529--8891729 Score: 244
Period size: 111 Copynumber: 1.8 Consensus size: 111
8891519 GATTTAATTG
* * * * ** *
8891529 TTATACACCATGTTAAAAATTTAGTTGTTATATACGATGTTGAAAAATATAGTTG-TTGTTTGCT
1 TTATACACCATGTTAAAAATTTAATTATTATACACGATATTG-AAAATATAGTTGCTCATATGCT
* *
8891593 ATGTTGAAAATTTAGTTATTACACGTGTATTTTTAAAAATATAGTTA
65 ATGTTAAAAATTTAATTATTACACGTGTATTTTTAAAAATATAGTTA
* * * *
8891640 TTATATACCATGTTAAAGATTTAATTATTATACATC-ATATTGAAAATTTAGTTGCTCATATGTT
1 TTATACACCATGTTAAAAATTTAATTATTATACA-CGATATTGAAAATATAGTTGCTCATATGCT
*
8891704 ATGTTAAAAATTTAATTGTTACACGT
65 ATGTTAAAAATTTAATTATTACACGT
8891730 CATATTGTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
110 11 0.15
111 62 0.84
112 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (111 bp):
TTATACACCATGTTAAAAATTTAATTATTATACACGATATTGAAAATATAGTTGCTCATATGCTA
TGTTAAAAATTTAATTATTACACGTGTATTTTTAAAAATATAGTTA
Found at i:8891762 original size:28 final size:27
Alignment explanation
Indices: 8891710--8891769 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
8891700 TGTTATGTTA
* *
8891710 AAAATTTAATTGTTACACGTCATATTG
1 AAAATATAATTGTTACAAGTCATATTG
8891737 TAAAATATAATTGTTACAAG-CTATATTG
1 -AAAATATAATTGTTACAAGTC-ATATTG
8891765 AAAAT
1 AAAAT
8891770 GTAGCCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (27 bp):
AAAATATAATTGTTACAAGTCATATTG
Found at i:8910459 original size:17 final size:16
Alignment explanation
Indices: 8910439--8910472 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
8910429 CCTCTCTCTC
8910439 TCTTTCTATCTCTCTTT
1 TCTTTCTATCT-TCTTT
*
8910456 TCTTTCTCTCTTCTTT
1 TCTTTCTATCTTCTTT
8910472 T
1 T
8910473 AGTCTCAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (16 bp):
TCTTTCTATCTTCTTT
Found at i:8910776 original size:22 final size:21
Alignment explanation
Indices: 8910743--8910784 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8910733 AACACATGAT
*
8910743 TTTTCTTTGTTTCTTT-TTCCA
1 TTTTCTTGGTTT-TTTCTTCCA
8910764 TTTTCTTGGGTTTTTTCTTCC
1 TTTTCTT-GGTTTTTTCTTCC
8910785 TTGTATAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.02, C:0.19, G:0.10, T:0.69
Consensus pattern (21 bp):
TTTTCTTGGTTTTTTCTTCCA
Found at i:8926314 original size:22 final size:26
Alignment explanation
Indices: 8926274--8926324 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 26
8926264 TCTATAATTA
*
8926274 AATGACTTAATTTTGTTAATTGA-TC
1 AATGACTTAATTTTGTTAATCGATTC
8926299 AATG-CTTAA-TTT-TTAATCGATTC
1 AATGACTTAATTTTGTTAATCGATTC
8926322 AAT
1 AAT
8926325 TAATTTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.29
23 8 0.33
24 5 0.21
25 4 0.17
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (26 bp):
AATGACTTAATTTTGTTAATCGATTC
Found at i:8931919 original size:29 final size:30
Alignment explanation
Indices: 8931882--8931954 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
8931872 TTAAAATATT
*
8931882 TTAAA-TTTTAAATTTTTATTAT-ATTTAA
1 TTAAATTTTTAAATTTTTATTATAAATTAA
*
8931910 TTAAATTTTTATAA-TTTTATTTTAAATTAA
1 TTAAATTTTTA-AATTTTTATTATAAATTAA
* *
8931940 ATAAATTTTTTAATT
1 TTAAATTTTTAAATT
8931955 AATAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 5 0.14
29 15 0.41
30 17 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTAAATTTTTAAATTTTTATTATAAATTAA
Found at i:8931934 original size:21 final size:22
Alignment explanation
Indices: 8931860--8931937 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 22
8931850 TTTAAATAAA
*
8931860 ATTTTAAATTATTTAAAATATTTT
1 ATTTTAAATT-TTTATAATA-TTT
*
8931884 AAATTTTAAATTTTTATTATATTT
1 --ATTTTAAATTTTTATAATATTT
*
8931908 A-ATTAAATTTTTATAAT-TTT
1 ATTTTAAATTTTTATAATATTT
8931928 ATTTTAAATT
1 ATTTTAAATT
8931938 AAATAAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.09
21 21 0.46
22 1 0.02
24 3 0.07
25 7 0.15
26 10 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTAAATTTTTATAATATTT
Found at i:8932257 original size:30 final size:30
Alignment explanation
Indices: 8932209--8932283 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
8932199 TCATCAATTG
* *
8932209 TAAAAGTTTACTTAATTTAAAATAAAAATA
1 TAAAAATTTATTTAATTTAAAATAAAAATA
* *
8932239 TAAAAATTTATTTGATTTAAAATATAAATA
1 TAAAAATTTATTTAATTTAAAATAAAAATA
8932269 TAAAAATTTATTTAA
1 TAAAAATTTATTTAA
8932284 AATTTTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (30 bp):
TAAAAATTTATTTAATTTAAAATAAAAATA
Found at i:8932515 original size:26 final size:21
Alignment explanation
Indices: 8932468--8932510 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
8932458 TAATTTAAGA
8932468 ATAATTAAAATAACATAATAT
1 ATAATTAAAATAACATAATAT
*
8932489 ATAATTAAAATAACCTAATAT
1 ATAATTAAAATAACATAATAT
8932510 A
1 A
8932511 GTATAATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATTAAAATAACATAATAT
Found at i:8940971 original size:2 final size:2
Alignment explanation
Indices: 8940954--8940991 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8940944 AGTACTACTA
* *
8940954 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8940992 GCCTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8947326 original size:2 final size:2
Alignment explanation
Indices: 8947319--8947345 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8947309 ACATACATAC
8947319 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8947346 ATCTTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8951326 original size:23 final size:22
Alignment explanation
Indices: 8951293--8951335 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
8951283 TAGTTTATGA
**
8951293 ATTTTAATATATTATTATTATT
1 ATTTTAATATAACATTATTATT
8951315 ATTTTAATTATAACATTATTA
1 ATTTTAA-TATAACATTATTA
8951336 AAAGGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTAATATAACATTATTATT
Found at i:8963656 original size:2 final size:2
Alignment explanation
Indices: 8963649--8963683 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8963639 AACTTTAAAG
8963649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8963684 AACTTTAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8971048 original size:2 final size:2
Alignment explanation
Indices: 8971041--8971071 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8971031 TCTCTTATCT
8971041 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8971072 TTTGGTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8983598 original size:2 final size:2
Alignment explanation
Indices: 8983591--8983621 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8983581 AGGATGATAA
8983591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8983622 ATCATTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9004421 original size:11 final size:11
Alignment explanation
Indices: 9004405--9004429 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9004395 TTAAATTATT
9004405 TTTTAAAAAAA
1 TTTTAAAAAAA
9004416 TTTTAAAAAAA
1 TTTTAAAAAAA
9004427 TTT
1 TTT
9004430 ATTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:9005938 original size:23 final size:22
Alignment explanation
Indices: 9005887--9005956 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 22
9005877 AAGTGAGTTG
**
9005887 TATTTTGATTAATAATATTAATA
1 TATTTT-ATTAATAATAAAAATA
* *
9005910 -A-ATTATTAATAATAACAAATT
1 TATTTTATTAATAATAA-AAATA
*
9005931 TATTTTATTTATAATAAAAATA
1 TATTTTATTAATAATAAAAATA
9005953 TATT
1 TATT
9005957 AAATATAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
20 10 0.27
21 5 0.14
22 10 0.27
23 12 0.32
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (22 bp):
TATTTTATTAATAATAAAAATA
Found at i:9026724 original size:51 final size:51
Alignment explanation
Indices: 9026644--9026741 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
9026634 CAGAAGAAAC
9026644 TTAGAAGTGCAGGGATATTTCCTACAACGCGTTTTCTAGAATCAAAGCGTG
1 TTAGAAGTGCAGGGATATTTCCTACAACGCGTTTTCTAGAATCAAAGCGTG
*
9026695 TTAGAAGTGCAGGGATATTTCCTATAACGCGTTTTCTAGAATCAAAG
1 TTAGAAGTGCAGGGATATTTCCTACAACGCGTTTTCTAGAATCAAAG
9026742 TGGAGTATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (51 bp):
TTAGAAGTGCAGGGATATTTCCTACAACGCGTTTTCTAGAATCAAAGCGTG
Found at i:9030760 original size:2 final size:2
Alignment explanation
Indices: 9030753--9030779 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9030743 ATACACATTG
9030753 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9030780 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9030784 original size:2 final size:2
Alignment explanation
Indices: 9030779--9030804 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9030769 ATATATATAT
9030779 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
9030805 TTTTAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9041844 original size:21 final size:20
Alignment explanation
Indices: 9041809--9041847 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9041799 TGTATTGAAC
9041809 CAAAAAATAAAATAAAATTA
1 CAAAAAATAAAATAAAATTA
*
9041829 CAAATAATACAAATAAAAT
1 CAAAAAATA-AAATAAAAT
9041848 GTTTGGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
CAAAAAATAAAATAAAATTA
Found at i:9044497 original size:28 final size:27
Alignment explanation
Indices: 9044418--9044501 Score: 132
Period size: 27 Copynumber: 3.1 Consensus size: 27
9044408 ATCGAAATAG
9044418 AAAGAAAGTTGTGACTGTTGGAAATTA
1 AAAGAAAGTTGTGACTGTTGGAAATTA
9044445 AAAGAAAGTTGTGACTGTTGGAAATTA
1 AAAGAAAGTTGTGACTGTTGGAAATTA
* * *
9044472 AAAGAAGGATTGTGTCTGTTGAAAATTA
1 AAAGAAAG-TTGTGACTGTTGGAAATTA
9044500 AA
1 AA
9044502 TCAATAGATA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 34 0.64
28 19 0.36
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.30
Consensus pattern (27 bp):
AAAGAAAGTTGTGACTGTTGGAAATTA
Found at i:9050329 original size:18 final size:19
Alignment explanation
Indices: 9050292--9050331 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
9050282 TCCTTTCAAC
* *
9050292 TTTTTATTTATTTTTTATA
1 TTTTTATTTATGTTTAATA
9050311 TTTTTATTT-TGTTTAATA
1 TTTTTATTTATGTTTAATA
9050329 TTT
1 TTT
9050332 CAAGTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTATTTATGTTTAATA
Found at i:9050649 original size:108 final size:108
Alignment explanation
Indices: 9050530--9050739 Score: 312
Period size: 108 Copynumber: 1.9 Consensus size: 108
9050520 TATAAAAAAT
* * *
9050530 TTTGAGTAAATTTAAATAAAAGGTAAATTGGGTAAGAGTTAAATAATTGTAAAAGAATATGTATT
1 TTTGAATAAATTTAAATAAAAGGTAAATTGAGTAAGAGTTAAATAATTGTAAAAAAATATGTATT
* * * * *
9050595 TGTAAATTGTGAAAGTTGTAACTAAATCAACATATTTTTCTAA
66 TGTAAATTATAAAAATTATAACCAAATCAACATATTTTTCTAA
* * * *
9050638 TTTGAATAAATTTAAATAAAATGTTAATTGAGTAAGAGTTGAATAATTTTAAAAAAATATGTATT
1 TTTGAATAAATTTAAATAAAAGGTAAATTGAGTAAGAGTTAAATAATTGTAAAAAAATATGTATT
9050703 TGTAAATTATAAAAATTATAACCAAATCAACATATTT
66 TGTAAATTATAAAAATTATAACCAAATCAACATATTT
9050740 AATTATTTGT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 90 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (108 bp):
TTTGAATAAATTTAAATAAAAGGTAAATTGAGTAAGAGTTAAATAATTGTAAAAAAATATGTATT
TGTAAATTATAAAAATTATAACCAAATCAACATATTTTTCTAA
Found at i:9055361 original size:143 final size:142
Alignment explanation
Indices: 9055158--9055424 Score: 320
Period size: 143 Copynumber: 1.9 Consensus size: 142
9055148 CTCCAAAGAG
* * * ** *
9055158 AACAAAAGTTTTTCAATCAGCCTACATCGACTGTTTCGAATCAATCACCCTTGTTTAAATTACGA
1 AACAAAAGTTTTTCAATCAGCCTACATCCACTGTTTCCAATCAATCAACCAAGTTCAAATTACGA
* *
9055223 TCGA-TTATTTCGATTTTTTTTTGTGATAAATCATTGTTGGTTACATTAAATAGAGGGTTGGTCA
66 TC-ACTTATTTCGATTTTTTTTTGTGATAAATCATTGTAGATTACATTAAATA-AGGGTTGGTCA
9055287 ATTCCACAGCGTTT
129 ATTCCACAGCGTTT
* * * * * * *
9055301 AACAAAAGTTTTTCAATCAGTCTATATCCATTGTTTCCAGTCAATCAAGCAAGTTCAAATTTCTA
1 AACAAAAGTTTTTCAATCAGCCTACATCCACTGTTTCCAATCAATCAACCAAGTTCAAATTACGA
* * ** * *
9055366 TCACTTATTTTGATTTTTTTTTTTGATACGTCGTTGTAGATTTCATTAAATAAGGGTTG
66 TCACTTATTTCGATTTTTTTTTGTGATAAATCATTGTAGATTACATTAAATAAGGGTTG
9055425 CTCTCTTTAA
Statistics
Matches: 102, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
142 8 0.08
143 94 0.92
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (142 bp):
AACAAAAGTTTTTCAATCAGCCTACATCCACTGTTTCCAATCAATCAACCAAGTTCAAATTACGA
TCACTTATTTCGATTTTTTTTTGTGATAAATCATTGTAGATTACATTAAATAAGGGTTGGTCAAT
TCCACAGCGTTT
Found at i:9070974 original size:26 final size:26
Alignment explanation
Indices: 9070938--9070988 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9070928 TTACGACATT
* *
9070938 CATCCACTTTTTGTGGTAAAATTATC
1 CATCCACTTTTAGTGATAAAATTATC
*
9070964 CATCCATTTTTAGTGATAAAATTAT
1 CATCCACTTTTAGTGATAAAATTAT
9070989 AATTAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (26 bp):
CATCCACTTTTAGTGATAAAATTATC
Found at i:9073065 original size:75 final size:75
Alignment explanation
Indices: 9072934--9073127 Score: 307
Period size: 75 Copynumber: 2.6 Consensus size: 75
9072924 TGCCAACCGG
* * *
9072934 AACCACCCACAGCACTGATCAAGCCATGGCATACAACCAGACGGACCGGCTTCGTGACCAAACCG
1 AACCTCCCACAGCACTGATCAAGCCATGGCATACAACCAGACGGAACGGCTCCGTGACCAAACCG
9072999 TTTCCACTGT
66 TTTCCACTGT
* * *
9073009 AACCTCCCACAGCACTGATCAAGCCATGGCATACAACCAGACGGAAGGGCTCCGTGACCAACCCT
1 AACCTCCCACAGCACTGATCAAGCCATGGCATACAACCAGACGGAACGGCTCCGTGACCAAACCG
*
9073074 TTTCCGCTGT
66 TTTCCACTGT
* *
9073084 AACCTCCCACAGCATTGATCAGGCCATGGCATACAACCAGACGG
1 AACCTCCCACAGCACTGATCAAGCCATGGCATACAACCAGACGG
9073128 GAAGACTCAA
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 110 1.00
ACGTcount: A:0.29, C:0.36, G:0.20, T:0.16
Consensus pattern (75 bp):
AACCTCCCACAGCACTGATCAAGCCATGGCATACAACCAGACGGAACGGCTCCGTGACCAAACCG
TTTCCACTGT
Found at i:9079371 original size:7 final size:7
Alignment explanation
Indices: 9079355--9079389 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
9079345 TTAAAATATT
9079355 TTTTTTA
1 TTTTTTA
*
9079362 TTTTTCA
1 TTTTTTA
9079369 TTTTTTTA
1 -TTTTTTA
9079377 TTTTTTA
1 TTTTTTA
9079384 TTTTTT
1 TTTTTT
9079390 CAAATCGACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:9079374 original size:15 final size:15
Alignment explanation
Indices: 9079354--9079389 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
9079344 TTTAAAATAT
9079354 TTTTTTTATTTTTCA
1 TTTTTTTATTTTTCA
*
9079369 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTCA
9079384 TTTTTT
1 TTTTTT
9079390 CAAATCGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTTATTTTTCA
Found at i:9094845 original size:24 final size:24
Alignment explanation
Indices: 9094801--9094846 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
9094791 TGTTGGAGGT
**
9094801 GGTGGTGGTGGTGGTGATGATGAA
1 GGTGGTGGTGGTGAAGATGATGAA
9094825 GGTGGTGGTGG-GAAGACTGATG
1 GGTGGTGGTGGTGAAGA-TGATG
9094847 GTGGGGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.17, C:0.02, G:0.54, T:0.26
Consensus pattern (24 bp):
GGTGGTGGTGGTGAAGATGATGAA
Found at i:9094849 original size:21 final size:21
Alignment explanation
Indices: 9094803--9094850 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9094793 TTGGAGGTGG
*
9094803 TGGTGGTGGTGGTGATGATGA
1 TGGTGGTGGTGGTGAAGATGA
*
9094824 AGGTGGTGGTGG-GAAGACTGA
1 TGGTGGTGGTGGTGAAGA-TGA
9094845 TGGTGG
1 TGGTGG
9094851 GGTTCTGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.17, C:0.02, G:0.54, T:0.27
Consensus pattern (21 bp):
TGGTGGTGGTGGTGAAGATGA
Found at i:9094886 original size:18 final size:18
Alignment explanation
Indices: 9094863--9094905 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9094853 TTCTGTAGAA
*
9094863 TTGTTGCTACTGTTGTTG
1 TTGTTGCTACTGTTGCTG
*
9094881 TTGTTGCTGCTGTTGCTG
1 TTGTTGCTACTGTTGCTG
9094899 -TGTTGCT
1 TTGTTGCT
9094906 TTGCTTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.02, C:0.14, G:0.30, T:0.53
Consensus pattern (18 bp):
TTGTTGCTACTGTTGCTG
Found at i:9094894 original size:9 final size:9
Alignment explanation
Indices: 9094864--9094905 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
9094854 TCTGTAGAAT
*
9094864 TGTTGCTAC
1 TGTTGCTGC
* *
9094873 TGTTGTTGT
1 TGTTGCTGC
9094882 TGTTGCTGC
1 TGTTGCTGC
9094891 TGTTGCTG-
1 TGTTGCTGC
9094899 TGTTGCT
1 TGTTGCT
9094906 TTGCTTGTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.02, C:0.14, G:0.31, T:0.52
Consensus pattern (9 bp):
TGTTGCTGC
Found at i:9094914 original size:12 final size:13
Alignment explanation
Indices: 9094888--9094921 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
9094878 TTGTTGTTGC
9094888 TGCTGTTGCTGTGT
1 TGCT-TTGCTGTGT
9094902 TGCTTTGCT-TGT
1 TGCTTTGCTGTGT
9094914 TGCTTTGC
1 TGCTTTGC
9094922 AAATCTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.55
13 5 0.25
14 4 0.20
ACGTcount: A:0.00, C:0.18, G:0.29, T:0.53
Consensus pattern (13 bp):
TGCTTTGCTGTGT
Found at i:9096490 original size:83 final size:83
Alignment explanation
Indices: 9096321--9096520 Score: 240
Period size: 83 Copynumber: 2.4 Consensus size: 83
9096311 CTAAAATTAG
* * * *
9096321 AATCGAATCAACTGAATAATTCATCATTTAGAGATAGATGGCGTATTTTCCTATTACTATATTTT
1 AATCGAATCAACTGAATAATTCATCATTTAGAGATAGATAGAGTATTTTCCTATTACTATACTCT
*
9096386 GAAGATCATATAAAAACT
66 GAAGATCATATAAAAAAT
* * * *
9096404 AATCAAATCAACCGAATAATTCATCATTTAGAGATATATAGAGTATTTTTCTATTACTAT-CTCT
1 AATCGAATCAACTGAATAATTCATCATTTAGAGATAGATAGAGTATTTTCCTATTACTATACTCT
* * *
9096468 GGAGTTTATATACAAAAAT
66 GAAGATCATATA-AAAAAT
* * **
9096487 AATCGAATTAATTGAATAATTCATTTTTTAGAGA
1 AATCGAATCAACTGAATAATTCATCATTTAGAGA
9096521 CGAACGAAGT
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
82 11 0.11
83 87 0.89
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.38
Consensus pattern (83 bp):
AATCGAATCAACTGAATAATTCATCATTTAGAGATAGATAGAGTATTTTCCTATTACTATACTCT
GAAGATCATATAAAAAAT
Found at i:9097703 original size:7 final size:7
Alignment explanation
Indices: 9097691--9097716 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9097681 CCATGAGCCT
9097691 CCTCCTC
1 CCTCCTC
9097698 CCTCCTC
1 CCTCCTC
9097705 CCTCCTC
1 CCTCCTC
9097712 CCTCC
1 CCTCC
9097717 ATCACTGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (7 bp):
CCTCCTC
Found at i:9099276 original size:23 final size:22
Alignment explanation
Indices: 9099233--9099277 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
9099223 ACATCCGAAA
* *
9099233 AATGGAAATATTGATTCTTATT
1 AATGGAAATATTGAATATTATT
9099255 AATGGAAAATATTGAATATTATT
1 AATGG-AAATATTGAATATTATT
9099278 TGAAATATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (22 bp):
AATGGAAATATTGAATATTATT
Found at i:9102427 original size:19 final size:20
Alignment explanation
Indices: 9102392--9102429 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9102382 TTTTAAAAAG
9102392 AAAGAATTTGAAAATGATAA
1 AAAGAATTTGAAAATGATAA
*
9102412 AAAGAATTT-TAAATGATA
1 AAAGAATTTGAAAATGATA
9102430 TCGTGAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
AAAGAATTTGAAAATGATAA
Found at i:9108050 original size:51 final size:51
Alignment explanation
Indices: 9107991--9108111 Score: 188
Period size: 51 Copynumber: 2.4 Consensus size: 51
9107981 GAAAGTGTTT
*
9107991 CATTGGTGGTTGTTGATGTGGTCTACTTTTTTGCTGATAACTATAGTTTTA
1 CATTGGTGGTTGTTGATGTGGTCTACCTTTTTGCTGATAACTATAGTTTTA
* * *
9108042 CATTGGTGGTTGTTGATGTGGTCTACCTTTTTGCTGATGACTATGGTTTTG
1 CATTGGTGGTTGTTGATGTGGTCTACCTTTTTGCTGATAACTATAGTTTTA
* *
9108093 CATTGGTGATTGTTAATGT
1 CATTGGTGGTTGTTGATGT
9108112 TCTATATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.48
Consensus pattern (51 bp):
CATTGGTGGTTGTTGATGTGGTCTACCTTTTTGCTGATAACTATAGTTTTA
Found at i:9111847 original size:30 final size:30
Alignment explanation
Indices: 9111813--9111915 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 30
9111803 AATACCTTCG
9111813 TAATAGAAATCGACAAAAATAACTCTATAT
1 TAATAGAAATCGACAAAAATAACTCTATAT
* * * *
9111843 TAATATAAATCGACAAAAAACAACTTTAAAT
1 TAATAGAAATCGAC-AAAAATAACTCTATAT
*
9111874 TAATAGAAATCGAC-AAAATGAACTCCATAT
1 TAATAGAAATCGACAAAAAT-AACTCTATAT
*
9111904 TTATAG-AATCGA
1 TAATAGAAATCGA
9111916 AGAAGAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
29 10 0.16
30 25 0.41
31 26 0.43
ACGTcount: A:0.52, C:0.14, G:0.08, T:0.26
Consensus pattern (30 bp):
TAATAGAAATCGACAAAAATAACTCTATAT
Found at i:9111985 original size:96 final size:96
Alignment explanation
Indices: 9111863--9112056 Score: 316
Period size: 96 Copynumber: 2.0 Consensus size: 96
9111853 CGACAAAAAA
** *
9111863 CAACTTTAAATTAATAGAAATCGACAAAATGAACTCCATATTTATAGAATCGAAGAAGAAAAAGA
1 CAACTTTAAATTAATAGAAATCGACAAAACAAACTCCATATTAATAGAATCGAAGAAGAAAAAGA
*
9111928 TAATATAAACAGGAAAATACATAATTACATG
66 TAATATAAACAGGAAAAAACATAATTACATG
* * *
9111959 CAACTTTAGATTAATAGAAATTGACAAAACAAACTCCATATTAATAGAGTCGAAGAAGAAAAAGA
1 CAACTTTAAATTAATAGAAATCGACAAAACAAACTCCATATTAATAGAATCGAAGAAGAAAAAGA
*
9112024 TAATATAAAGAGGAAAAAACATAATTACATG
66 TAATATAAACAGGAAAAAACATAATTACATG
9112055 CA
1 CA
9112057 TAGTGATGTA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 90 1.00
ACGTcount: A:0.54, C:0.11, G:0.12, T:0.23
Consensus pattern (96 bp):
CAACTTTAAATTAATAGAAATCGACAAAACAAACTCCATATTAATAGAATCGAAGAAGAAAAAGA
TAATATAAACAGGAAAAAACATAATTACATG
Found at i:9114965 original size:11 final size:11
Alignment explanation
Indices: 9114949--9114983 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
9114939 TAATGTAATC
9114949 AAATTTATAAA
1 AAATTTATAAA
*
9114960 AAATTTATTAA
1 AAATTTATAAA
*
9114971 AAATTTACAAA
1 AAATTTATAAA
9114982 AA
1 AA
9114984 TTATTGCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATTTATAAA
Found at i:9118833 original size:2 final size:2
Alignment explanation
Indices: 9118826--9118874 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
9118816 ATTCCATTAT
*
9118826 TA TA TA TA -A TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9118867 TA TA TA TA
1 TA TA TA TA
9118875 GATAGATGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9132121 original size:32 final size:30
Alignment explanation
Indices: 9132061--9132121 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
9132051 TAGATACTCA
*
9132061 TAAATATAATAAATAAAAAAATACATGATG
1 TAAATATAATAAATAAAAAAATAAATGATG
* *
9132091 TAAATATAATTATTATAAAAAATGAAATGAT
1 TAAATATAATAAATA-AAAAAAT-AAATGAT
9132122 TATTTTGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 13 0.50
31 7 0.27
32 6 0.23
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (30 bp):
TAAATATAATAAATAAAAAAATAAATGATG
Found at i:9132545 original size:7 final size:7
Alignment explanation
Indices: 9132503--9132539 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
9132493 AAGCTTTAAA
9132503 AAATAAT
1 AAATAAT
9132510 AAATAATT
1 AAATAA-T
9132518 AAATAAT
1 AAATAAT
9132525 -AATAAT
1 AAATAAT
9132531 AAATAAT
1 AAATAAT
9132538 AA
1 AA
9132540 TAAATATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.21
7 15 0.54
8 7 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAATAAT
Done.