Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 282 of 290
Found at i:90271596 original size:14 final size:14
Alignment explanation
Indices: 90271557--90271604 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
90271547 ATAGTTAACT
90271557 CATAAACCTTAAACC
1 CATAAACCTTAAA-C
* *
90271572 CATATAGCTTAAAC
1 CATAAACCTTAAAC
90271586 CATAAACCTTAAAC
1 CATAAACCTTAAAC
*
90271600 TATAA
1 CATAA
90271605 TGATAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (14 bp):
CATAAACCTTAAAC
Found at i:90272073 original size:41 final size:41
Alignment explanation
Indices: 90272016--90272378 Score: 462
Period size: 41 Copynumber: 8.9 Consensus size: 41
90272006 GTTATATGAC
*
90272016 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGGT
*
90272057 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGGT
* * *
90272098 TTTTAGCGGCCTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGGT
* * * * *
90272139 TTTTAACGGCGTTTTACCAAAAGCGCCGCTAATACACCGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGGT
* * **
90272180 TTCTAGCGGCGTTTTACCAAAAGCGCTGCTATTGCTTTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGGT
* *
90272221 TTCTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGG-
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGGT
* * * * *
90272261 CTTTAGCAGCGTTTTACCAAAAACGCCGCTATTG-TTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGGT
* * * *
90272301 TTTTAGCGGCATTTTAACAAAAAACGCCGCTATTGCT-CTGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCCGGT
*
90272342 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC
90272379 TATGTTTTAT
Statistics
Matches: 286, Mismatches: 32, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 62 0.22
41 221 0.77
42 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGGT
Found at i:90272625 original size:50 final size:51
Alignment explanation
Indices: 90272550--90272651 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
90272540 TCATTGATGT
90272550 GTATTCAGTATATGAGTGT-AAAAAAAATCCCCATACATTGTTTACAATCG
1 GTATTCAGTATATGAGTGTAAAAAAAAATCCCCATACATTGTTTACAATCG
90272600 GTATTCAGTATATGAGTGTAAAAAAAAATCCCCATACATTGTTTACAATCG
1 GTATTCAGTATATGAGTGTAAAAAAAAATCCCCATACATTGTTTACAATCG
90272651 G
1 G
90272652 CTTTATATAG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 19 0.37
51 32 0.63
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (51 bp):
GTATTCAGTATATGAGTGTAAAAAAAAATCCCCATACATTGTTTACAATCG
Found at i:90276498 original size:12 final size:13
Alignment explanation
Indices: 90276480--90276534 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
90276470 TAAAAATATG
90276480 ATATTTAATAATA
1 ATATTTAATAATA
90276493 AT-TTTAA-AATA
1 ATATTTAATAATA
* *
90276504 GTATTTAATATACA
1 ATATTTAATA-ATA
*
90276518 ATATATAATATATA
1 ATATTTAATA-ATA
90276532 ATA
1 ATA
90276535 ACAACAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 5 0.15
12 10 0.29
13 3 0.09
14 16 0.47
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:90276581 original size:17 final size:19
Alignment explanation
Indices: 90276525--90276582 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 19
90276515 ACAATATATA
*
90276525 ATATATAATAACAACAAAT
1 ATATAAAATAACAACAAAT
* * * *
90276544 -TATAAAAGAATAATAATT
1 ATATAAAATAACAACAAAT
90276562 ATATAAAATAA-AA-AAAT
1 ATATAAAATAACAACAAAT
90276579 ATAT
1 ATAT
90276583 TGGTTTTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 7 0.23
18 15 0.48
19 9 0.29
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (19 bp):
ATATAAAATAACAACAAAT
Found at i:90276832 original size:16 final size:16
Alignment explanation
Indices: 90276800--90276871 Score: 64
Period size: 16 Copynumber: 4.8 Consensus size: 16
90276790 CAATATAATG
*
90276800 AATAATATAAAACATA
1 AATAATATAATACATA
*
90276816 AATAATATAATAGATA
1 AATAATATAATACATA
*
90276832 ATATACTAT-ATACAT-
1 A-ATAATATAATACATA
*
90276847 AAT-ATAGAATA-A-A
1 AATAATATAATACATA
90276860 AATAATATAATA
1 AATAATATAATA
90276872 AGTAATATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 6 0.13
14 12 0.27
15 1 0.02
16 20 0.44
17 6 0.13
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATATAATACATA
Found at i:90276881 original size:14 final size:13
Alignment explanation
Indices: 90276792--90276891 Score: 69
Period size: 14 Copynumber: 7.1 Consensus size: 13
90276782 ATTATAAACA
90276792 ATATAATGAATAAT
1 ATATAAT-AATAAT
90276806 ATA-AA-ACATAAAT
1 ATATAATA-AT-AAT
90276819 AATATAATAGATAAT
1 -ATATAATA-ATAAT
90276834 ATACTATATACATAAT
1 ATA-TA-ATA-ATAAT
* *
90276850 ATAGAATAAAAAT
1 ATATAATAATAAT
90276863 AATATAATAAGTAAT
1 -ATATAATAA-TAAT
*
90276878 ATATAATAAAAAT
1 ATATAATAATAAT
90276891 A
1 A
90276892 AAAAATATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
11 1 0.01
12 2 0.03
13 13 0.19
14 29 0.41
15 11 0.16
16 14 0.20
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:90277000 original size:26 final size:24
Alignment explanation
Indices: 90276968--90277031 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
90276958 AAATAAAAAA
90276968 TTTTAATATAAATATATAAATAGTAT
1 TTTTAATATAAATATATAAATAG--T
**
90276994 TTTTAATA-ATAATATATGTATAGT
1 TTTTAATATA-AATATATAAATAGT
*
90277018 TTTTAAAATAAATA
1 TTTTAATATAAATA
90277032 AATTATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 12 0.36
25 2 0.06
26 19 0.58
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (24 bp):
TTTTAATATAAATATATAAATAGT
Found at i:90277008 original size:24 final size:23
Alignment explanation
Indices: 90276977--90277034 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
90276967 ATTTTAATAT
90276977 AAAT-ATATAAATAGTA-TTTTTA
1 AAATAATATAAATA-TAGTTTTTA
**
90276999 ATAATAATATATGTATAGTTTTTA
1 A-AATAATATAAATATAGTTTTTA
90277023 AAATAA-ATAAAT
1 AAATAATATAAAT
90277035 TATATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
22 5 0.17
23 10 0.34
24 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (23 bp):
AAATAATATAAATATAGTTTTTA
Found at i:90278619 original size:87 final size:88
Alignment explanation
Indices: 90278474--90278958 Score: 279
Period size: 87 Copynumber: 5.5 Consensus size: 88
90278464 CCCTGACAAT
* * * ** *
90278474 ACAAAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACA-CGTGAAAGCCAAATCTGCTATG
1 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAAGTCAAATCTGCTATG
90278538 TCTTCGATTTGT-TCCTTATAAAC
65 TCTTCGATTTGTCTCCTTATAAAC
* * *
90278561 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG-
1 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTCAAATCTGCTATGT
* * ** *
90278625 --T-G-TCTGCTCTCCGT-CGAAT
66 CTTCGATTTG-TCTCCTTATAAAC
** * * * ** *
90278644 A-TGGAGACGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAAAACATCTGAAAGTCAAATCT
1 ACAAG-GATGCCAAATC----ATCTTGGATCTGCTTCAGTAT--AAACATCTGAAAGTCAAATCT
** *
90278708 GCTATGTCTTCGATTT-TCTTTTTGTAAAC
59 GCTATGTCTTCGATTTGTCTCCTTATAAAC
* * * *
90278737 ACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG-
1 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTCAAATCTGCTATGT
* * **
90278801 --T-G-TCTGCTCTCCGTCGAAA-
66 CTTCGATTTG-TCTCCTTATAAAC
*** * ** * *
90278820 TGGA-GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTG
1 ACAAGGATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAAGTCAAATCTG
* *
90278884 CTATGTCTTTGATTTG-CTCCTTGTAAAC
60 CTATGTCTTCGATTTGTCTCCTTATAAAC
* * *
90278912 ACAAGAATGCCAAATCATCTTGGATCTACTTTAGTAT-AACATCTGAA
1 ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAA
90278959 GGTTAGACCT
Statistics
Matches: 291, Mismatches: 75, Indels: 65
0.68 0.17 0.15
Matches are distributed among these distances:
82 15 0.05
83 16 0.05
84 13 0.04
86 27 0.09
87 95 0.33
88 23 0.08
89 59 0.20
91 9 0.03
92 7 0.02
93 24 0.08
94 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (88 bp):
ACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTCAAATCTGCTATGT
CTTCGATTTGTCTCCTTATAAAC
Found at i:90278917 original size:175 final size:176
Alignment explanation
Indices: 90278519--90278974 Score: 763
Period size: 175 Copynumber: 2.6 Consensus size: 176
90278509 GTAAACACGT
* * * *
90278519 GAAAGCCAAATCTGCTATGTCTTCGATTTGTTCCTTATAAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
90278584 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGA
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGA
*
90278649 GACGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAAAACATCT
131 GACGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAAAACATCC
* **
90278695 GAAAGTCAAATCTGCTATGTCTTCGATTTTCTTTTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
90278760 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAA-ATGGA
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGA
* * *
90278824 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 GACGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAAAACATCC
*
90278870 GAAAGTCAAATCTGCTATGTCTTTGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * *
90278935 ATCTACTTTAGTAT-AACATCTGAAGGTTAGACCTGCTATG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG
90278975 CTTTGGTCTG
Statistics
Matches: 262, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
174 25 0.10
175 120 0.46
176 117 0.45
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (176 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGA
GACGCCAGATCTGTTATCTTAGATCTGCTTTGGTGTGAAAACATCC
Found at i:90287099 original size:14 final size:16
Alignment explanation
Indices: 90287068--90287100 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
90287058 TAATGCAATA
90287068 AAATGCTATGAGATGC
1 AAATGCTATGAGATGC
90287084 AAATGC-ATGA-ATGC
1 AAATGCTATGAGATGC
90287098 AAA
1 AAA
90287101 AAGTACATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.21
Consensus pattern (16 bp):
AAATGCTATGAGATGC
Found at i:90290921 original size:12 final size:13
Alignment explanation
Indices: 90290903--90290957 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
90290893 TAAAAATATG
90290903 ATATTTAATAATA
1 ATATTTAATAATA
90290916 AT-TTTAA-AATA
1 ATATTTAATAATA
* *
90290927 GTATTTAATATACA
1 ATATTTAATA-ATA
*
90290941 ATATATAATATATA
1 ATATTTAATA-ATA
90290955 ATA
1 ATA
90290958 ACAAAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 5 0.15
12 10 0.29
13 3 0.09
14 16 0.47
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:90291294 original size:14 final size:13
Alignment explanation
Indices: 90291205--90291304 Score: 60
Period size: 14 Copynumber: 7.1 Consensus size: 13
90291195 ATTATAAACA
90291205 ATATAATGAATAAT
1 ATATAAT-AATAAT
90291219 ATA-AA-ACATAAAT
1 ATATAATA-AT-AAT
90291232 AATATAATAGATAAT
1 -ATATAATA-ATAAT
*
90291247 ATACGATATACATAAT
1 ATA-TA-ATA-ATAAT
* *
90291263 ATAGAATAAAAAT
1 ATATAATAATAAT
90291276 AATATAATAAGTAAT
1 -ATATAATAA-TAAT
*
90291291 ATATAATAAAAAT
1 ATATAATAATAAT
90291304 A
1 A
90291305 AAAAATATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
11 1 0.01
12 2 0.03
13 13 0.19
14 29 0.41
15 11 0.16
16 14 0.20
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:90291402 original size:26 final size:26
Alignment explanation
Indices: 90291344--90291405 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
90291334 TATAGGAAAG
90291344 TAATATGATAAATAAAATTTTTTAATA
1 TAATAT-ATAAATAAAATTTTTTAATA
**
90291371 TAAATATATAAATAGTA-TTTTTAATAA
1 T-AATATATAAATAAAATTTTTTAAT-A
90291398 TAATATAT
1 TAATATAT
90291406 GTATAGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 15 0.48
27 11 0.35
28 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (26 bp):
TAATATATAAATAAAATTTTTTAATA
Found at i:90291415 original size:24 final size:25
Alignment explanation
Indices: 90291344--90291423 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 25
90291334 TATAGGAAAG
*
90291344 TAATATGATAAATAAAATTTTTTAAT-A
1 TAATAT-ATAAAT-AGA-TTTTTAATAA
90291371 TAAATATATAAATAGTATTTTTAATAA
1 T-AATATATAAATAG-ATTTTTAATAA
**
90291398 TAATATATGTATAG-TTTTTAA-AA
1 TAATATATAAATAGATTTTTAATAA
90291421 TAA
1 TAA
90291424 ATAAGTTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
23 5 0.11
24 7 0.15
26 20 0.43
27 10 0.21
28 5 0.11
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (25 bp):
TAATATATAAATAGATTTTTAATAA
Found at i:90291426 original size:24 final size:25
Alignment explanation
Indices: 90291362--90291426 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
90291352 TAAATAAAAT
*
90291362 TTTTTAATATAAATATATAAATAGTA
1 TTTTTAAAATAAATATATAAATAG-A
**
90291388 TTTTTAATAAT-AATATATGTATAG-
1 TTTTTAA-AATAAATATATAAATAGA
90291412 TTTTTAAAATAAATA
1 TTTTTAAAATAAATA
90291427 AGTTATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 3 0.09
24 11 0.32
26 18 0.53
27 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (25 bp):
TTTTTAAAATAAATATATAAATAGA
Found at i:90291433 original size:23 final size:24
Alignment explanation
Indices: 90291362--90291429 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
90291352 TAAATAAAAT
* *
90291362 TTTTTAATATAAATATATAAATAGTA-
1 TTTTTAATA-ATA-ATATAAGTA-TAG
*
90291388 TTTTTAATAATAATATATGTATAG
1 TTTTTAATAATAATATAAGTATAG
90291412 TTTTTAA-AATAA-ATAAGT
1 TTTTTAATAATAATATAAGT
90291430 TATATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
22 5 0.14
23 7 0.19
24 14 0.38
25 2 0.05
26 9 0.24
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
TTTTTAATAATAATATAAGTATAG
Found at i:90294248 original size:12 final size:12
Alignment explanation
Indices: 90294233--90294257 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90294223 AAAGAACCAG
90294233 AAAAGAAAGAAA
1 AAAAGAAAGAAA
90294245 AAAAGAAAGAAA
1 AAAAGAAAGAAA
90294257 A
1 A
90294258 GAGAGAAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAGAAAGAAA
Found at i:90294255 original size:21 final size:22
Alignment explanation
Indices: 90294221--90294264 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
90294211 AAGAGGAAAG
90294221 AAAAAGAACCAGAAAAGAAAGAA
1 AAAAAGAA-CAGAAAAGAAAGAA
*
90294244 AAAAAGAA-AGAAAAGAGAGAA
1 AAAAAGAACAGAAAAGAAAGAA
90294265 GAGGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAGAACAGAAAAGAAAGAA
Found at i:90324393 original size:39 final size:40
Alignment explanation
Indices: 90324321--90324396 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
90324311 AATGGTTTTC
* *
90324321 TATATTGTAGGAAGTTAGAGGACGAATAAGAGTAGTAGTT
1 TATATTATAGGAAGTTAGAGGACAAATAAGAGTAGTAGTT
* *
90324361 TATATTATAGGAAG-TAGAGGGCAAATAGGAGTAGTA
1 TATATTATAGGAAGTTAGAGGACAAATAAGAGTAGTA
90324397 CCACAAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 19 0.59
40 13 0.41
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.28
Consensus pattern (40 bp):
TATATTATAGGAAGTTAGAGGACAAATAAGAGTAGTAGTT
Found at i:90325966 original size:46 final size:45
Alignment explanation
Indices: 90325897--90326070 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
90325887 GTAACCCGCC
*
90325897 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
90325942 CCGTAAGTAAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * **
90325992 -CTCA-CGAACTCGGACTCAACCCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
90326035 CCATAAGTGAACTCGGACTCAACTCAGCGAGTTCGG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
90326071 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 56 0.54
47 25 0.24
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:90326017 original size:93 final size:93
Alignment explanation
Indices: 90325904--90326074 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
90325894 GCCCCTAAGT
* ** *
90325904 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCGTAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACCCAACGAGCTCGAACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
90325969 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
90325997 GAACTCGGACTCAACCCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAG
1 GAACTCGGACTCAACCCAACGAGCTCGAACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
90326062 CGAGTTCGGATGC
66 CGAGTTCGGATGC
90326075 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACCCAACGAGCTCGAACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90332338 original size:26 final size:26
Alignment explanation
Indices: 90332263--90332339 Score: 75
Period size: 27 Copynumber: 2.9 Consensus size: 26
90332253 ACATATTTTC
*
90332263 TCAAAATTTTACTAAGAATAAAATCA
1 TCAAAATTTTACTAAGGATAAAATCA
* * * *
90332289 TCAAAAAATTTA-TCGAGGGTAAAATCG
1 TC-AAAATTTTACT-AAGGATAAAATCA
*
90332316 TCAAAATTTTACTAAGGACAAAAT
1 TCAAAATTTTACTAAGGATAAAAT
90332340 AGAGATGAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
26 19 0.49
27 20 0.51
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (26 bp):
TCAAAATTTTACTAAGGATAAAATCA
Found at i:90338619 original size:25 final size:25
Alignment explanation
Indices: 90338585--90338636 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
90338575 CTTGAATAAA
90338585 CACTTCTCCATTTCCAGCAATTTAT
1 CACTTCTCCATTTCCAGCAATTTAT
90338610 CACTTCTCCATTTCCAGCAATTTAT
1 CACTTCTCCATTTCCAGCAATTTAT
90338635 CA
1 CA
90338637 TTCACACTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.38
Consensus pattern (25 bp):
CACTTCTCCATTTCCAGCAATTTAT
Found at i:90357838 original size:38 final size:38
Alignment explanation
Indices: 90357779--90357898 Score: 143
Period size: 38 Copynumber: 3.1 Consensus size: 38
90357769 ATTTGATGTG
* *
90357779 TATCCGGGCTTAAAGACCCGCAGGCTTTATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTTATGCTGGTATTA
* * **
90357819 TATCCGTGTTAAATCCCGCAGGATTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTTATGCTGGTATTA
*
90357857 TATCCGGGTTAAATCCCGCAGGC-CTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTTA-TGCTGGTATTA
90357895 TATC
1 TATC
90357899 TGAGTTTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
38 56 0.82
39 5 0.07
40 7 0.10
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTTATGCTGGTATTA
Found at i:90364225 original size:40 final size:37
Alignment explanation
Indices: 90364097--90364233 Score: 139
Period size: 38 Copynumber: 3.6 Consensus size: 37
90364087 TAAAGACCCA
** * *
90364097 CAGGCTTTATGCTGGAATTATATCCGTGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATAT-CGAGTTAAATCCCG
* *
90364135 CAGGCTTCGTGCTGATATTATATCCAGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCGA-GTTAAATCCCG
* *
90364173 CAGGCCTAGTGCTGGTATTATATCTGAGTTTAAAGTCCCG
1 CAGGCTTCGTGCTGGTATTATATC-GAG-TTAAA-TCCCG
* *
90364213 TAGGCTTCGTGCTGGTGTTAT
1 CAGGCTTCGTGCTGGTATTAT
90364234 GTTCGGGTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
37 1 0.01
38 52 0.64
39 6 0.07
40 22 0.27
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.34
Consensus pattern (37 bp):
CAGGCTTCGTGCTGGTATTATATCGAGTTAAATCCCG
Found at i:90374958 original size:68 final size:71
Alignment explanation
Indices: 90374862--90374999 Score: 196
Period size: 68 Copynumber: 2.0 Consensus size: 71
90374852 TTTAATAATT
* *
90374862 TTAATATTAAATTTAATTTAATTCTTATCTTGATAG-T-AT-TT-TATTAATTTAATATTAAATT
1 TTAATATTAAATTTAATTTAATTCTTATCTT-ATAGATAATGTTCTATTAATTTAATACTAAAAT
90374923 GATTATC
65 GATTATC
90374930 TTAATATTAAATTTAATTTAATAT-TTATCTTATAGATAAATGTTCTATTAATTTAATACTAAAA
1 TTAATATTAAATTTAATTTAAT-TCTTATCTTATAGAT-AATGTTCTATTAATTTAATACTAAAA
90374994 TGATTA
64 TGATTA
90375000 AGTTTAACAA
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
67 4 0.06
68 30 0.48
69 1 0.02
70 2 0.03
71 2 0.03
72 23 0.37
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (71 bp):
TTAATATTAAATTTAATTTAATTCTTATCTTATAGATAATGTTCTATTAATTTAATACTAAAATG
ATTATC
Found at i:90382205 original size:40 final size:39
Alignment explanation
Indices: 90382161--90382279 Score: 104
Period size: 40 Copynumber: 3.1 Consensus size: 39
90382151 AGACGCAATA
*
90382161 TTAAGTCAAGTGAACTGTTAAAATATCGAAGGTTGCGATC
1 TTAAGTCAA-TGAACTGTTAAAATATCGAAGGTCGCGATC
* * *
90382201 TTAAGTCGAACGAACCG-TAAAA-AT-GACA-GTCGCGATA
1 TTAAGTC-AATGAACTGTTAAAATATCGA-AGGTCGCGATC
* *
90382238 TT-AGATCAATTGAACTATTAAAATATCGAAGGTCGCAATC
1 TTAAG-TCAA-TGAACTGTTAAAATATCGAAGGTCGCGATC
90382278 TT
1 TT
90382280 TAATCGAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
36 4 0.06
37 17 0.27
38 8 0.13
39 8 0.13
40 23 0.37
41 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (39 bp):
TTAAGTCAATGAACTGTTAAAATATCGAAGGTCGCGATC
Found at i:90382259 original size:77 final size:76
Alignment explanation
Indices: 90382096--90382499 Score: 339
Period size: 77 Copynumber: 5.2 Consensus size: 76
90382086 AGAAATTAGC
* * * * * * *
90382096 GAACTGTTAGAATATCGAAAGTTGCGATCTTAAATC-AGCGAAGCGTAAAAATTATAGACGCAAT
1 GAACTGTTAAAATATCGAAGGTTGCGATCTTTAATCGAGCGAACCGTAAAAATCATAGTCGCGAT
90382160 ATTAAGTCAAGT
66 ATTAA-TCAAGT
* * *
90382172 GAACTGTTAAAATATCGAAGGTTGCGATC-TTAAGTCGAACGAACCGTAAAAATGACAGTCGCGA
1 GAACTGTTAAAATATCGAAGGTTGCGATCTTTAA-TCGAGCGAACCGTAAAAATCATAGTCGCGA
*
90382236 TATTAGATCAATT
65 TATTA-ATCAAGT
* * * *
90382249 GAACTATTAAAATATCGAAGGTCGCAATCTTTAATCGAGCGAACCGTAAAAACCATA-TC-CGTA
1 GAACTGTTAAAATATCGAAGGTTGCGATCTTTAATCGAGCGAACCGTAAAAATCATAGTCGCG--
* * *
90382312 ACATTAAATCGAGC
64 ATATT-AATCAAGT
* * * ** *
90382326 AAACTGTTAGAATATCGAAGGTTGCGATCTTTAATCGAGCGAACCGTAAAAATCATAGCCGTAAC
1 GAACTGTTAAAATATCGAAGGTTGCGATCTTTAATCGAGCGAACCGTAAAAATCATAGTCGCGAT
* *
90382391 ATTAAATCGAGC
66 ATT-AATCAAGT
* * * * * ** * * * **
90382403 AAACTGTTAGAATATCGAAGGTCGAGATCTTAAAATTAAGCGAACCGTAAATATGACAACCGCGA
1 GAACTGTTAAAATATCGAAGGTTGCGATCTT-TAATCGAGCGAACCGTAAAAATCATAGTCGCGA
*
90382468 TATTAAATCAAGC
65 TATT-AATCAAGT
*
90382481 GAACTGTTAGAATATCGAA
1 GAACTGTTAAAATATCGAA
90382500 TATCGTGATA
Statistics
Matches: 274, Mismatches: 44, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
75 5 0.02
76 31 0.11
77 178 0.65
78 60 0.22
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (76 bp):
GAACTGTTAAAATATCGAAGGTTGCGATCTTTAATCGAGCGAACCGTAAAAATCATAGTCGCGAT
ATTAATCAAGT
Found at i:90382402 original size:37 final size:37
Alignment explanation
Indices: 90382281--90382402 Score: 97
Period size: 37 Copynumber: 3.2 Consensus size: 37
90382271 CGCAATCTTT
* *
90382281 AATCGAGCGAACCGTAAAAACCATATCCGTAACATTA
1 AATCGAGCGAACCGTAAAAATCATAGCCGTAACATTA
* * * ** *
90382318 AATCGAGCAAACTGTTAGAATATCGA-AG--GTTGCGATCTTT
1 AATCGAGCGAACCG-TA-AAAATC-ATAGCCGTAAC-A--TTA
90382358 AATCGAGCGAACCGTAAAAATCATAGCCGTAACATTA
1 AATCGAGCGAACCGTAAAAATCATAGCCGTAACATTA
90382395 AATCGAGC
1 AATCGAGC
90382403 AAACTGTTAG
Statistics
Matches: 62, Mismatches: 14, Indels: 18
0.66 0.15 0.19
Matches are distributed among these distances:
37 26 0.42
38 10 0.16
39 8 0.13
40 18 0.29
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.22
Consensus pattern (37 bp):
AATCGAGCGAACCGTAAAAATCATAGCCGTAACATTA
Found at i:90382417 original size:154 final size:153
Alignment explanation
Indices: 90382097--90382499 Score: 425
Period size: 154 Copynumber: 2.6 Consensus size: 153
90382087 GAAATTAGCG
* * * * *
90382097 AACTGTTAGAATATCGAAAGTTGCGATCTTAAATCAGCGAAGCGTAAAAATTATAGA-CGCAATA
1 AACTGTTAGAATATCGAAGGTCGCAATCTTAAATCAGCGAACCGTAAAAATCATA-ACCGCAATA
* * * *
90382161 TTAAGTCAAGTGAACTGTTAAAATATCGAAGGTTGCGATCTTAAGTCGAACGAACCGTAAAAATG
65 TTAAATCAAGCGAACTGTTAGAATATCGAAGGTTGCGATCTTAAGTCGAACGAACCGTAAAAATC
* * * * ***
90382226 ACAGTCGCGATATTAGATCAATTG
130 ACAGCCGCAACATTAAATCAAGCA
* * * * * * *
90382250 AACTATTAAAATATCGAAGGTCGCAATCTTTAATCGAGCGAACCGTAAAAACCATATCCGTAACA
1 AACTGTTAGAATATCGAAGGTCGCAATCTTAAATC-AGCGAACCGTAAAAATCATAACCGCAATA
* * *
90382315 TTAAATCGAGCAAACTGTTAGAATATCGAAGGTTGCGATCTTTAA-TCGAGCGAACCGTAAAAAT
65 TTAAATCAAGCGAACTGTTAGAATATCGAAGGTTGCGATC-TTAAGTCGAACGAACCGTAAAAAT
* * *
90382379 CATAGCCGTAACATTAAATCGAGCA
129 CACAGCCGCAACATTAAATCAAGCA
* * * * *
90382404 AACTGTTAGAATATCGAAGGTCG-AGATCTTAAAATTAAGCGAACCGTAAATATGACAACCGCGA
1 AACTGTTAGAATATCGAAGGTCGCA-ATCTT-AAA-TCAGCGAACCGTAAAAATCATAACCGCAA
90382468 TATTAAATCAAGCGAACTGTTAGAATATCGAA
63 TATTAAATCAAGCGAACTGTTAGAATATCGAA
90382500 TATCGTGATA
Statistics
Matches: 201, Mismatches: 43, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
153 30 0.15
154 115 0.57
155 55 0.27
156 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (153 bp):
AACTGTTAGAATATCGAAGGTCGCAATCTTAAATCAGCGAACCGTAAAAATCATAACCGCAATAT
TAAATCAAGCGAACTGTTAGAATATCGAAGGTTGCGATCTTAAGTCGAACGAACCGTAAAAATCA
CAGCCGCAACATTAAATCAAGCA
Found at i:90385003 original size:23 final size:23
Alignment explanation
Indices: 90384977--90385025 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
90384967 AATTATGCTT
* *
90384977 CATATA-CATGTATCATCCATTTC
1 CATATATCATGTAACA-ACATTTC
90385000 CATATATCATGTAACAACATTTC
1 CATATATCATGTAACAACATTTC
90385023 CAT
1 CAT
90385026 GTAATTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (23 bp):
CATATATCATGTAACAACATTTC
Found at i:90388146 original size:24 final size:25
Alignment explanation
Indices: 90388104--90388150 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
90388094 TTATAATATG
*
90388104 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
90388129 AAAATGACCA-TTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
90388151 GTTTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:90388212 original size:20 final size:20
Alignment explanation
Indices: 90388187--90388249 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
90388177 ATTTTGATAA
90388187 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
90388207 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
90388227 ACATGATAGGTATGATATGC
1 ACATGATATGTATGATATGC
90388247 ACA
1 ACA
90388250 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:90388330 original size:24 final size:24
Alignment explanation
Indices: 90388303--90388399 Score: 126
Period size: 24 Copynumber: 4.0 Consensus size: 24
90388293 GAGGAAGTGC
90388303 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
90388327 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
90388351 AAAAAAGGGCTT-TGCCCTAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
90388376 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
90388400 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.09
24 30 0.46
25 19 0.29
26 10 0.15
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:90388396 original size:50 final size:50
Alignment explanation
Indices: 90388303--90388399 Score: 144
Period size: 49 Copynumber: 1.9 Consensus size: 50
90388293 GAGGAAGTGC
*
90388303 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCAGTTATTAA
*
90388353 AAAAGGGCTT-TGCCCTAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTAGGCC-CCAGTTAT
90388400 ATGATAAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 22 0.51
50 21 0.49
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCAGTTATTAA
Found at i:90396188 original size:24 final size:26
Alignment explanation
Indices: 90396146--90396193 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
90396136 TTATAATATG
* *
90396146 AAAATGACCGTTTTGA-CCCTAGGTA
1 AAAATGACCATTATGACCCCTAGGTA
90396171 AAAATGACCATTAT-ACCCCTAGG
1 AAAATGACCATTATGACCCCTAGG
90396194 GTTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (26 bp):
AAAATGACCATTATGACCCCTAGGTA
Found at i:90396255 original size:20 final size:20
Alignment explanation
Indices: 90396230--90396292 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
90396220 ATTTTGATAA
90396230 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
90396250 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
90396270 ACATGATAGGTATGATATGC
1 ACATGATATGTATGATATGC
90396290 ACA
1 ACA
90396293 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:90396374 original size:26 final size:25
Alignment explanation
Indices: 90396345--90396397 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
90396335 CAAAAAGTGC
90396345 AAAAGGGCTTATGCCCCAGTTATTAA
1 AAAAGGGCTT-TGCCCCAGTTATTAA
90396371 AAAAGGGCTTTGCCCCAGTTATTAA
1 AAAAGGGCTTTGCCCCAGTTATTAA
90396396 AA
1 AA
90396398 GAGGCTAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTATTAA
Found at i:90399975 original size:16 final size:17
Alignment explanation
Indices: 90399947--90399978 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
90399937 ATAAATTTTT
90399947 AAAATGTATAAATATAA
1 AAAATGTATAAATATAA
90399964 AAAATGTA-AAATATA
1 AAAATGTATAAATATA
90399979 TACATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAATGTATAAATATAA
Found at i:90400994 original size:3 final size:3
Alignment explanation
Indices: 90400982--90401010 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
90400972 TTAATATGGA
90400982 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90401011 AGATATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:90402281 original size:6 final size:6
Alignment explanation
Indices: 90402267--90402305 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
90402257 TATGTACCAC
* *
90402267 TACTAT TACTGT TACTGT TACTGT TACTAT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
90402306 CATTACGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:90402287 original size:12 final size:12
Alignment explanation
Indices: 90402267--90402311 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
90402257 TATGTACCAC
90402267 TACTATTACTGT
1 TACTATTACTGT
*
90402279 TACTGTTACTGT
1 TACTATTACTGT
90402291 TACTATTACTGT
1 TACTATTACTGT
*
90402303 TACCATTAC
1 TACTATTAC
90402312 GGTGTATTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (12 bp):
TACTATTACTGT
Found at i:90402293 original size:18 final size:18
Alignment explanation
Indices: 90402267--90402311 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
90402257 TATGTACCAC
*
90402267 TACTATTACTGTTACTGT
1 TACTATTACTATTACTGT
*
90402285 TACTGTTACTATTACTGT
1 TACTATTACTATTACTGT
*
90402303 TACCATTAC
1 TACTATTAC
90402312 GGTGTATTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (18 bp):
TACTATTACTATTACTGT
Found at i:90402456 original size:18 final size:17
Alignment explanation
Indices: 90402419--90402457 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
90402409 TAAATAAAGG
* *
90402419 TACTGAATAATTATTGC
1 TACTGAATAATGACTGC
90402436 TACTGAATAACTGACTGC
1 TACTGAATAA-TGACTGC
90402454 TACT
1 TACT
90402458 CTGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (17 bp):
TACTGAATAATGACTGC
Found at i:90404714 original size:105 final size:107
Alignment explanation
Indices: 90404481--90404801 Score: 495
Period size: 105 Copynumber: 3.0 Consensus size: 107
90404471 GGCCAGGCCG
* * *
90404481 TGTGGCACACATGGCCAATTGACACGCCCGTGTCGTAA-CTCGTGTAAGCATTGGATGTGAGGCA
1 TGTGGCACACATGGCCAAGTGACATGCCCGTGTCGTAAGC-CGTGTGAGCATTGGATGTGAGG-A
* * *
90404545 CACAGCTATGTCCCAGCCCGTGCTCATGCCAATCAAAGTGTGAT
64 CACAGCTGTGTCCTAGCCCGTGCTCATGCCAGTCAAAGTGTGAT
* *
90404589 TGTTGCACACATGGCCAAGTGACATGCCTGTGTCGTAAGCCGTGTGAGCATTGGATGTGAGG-CA
1 TGTGGCACACATGGCCAAGTGACATGCCCGTGTCGTAAGCCGTGTGAGCATTGGATGTGAGGACA
90404653 CA-CTGTGTCCTAGCCCGTGCTCATGCCAGTCAAAGTGTGAT
66 CAGCTGTGTCCTAGCCCGTGCTCATGCCAGTCAAAGTGTGAT
* *
90404694 TGTGGCACACATGGCCAAGTGACATGCCCGTGTCGTAAGCTGTGTGGGCATTGGATGTGAGGCAC
1 TGTGGCACACATGGCCAAGTGACATGCCCGTGTCGTAAGCCGTGTGAGCATTGGATGTGAGG-AC
*
90404759 ACAGCTGTGTCCTAGCCCGTACTCATGCCAGTCAAAGTGTGAT
65 ACAGCTGTGTCCTAGCCCGTGCTCATGCCAGTCAAAGTGTGAT
90404802 GGAATTACTA
Statistics
Matches: 196, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
105 94 0.48
106 4 0.02
107 4 0.02
108 93 0.47
109 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (107 bp):
TGTGGCACACATGGCCAAGTGACATGCCCGTGTCGTAAGCCGTGTGAGCATTGGATGTGAGGACA
CAGCTGTGTCCTAGCCCGTGCTCATGCCAGTCAAAGTGTGAT
Found at i:90405763 original size:24 final size:24
Alignment explanation
Indices: 90405710--90405756 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
90405700 TTGTTTATCA
*
90405710 GATTCTGTATTACTATTTGTTTCC
1 GATTCTGTATTACTATTCGTTTCC
90405734 GATTCTGTATTACTATTCGTTTC
1 GATTCTGTATTACTATTCGTTTC
90405757 TATTTCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.13, T:0.53
Consensus pattern (24 bp):
GATTCTGTATTACTATTCGTTTCC
Found at i:90411038 original size:18 final size:17
Alignment explanation
Indices: 90410995--90411057 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 17
90410985 AAGTATTTAG
90410995 AAAAATATTATAAAATAATAT
1 AAAAATA-TATAAAAT--T-T
90411016 AAAAATAGTATAAAATTT
1 AAAAATA-TATAAAATTT
*
90411034 AAAAAT-TATTAAAAATT
1 AAAAATATA-TAAAATTT
90411051 AAAAATA
1 AAAAATA
90411058 AGCTATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.05
17 13 0.34
18 7 0.18
19 1 0.03
21 15 0.39
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAAATATATAAAATTT
Found at i:90411050 original size:10 final size:9
Alignment explanation
Indices: 90410995--90411057 Score: 51
Period size: 10 Copynumber: 6.8 Consensus size: 9
90410985 AAGTATTTAG
90410995 AAAAATATT
1 AAAAATATT
90411004 ATAAAATAATAT
1 A-AAAAT-AT-T
*
90411016 AAAAATAGT
1 AAAAATATT
90411025 ATAAAAT-TT
1 A-AAAATATT
90411034 AAAAATTATT
1 AAAAA-TATT
90411044 -AAAA-ATT
1 AAAAATATT
90411051 AAAAATA
1 AAAAATA
90411058 AGCTATATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
7 3 0.07
8 8 0.18
9 11 0.25
10 13 0.30
11 7 0.16
12 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATATT
Found at i:90411698 original size:28 final size:30
Alignment explanation
Indices: 90411654--90411783 Score: 92
Period size: 30 Copynumber: 4.3 Consensus size: 30
90411644 TATTCTAAAT
90411654 TTTTTTATAACATTT-A-ACATTTTCTATA
1 TTTTTTATAACATTTAATACATTTTCTATA
* *
90411682 TTTTTTATAA-TTATTAATAGATTTTCTATA
1 TTTTTTATAACAT-TTAATACATTTTCTATA
* *
90411712 TTTTTCTATAA-AGTTGTGTAATA-TTTTTCTAAAA
1 TTTTT-TATAACA--T-T-TAATACATTTTCT-ATA
* *
90411746 TTTCTTATAACATTTAA-AAATTTTCTATA
1 TTTTTTATAACATTTAATACATTTTCTATA
*
90411775 ATTTTTATA
1 TTTTTTATA
90411784 TTTTCAATCA
Statistics
Matches: 81, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
27 1 0.01
28 12 0.15
29 11 0.14
30 25 0.31
31 6 0.07
32 1 0.01
33 13 0.16
34 12 0.15
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (30 bp):
TTTTTTATAACATTTAATACATTTTCTATA
Found at i:90411786 original size:18 final size:18
Alignment explanation
Indices: 90411765--90411801 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
90411755 ACATTTAAAA
*
90411765 ATTTTCTATAATTTTTAT
1 ATTTTCAATAATTTTTAT
*
90411783 ATTTTCAATCATTTTTAT
1 ATTTTCAATAATTTTTAT
90411801 A
1 A
90411802 ATTATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTCAATAATTTTTAT
Found at i:90412156 original size:16 final size:15
Alignment explanation
Indices: 90412131--90412174 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
90412121 TGTTTGTGGA
90412131 TTTTTAAAAAATATT
1 TTTTTAAAAAATATT
*
90412146 TTTTTATAAAAGTATT
1 TTTTTA-AAAAATATT
*
90412162 ATTTTAAAAAATA
1 TTTTTAAAAAATA
90412175 AATTTCATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TTTTTAAAAAATATT
Found at i:90414853 original size:14 final size:14
Alignment explanation
Indices: 90414834--90414867 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
90414824 TCTATTACAA
90414834 TTACTTAGATTATT
1 TTACTTAGATTATT
90414848 TTACTTAGATTATT
1 TTACTTAGATTATT
90414862 TT-CTTA
1 TTACTTA
90414868 AATCCATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (14 bp):
TTACTTAGATTATT
Found at i:90418232 original size:20 final size:20
Alignment explanation
Indices: 90418190--90418232 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
90418180 CAATTAAACC
* *
90418190 TAATTTTTTTATATTGATAA
1 TAATTTTTTAATATTAATAA
* *
90418210 TAATTTTTTAATTTTAATTA
1 TAATTTTTTAATATTAATAA
90418230 TAA
1 TAA
90418233 AAATTAAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TAATTTTTTAATATTAATAA
Found at i:90418880 original size:19 final size:19
Alignment explanation
Indices: 90418842--90418881 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
90418832 CTTTCCTACT
*
90418842 TTAATGCGTCAATATATAC
1 TTAATGCGTCAATAGATAC
*
90418861 TTAATGCGTCAATAGGTAC
1 TTAATGCGTCAATAGATAC
90418880 TT
1 TT
90418882 TCATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAATGCGTCAATAGATAC
Found at i:90423100 original size:11 final size:11
Alignment explanation
Indices: 90423084--90423108 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
90423074 AAATAATTTT
90423084 AAAAATTATAA
1 AAAAATTATAA
90423095 AAAAATTATAA
1 AAAAATTATAA
90423106 AAA
1 AAA
90423109 TTTCATAAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:90423118 original size:20 final size:20
Alignment explanation
Indices: 90423072--90423122 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
90423062 TGCCACACTA
*
90423072 ATAAATAATTTTAAAAATTAT
1 ATAAA-AATTATAAAAATTAT
*
90423093 AAAAAAATTATAAAAATT-T
1 ATAAAAATTATAAAAATTAT
90423112 CATAAAAATTA
1 -ATAAAAATTA
90423123 ACATGAAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 21 0.81
21 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAAAATTATAAAAATTAT
Found at i:90426391 original size:20 final size:20
Alignment explanation
Indices: 90426350--90426394 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
90426340 GTTCGTCGAC
90426350 AAATAATTTAAAAATTATAA
1 AAATAATTTAAAAATTATAA
90426370 AAAT-ATTTAAAATATT-TAA
1 AAATAATTTAAAA-ATTATAA
90426389 AAATAA
1 AAATAA
90426395 AATTAGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATAATTTAAAAATTATAA
Found at i:90427612 original size:22 final size:22
Alignment explanation
Indices: 90427581--90427622 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
90427571 AAAAAAAGAC
*
90427581 TAATATTAAAATAGTAGCAACA
1 TAATAGTAAAATAGTAGCAACA
90427603 TAATAGTAAAATAGTAGCAA
1 TAATAGTAAAATAGTAGCAA
90427623 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (22 bp):
TAATAGTAAAATAGTAGCAACA
Found at i:90427626 original size:11 final size:11
Alignment explanation
Indices: 90427588--90427627 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
90427578 GACTAATATT
90427588 AAAATAGTAGC
1 AAAATAGTAGC
* * *
90427599 AACATAATAGT
1 AAAATAGTAGC
90427610 AAAATAGTAGC
1 AAAATAGTAGC
90427621 AAAATAG
1 AAAATAG
90427628 GGAGAAAACA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (11 bp):
AAAATAGTAGC
Found at i:90427926 original size:6 final size:6
Alignment explanation
Indices: 90427915--90427947 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
90427905 TTAGTAATTT
90427915 AATATA AATATA AATATA AATAT- -ATATA AATAT
1 AATATA AATATA AATATA AATATA AATATA AATAT
90427948 TATTTAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.16
6 21 0.84
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATATA
Found at i:90427932 original size:12 final size:11
Alignment explanation
Indices: 90427914--90427975 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
90427904 ATTAGTAATT
90427914 TAATATAAATA
1 TAATATAAATA
90427925 TAAATATAAATA
1 T-AATATAAATA
90427937 T-ATATAAATA
1 TAATATAAATA
* *
90427947 TTATTTAACATA
1 TAATATAA-ATA
*
90427959 T-ATAATTAATA
1 TAAT-ATAAATA
90427970 TAATAT
1 TAATAT
90427976 TATTTTATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 10 0.23
11 14 0.33
12 19 0.44
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATATAAATA
Found at i:90427988 original size:29 final size:30
Alignment explanation
Indices: 90427923--90427994 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
90427913 TTAATATAAA
*
90427923 TATAA-ATATAAATATATATAAATATTATT
1 TATAATATATAATTATATATAAATATTATT
90427952 TA-ACATATATAATTA-ATAT-AATATTATTT
1 TATA-ATATATAATTATATATAAATATTA-TT
*
90427981 TATAATATAAAATT
1 TATAATATATAATT
90427995 TTGGTCTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 8 0.22
29 20 0.54
30 9 0.24
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
TATAATATATAATTATATATAAATATTATT
Found at i:90428968 original size:6 final size:7
Alignment explanation
Indices: 90428951--90428977 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
90428941 CTGCACCCAA
90428951 AAAAAAT
1 AAAAAAT
90428958 AAAAAAT
1 AAAAAAT
90428965 AAAAAAT
1 AAAAAAT
90428972 AAAAAA
1 AAAAAA
90428978 AATCTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:90433144 original size:23 final size:23
Alignment explanation
Indices: 90433115--90433161 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
90433105 CATATATTAA
90433115 TAATTGTAATGTTTTCTTCTTCT
1 TAATTGTAATGTTTTCTTCTTCT
90433138 TAATTGTAATGTTTTCTTCTTCT
1 TAATTGTAATGTTTTCTTCTTCT
90433161 T
1 T
90433162 CTTCTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.62
Consensus pattern (23 bp):
TAATTGTAATGTTTTCTTCTTCT
Found at i:90434129 original size:16 final size:17
Alignment explanation
Indices: 90434093--90434129 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
90434083 TTAAGAATTT
*
90434093 TTTATTTTTTTTGAAAA
1 TTTAATTTTTTTGAAAA
90434110 -TTAATTTTTTT-AAAA
1 TTTAATTTTTTTGAAAA
90434125 TTTAA
1 TTTAA
90434130 ATTATTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTAATTTTTTTGAAAA
Found at i:90441122 original size:13 final size:13
Alignment explanation
Indices: 90441104--90441128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90441094 GCCGGTTTCC
90441104 ATTTATTTTTTTG
1 ATTTATTTTTTTG
90441117 ATTTATTTTTTT
1 ATTTATTTTTTT
90441129 TTTCAATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
ATTTATTTTTTTG
Found at i:90442106 original size:10 final size:10
Alignment explanation
Indices: 90442091--90442139 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
90442081 AATTTTAGTT
*
90442091 TTTATCTTTG
1 TTTATCTTTA
90442101 TTTATCTTTA
1 TTTATCTTTA
*
90442111 ATTATCTTTA
1 TTTATCTTTA
90442121 TTTAT-TTGTA
1 TTTATCTT-TA
90442131 TTTATCTTT
1 TTTATCTTT
90442140 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:90443482 original size:19 final size:18
Alignment explanation
Indices: 90443458--90443496 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
90443448 TTTACCCGAG
90443458 CCCATTA-ATGCCCAACTAA
1 CCCATTACA-GCCCAA-TAA
90443477 CCCATTACAGCCCAATAA
1 CCCATTACAGCCCAATAA
90443495 CC
1 CC
90443497 AAAACCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 13 0.68
20 1 0.05
ACGTcount: A:0.36, C:0.41, G:0.05, T:0.18
Consensus pattern (18 bp):
CCCATTACAGCCCAATAA
Found at i:90444593 original size:3 final size:3
Alignment explanation
Indices: 90444585--90444715 Score: 72
Period size: 3 Copynumber: 44.0 Consensus size: 3
90444575 TAAATTAATA
* * * * *
90444585 TAT TAT TAT TACT TAT TAT T-T TAC TAC TAT TAT TAT TGT CAT GAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
90444630 TAT CAC TAT TAT TAT TAC T-T TAC TAT TAT AAT T-T AAT GTAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
** *
90444674 CGT TAT TAT TAT TAT TAT TAC TAT T-T TCAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
90444716 CTTCATACTA
Statistics
Matches: 96, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
2 6 0.06
3 83 0.86
4 7 0.07
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:90444654 original size:41 final size:41
Alignment explanation
Indices: 90444588--90444698 Score: 104
Period size: 41 Copynumber: 2.7 Consensus size: 41
90444578 ATTAATATAT
* * *
90444588 TATTATTACTTATTATT-TTAC--TACTATTATTATTGTCATG
1 TATTATCAC-TATTATTATTACTTTACTATTATAATT-TAATG
90444628 -ATTATCACTATTATTATTACTTTACTATTATAATTTAATG
1 TATTATCACTATTATTATTACTTTACTATTATAATTTAATG
* ** *
90444668 TATTGTCGTTATTATTATTATTATTACTATT
1 TATTATCACTATTATTATTACT-TTACTATT
90444699 TTCATTATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
38 7 0.12
39 11 0.19
40 4 0.07
41 29 0.49
42 8 0.14
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.57
Consensus pattern (41 bp):
TATTATCACTATTATTATTACTTTACTATTATAATTTAATG
Found at i:90444720 original size:18 final size:18
Alignment explanation
Indices: 90444684--90444721 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
90444674 CGTTATTATT
*
90444684 ATTATTATTACTATTTTC
1 ATTATTATTACTATCTTC
*
90444702 ATTATTATTATTATCTTC
1 ATTATTATTACTATCTTC
90444720 AT
1 AT
90444722 ACTAAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTATTATTACTATCTTC
Found at i:90444825 original size:7 final size:7
Alignment explanation
Indices: 90444777--90444836 Score: 59
Period size: 7 Copynumber: 8.3 Consensus size: 7
90444767 TCTTTTTGTG
90444777 TTTATTTA
1 TTTA-TTA
*
90444785 TTTATTGT
1 TTTATT-A
90444793 TTTATTA
1 TTTATTA
*
90444800 TTAATTAA
1 TTTATT-A
*
90444808 TTTAGTA
1 TTTATTA
90444815 -TTATTA
1 TTTATTA
90444821 TTTATTA
1 TTTATTA
90444828 TTTATTA
1 TTTATTA
90444835 TT
1 TT
90444837 GTCCTTATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
6 5 0.12
7 23 0.53
8 15 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (7 bp):
TTTATTA
Found at i:90445042 original size:3 final size:3
Alignment explanation
Indices: 90445036--90445077 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
90445026 ATTGTCAATA
90445036 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90445078 CGTCACTATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:90445621 original size:33 final size:33
Alignment explanation
Indices: 90445579--90445645 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
90445569 GGCAATGATC
90445579 CGTATTTGGAATTTCGAGAAAATCGTGCCCTAA
1 CGTATTTGGAATTTCGAGAAAATCGTGCCCTAA
90445612 CGTATTTGGAATTTCGAGAAAATCGTGCCCTAA
1 CGTATTTGGAATTTCGAGAAAATCGTGCCCTAA
90445645 C
1 C
90445646 TTACTGGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (33 bp):
CGTATTTGGAATTTCGAGAAAATCGTGCCCTAA
Found at i:90446442 original size:20 final size:21
Alignment explanation
Indices: 90446405--90446446 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
90446395 GATTCATGCA
90446405 TAAGTTTAGAAGAAACACATG
1 TAAGTTTAGAAGAAACACATG
*
90446426 TAAGTTTAG-ATAAACACATG
1 TAAGTTTAGAAGAAACACATG
90446446 T
1 T
90446447 TAAAATGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (21 bp):
TAAGTTTAGAAGAAACACATG
Found at i:90449488 original size:23 final size:24
Alignment explanation
Indices: 90449453--90449497 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
90449443 TCTTTACCCC
*
90449453 TTTTGTTACTTTT-GTCTTTAACTT
1 TTTTATTACTTTTAG-CTTTAACTT
90449477 TTTTATTA-TTTTAGCTTTAAC
1 TTTTATTACTTTTAGCTTTAAC
90449498 CATTAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.18, C:0.11, G:0.07, T:0.64
Consensus pattern (24 bp):
TTTTATTACTTTTAGCTTTAACTT
Found at i:90453441 original size:19 final size:19
Alignment explanation
Indices: 90453409--90453447 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
90453399 AAATAGAAAT
* * *
90453409 AAGAAAATAGGAAATCGAA
1 AAGAAAAAAAGAAAGCGAA
90453428 AAGAAAAAAAGAAAGCGAA
1 AAGAAAAAAAGAAAGCGAA
90453447 A
1 A
90453448 TCAACCTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (19 bp):
AAGAAAAAAAGAAAGCGAA
Found at i:90454198 original size:43 final size:44
Alignment explanation
Indices: 90454151--90454233 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
90454141 TAGACTTGTA
*
90454151 GCTTCAA-CTTGCTCCACTGC-ACTTCAGAGAGACAAGATTTGCG
1 GCTTCAATC-TGCTCCACTACAACTTCAGAGAGACAAGATTTGCG
* *
90454194 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
1 GCTTCAATCTGCTCCACTACAACTTCAGAGAGACAAGATT
90454234 CACCATGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 17 0.49
44 18 0.51
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTACAACTTCAGAGAGACAAGATTTGCG
Found at i:90454407 original size:86 final size:85
Alignment explanation
Indices: 90454286--90454536 Score: 301
Period size: 86 Copynumber: 2.9 Consensus size: 85
90454276 ATAAGACTTA
* *
90454286 TGGCTTTAATCTGTCCACTATTGCTTAGGGAGACAAGATTTGCCATGGTCAG-CCTACTCCACTA
1 TGGCTTAAATCTGTCCACTATTGCTTAGGGAGACAAGATTTGCCAT-CTCAGACCTACTCCACTA
90454350 CTACTAAGGGAGATAGGATGG
65 CTACTAAGGGAGATAGGATGG
* * ** * *
90454371 TGGCTTAAATCTGTTCCACTACTGCTTAAGGG-GACAAGATTTGCCGTCTTGGATCTGCTCCACT
1 TGGCTTAAATCTG-TCCACTATTGCTT-AGGGAGACAAGATTTGCCATCTCAGACCTACTCCACT
* *
90454435 ACTGCTTAGGGAGATAGGATGG
64 ACTACTAAGGGAGATAGGATGG
* * *
90454457 TGGCTTAAATCTGCTCCACTATTGCTTAGGGAGACAAGATTTGCCATCTTC-GATCTGCTCTACT
1 TGGCTTAAATCTG-TCCACTATTGCTTAGGGAGACAAGATTTGCCATC-TCAGACCTACTCCACT
* *
90454521 ACTGCTTAGGGAGATA
64 ACTACTAAGGGAGATA
90454537 AGATCTACAA
Statistics
Matches: 146, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
85 18 0.12
86 123 0.84
87 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (85 bp):
TGGCTTAAATCTGTCCACTATTGCTTAGGGAGACAAGATTTGCCATCTCAGACCTACTCCACTAC
TACTAAGGGAGATAGGATGG
Found at i:90454433 original size:44 final size:44
Alignment explanation
Indices: 90454294--90455454 Score: 571
Period size: 44 Copynumber: 26.7 Consensus size: 44
90454284 TATGGCTTTA
* * * *
90454294 ATCTG-TCCACTATTGCTTAGGGAGACAAGATTTGCCATGGTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCAT-CTTAG
* * * * * * * *
90454338 -CCTACTCCACTACTACTAAGGGAGATAGGATGGTG---GCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTAG
* * * *
90454379 ATCTGTTCCACTACTGCTTAAGGG-GACAAGATTTGCCGTCTTGG
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGCCATCTTAG
* * * *
90454423 ATCTGCTCCACTACTGCTTAGGGAGATAGGATGGTG---GCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTAG
* * *
90454465 ATCTGCTCCACTATTGCTTAGGGAGACAAGATTTGCCATCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTAG
* * * *
90454509 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTT-AG
* * * * * * *
90454554 -CCTACTCCGCTACTGCTTAGGGAGATAGGATGGTG---GCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTAG
* * * *
90454595 ATTTGCTCCACTACTGCTTAGGGAGACAAAATTTGCCATCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTAG
* * * * *
90454639 ATCTGCTCCACTATTTCTTAGGGAGATAAGATCTACAATCTTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTT-AG
* * * * *
90454684 -CCTACTCCACTACTGCTTAGGGAGATAGGATGGTG-C--CTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTAG
* * * * *
90454725 ATCTACTCCATTACTGCTTAGGGAGACAAGATTTGCCGTCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTAG
* * *
90454769 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTT-AG
* * * * * * *
90454814 -CCTACTCCACTACTACTTAGGGAGATAGGATGGTG---GCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTAG
* * * * * *
90454855 ATCTACTCCACTACTGCTTAGGGAGACACGATTTGTCTTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTAG
* * * * *
90454899 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTCCA-
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCT-TAG
* * * * * * *
90454943 ACCTACTCCACTACCGCTTAGGGAGATAGGATGGTG---GCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTAG
* * * * * *
90454985 ATCTACTCCACTACTGCTTAGGGAGACAAGATTCGCCGTTTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTAG
* * ** * * * * *
90455029 ATCTGCTCTACTGCAACTTCAGGGGGACAAGATCTACAATCTTCAG
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGCCATCTT-AG
* * * * * *
90455075 -CCTACTCCACTACTGCTTTAGGGAGATAGGATGGTG---GCTTAA
1 ATCTGCTCCACTACTGC-TTAGGGAGATAAGAT-TTGCCATCTTAG
* * * * *
90455117 ATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGTCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTAG
** * * *
90455161 ATCTGCTCCACTACTGCTTAGAAAGATAAGATCTACAATCTTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTT-AG
* * * * * * *
90455206 -CCTACTCCACTACTGTTTAGGGAGATAGGATGGTG---GCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATCTTAG
* * * * * *
90455247 ATCTGCTCCACTGCTGCTTAGGAAGACAAGATTCGCCGTCTTTG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTAG
* * * * * *
90455291 ATCTGCTCCACT-GTAACTTCAGGGAGACAAGATCTACAATCTTCAG
1 ATCTGCTCCACTACT-GCTT-AGGGAGATAAGATTTGCCATCTT-AG
* * * * * *
90455337 -CCTACTCCACTACTGCTTTAGGGAGATAGGATGGTG---GCTTAA
1 ATCTGCTCCACTACTGC-TTAGGGAGATAAGAT-TTGCCATCTTAG
* * * *
90455379 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTAG
*
90455423 ATCTGCTCCACTACTGCTTAGGAAGATAAGAT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT
90455455 CTGTGAATTT
Statistics
Matches: 822, Mismatches: 235, Indels: 120
0.70 0.20 0.10
Matches are distributed among these distances:
41 23 0.03
42 223 0.27
43 45 0.05
44 435 0.53
45 87 0.11
46 9 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATCTTAG
Found at i:90454513 original size:130 final size:130
Alignment explanation
Indices: 90454428--90455456 Score: 1601
Period size: 130 Copynumber: 7.9 Consensus size: 130
90454418 CTTGGATCTG
*
90454428 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTATTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* *
90454493 AGATTTGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
* *
90454558 CTCCGCTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* * * *
90454623 AAATTTGCCATCTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
* * *
90454688 CTCCACTACTGCTTAGGGAGATAGGATGGTGCCTTAAATCTACTCCATTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
*
90454753 AGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
* *
90454818 CTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* * * * * *
90454883 CGATTTGTCTTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTCCAACCTA
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
* *
90454948 CTCCACTACCGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* * * * ** * *
90455013 AGATTCGCCGTTTTCGATCTGCTCTACTGCAACTTCAGGGGGACAAGATCTACAATCTTCAGCCT
66 AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTCAGCCT
90455078 A
130 A
90455079 CTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGAC
1 CTCCACTACTGC-TTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGAC
* * **
90455144 AAAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGAAAGATAAGATCTACAATCTTCAGCCT
65 AAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCT
90455209 A
130 A
* * *
90455210 CTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTGCTGCTTAGGAAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* * * * *
90455275 AGATTCGCCGTCTTTGATCTGCTCCACT-GTAACTTCAGGGAGACAAGATCTACAATCTTCAGCC
66 AGATTTGCCGTCTTCGATCTGCTCCACTACT-GCTT-AGGGAGATAAGATCTACAATCTTCAGCC
90455339 TA
129 TA
90455341 CTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGAC
1 CTCCACTACTGC-TTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGAC
* *
90455406 AAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCT
65 AAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
90455457 GTGAATTTAC
Statistics
Matches: 814, Mismatches: 79, Indels: 11
0.90 0.09 0.01
Matches are distributed among these distances:
129 1 0.00
130 529 0.65
131 125 0.15
132 158 0.19
133 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (130 bp):
CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
AGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
Found at i:90454602 original size:86 final size:85
Alignment explanation
Indices: 90454509--90455454 Score: 484
Period size: 86 Copynumber: 10.9 Consensus size: 85
90454499 GCCATCTTCG
* * *
90454509 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC-ATCTTCAGTCTACTCCACTACTGCTTAG
*
90454574 GGAGATAGGATGGTGGCTTAA
65 GGAGATAAGATGGTGGCTTAA
* * * * * * * *
90454595 ATTTGCTCCACTACTGCTTAGGGAGACAAAATTTGCCATCTTC-GATCTGCTCCACTATTTCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACATCTTCAG-TCTACTCCACTACTGCTTA
* ** *
90454659 GGGAGATAAGAT-CTACAATCTTCA
64 GGGAGATAAGATGGT---GGCTTAA
** * * * * * * *
90454683 GCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGC--CTTAAATCTACTCCATTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTACATCTTCAGTCTACTCCACTACTGCTTAG
* * **
90454746 GGAGACAAGAT-TTGCCGTCTTTG
65 GGAGATAAGATGGTG--G-CTTAA
* *
90454769 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC-ATCTTCAGTCTACTCCACTACTGCTTAG
*
90454834 GGAGATAGGATGGTGGCTTAA
65 GGAGATAAGATGGTGGCTTAA
* * * * * *
90454855 ATCTACTCCACTACTGCTTAGGGAGACACGATTTGTCTTCTTC-GATCTACTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACATCTTCAG-TCTACTCCACTACTGCTTA
* * *
90454919 GGGAGATAAGAT-CT-ACAATCTCCA
64 GGGAGATAAGATGGTGGC--T-T-AA
* * * * * ** * *
90454943 ACCTACTCCACTACCGCTTAGGGAGATAGGATGGT--GGCTTAAATCTACTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTACATCTTCAGTCTACTCCACTACTGCTTAG
* ** ** **
90455006 GGAGACAAGATTCGCCGTTTTCG
65 GGAGATAAGA-T-GGTGGCTTAA
* * ** * * *
90455029 ATCTGCTCTACTGCAACTTCAGGGGGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTT
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTAC-ATCTTCAGTCTACTCCACTACTGC-TT
*
90455094 AGGGAGATAGGATGGTGGCTTAA
63 AGGGAGATAAGATGGTGGCTTAA
* * * * * *
90455117 ATCTGCTCCACTACTGCTTAGGGAGACAAAATTTGTCGTCTTC-GATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACATCTTCAG-TCTACTCCACTACTGCTTA
** * ** *
90455181 GAAAGATAAGAT-CTACAATCTTCA
64 GGGAGATAAGATGGT---GGCTTAA
** * * * * ** * * * *
90455205 GCCTACTCCACTACTGTTTAGGGAGATAGGATGGT--GGCTTAAATCTGCTCCACTGCTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTACATCTTCAGTCTACTCCACTACTGCTTAG
* * ** * **
90455268 GAAGACAAGATTCGCCGTCTTTG
65 GGAGATAAGA-T-GGTGGCTTAA
* * * *
90455291 ATCTGCTCCACT-GTAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTT
1 ATCTGCTCCACTACT-GCTT-AGGGAGATAAGATCTAC-ATCTTCAGTCTACTCCACTACTGC-T
*
90455355 TAGGGAGATAGGATGGTGGCTTAA
62 TAGGGAGATAAGATGGTGGCTTAA
* * * * *
90455379 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTCGTCTTC-GATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACATCTTCAG-TCTACTCCACTACTGCTTA
*
90455443 GGAAGATAAGAT
64 GGGAGATAAGAT
90455455 CTGTGAATTT
Statistics
Matches: 639, Mismatches: 171, Indels: 100
0.70 0.19 0.11
Matches are distributed among these distances:
84 1 0.00
85 8 0.01
86 309 0.48
87 92 0.14
88 160 0.25
89 46 0.07
90 23 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (85 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACATCTTCAGTCTACTCCACTACTGCTTAGG
GAGATAAGATGGTGGCTTAA
Found at i:90455199 original size:262 final size:260
Alignment explanation
Indices: 90454428--90455456 Score: 1619
Period size: 262 Copynumber: 3.9 Consensus size: 260
90454418 CTTGGATCTG
* *
90454428 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTATTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
* * * * ** *
90454493 AGATTTGCCATCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTCGCCGTCTTTGATCTGCTCCACTACAACTTAGGGAGACAAGATCTACAATCTTCAGCCTA
* *
90454558 CTCCGCTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGCTTAGGGAGACA
131 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
* * * * *
90454623 AAATTTGCCATCTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
196 AAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTCAGCCTA
* *
90454688 CTCCACTACTGCTTAGGGAGATAGGATGGTGCCTTAAATCTACTCCATTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
* ** *
90454753 AGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTA
66 AGATTCGCCGTCTTTGATCTGCTCCACTACAACTTAGGGAGACAAGATCTACAATCTTCAGCCTA
* *
90454818 CTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
131 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
** * * * * *
90454883 CGATTTGTCTTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTCCAACCTA
196 AAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTCAGCCTA
*
90454948 CTCCACTACCGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
* * *
90455013 AGATTCGCCGT-TTTCGATCTGCTCTACTGCAACTTCAGGGGGACAAGATCTACAATCTTCAGCC
66 AGATTCGCCGTCTTT-GATCTGCTCCACTACAACTT-AGGGAGACAAGATCTACAATCTTCAGCC
90455077 TACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAG
129 TACTCCACTACTGC-TTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAG
*
90455142 ACAAAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGAAAGATAAGATCTACAATCTTCAGC
193 ACAAAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTCAGC
90455207 CTA
258 CTA
* * * *
90455210 CTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTGCTGCTTAGGAAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
**
90455275 AGATTCGCCGTCTTTGATCTGCTCCACTGTAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
66 AGATTCGCCGTCTTTGATCTGCTCCACTACAACTT-AGGGAGACAAGATCTACAATCTTCAGCCT
90455340 ACTCCACTACTGCTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGA
130 ACTCCACTACTGC-TTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGA
*
90455405 CAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCT
194 CAAAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCT
90455457 GTGAATTTAC
Statistics
Matches: 715, Mismatches: 50, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
259 3 0.00
260 328 0.46
261 39 0.05
262 342 0.48
263 3 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (260 bp):
CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
AGATTCGCCGTCTTTGATCTGCTCCACTACAACTTAGGGAGACAAGATCTACAATCTTCAGCCTA
CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTTAGGGAGACA
AAATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACAATCTTCAGCCTA
Found at i:90461234 original size:21 final size:21
Alignment explanation
Indices: 90461210--90461249 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
90461200 GCATGGAATA
90461210 ATACAACACAAAT-ACAATATT
1 ATACAA-ACAAATGACAATATT
*
90461231 ATACAAGCAAATGACAATA
1 ATACAAACAAATGACAATA
90461250 ATATGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.20
Consensus pattern (21 bp):
ATACAAACAAATGACAATATT
Found at i:90463061 original size:32 final size:32
Alignment explanation
Indices: 90463025--90463097 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
90463015 GCATATGTTT
* *
90463025 TATATAAATATTTTCTTTTAAATCCATTTATG
1 TATATAAATACTTTCTTCTAAATCCATTTATG
* **
90463057 TATATATATACTTTCTTCTAAATTTATTTATG
1 TATATAAATACTTTCTTCTAAATCCATTTATG
*
90463089 TAAATAAAT
1 TATATAAAT
90463098 TTCTTTCTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (32 bp):
TATATAAATACTTTCTTCTAAATCCATTTATG
Found at i:90464506 original size:29 final size:28
Alignment explanation
Indices: 90464455--90464510 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
90464445 ATAGAAAGTC
*
90464455 TAAAATAAATAATATGTGAAAAATAAATT
1 TAAAATAAATAATATATGAAAAA-AAATT
*
90464484 TAAAGTAAATAATATAT-ATAAAAAAAT
1 TAAAATAAATAATATATGA-AAAAAAAT
90464511 ATATAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (28 bp):
TAAAATAAATAATATATGAAAAAAAATT
Found at i:90473405 original size:37 final size:37
Alignment explanation
Indices: 90473355--90473433 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
90473345 TTATTACGAA
* * *
90473355 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
90473392 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
90473429 GTCTT
1 GTCTT
90473434 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:90473623 original size:47 final size:47
Alignment explanation
Indices: 90473552--90473888 Score: 530
Period size: 47 Copynumber: 7.1 Consensus size: 47
90473542 CCCTTCGGGA
* * * * * *
90473552 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90473599 CCTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90473646 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90473693 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
90473742 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90473789 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
90473838 CTTATCACATATATACACTTTCACGTTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
90473885 CTTA
1 CTTA
90473889 CTATCATTTC
Statistics
Matches: 270, Mismatches: 16, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 178 0.66
49 92 0.34
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:90473850 original size:143 final size:141
Alignment explanation
Indices: 90473552--90473888 Score: 530
Period size: 143 Copynumber: 2.4 Consensus size: 141
90473542 CCCTTCGGGA
* * * * * * * *
90473552 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
90473617 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
90473682 GGCCATTAGGC
131 GGCCATTAGGC
* *
90473693 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
90473758 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
90473823 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
* *
90473838 CTTATCACATATATACACTTTCACGTTCATCACATCGACCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
90473889 CTATCATTTC
Statistics
Matches: 179, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
141 7 0.04
143 126 0.70
145 46 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:90473888 original size:96 final size:96
Alignment explanation
Indices: 90473552--90473885 Score: 564
Period size: 96 Copynumber: 3.5 Consensus size: 96
90473542 CCCTTCGGGA
* * * * * *
90473552 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAT--
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
90473615 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
90473646 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
90473711 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
90473742 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
90473807 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
90473838 CTTATCACATATATACACTTTCACGTTCATCACATCGACCATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
90473886 TTACTATCAT
Statistics
Matches: 227, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
94 57 0.25
96 170 0.75
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:90475766 original size:16 final size:17
Alignment explanation
Indices: 90475735--90475768 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
90475725 AGATAAAAAT
*
90475735 GAATACTACGATATAAA
1 GAATAATACGATATAAA
90475752 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
90475768 G
1 G
90475769 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:90476542 original size:20 final size:20
Alignment explanation
Indices: 90476462--90476545 Score: 63
Period size: 20 Copynumber: 4.3 Consensus size: 20
90476452 ATATGAAAAT
*
90476462 ATAATAATATATAA-AGAGAT
1 ATAATAATATATAATA-AGAA
*
90476482 GTAA-AATA-ATAATTTAAGAA
1 ATAATAATATATAA--TAAGAA
*
90476502 A-AA-AATATATAATAAGTA
1 ATAATAATATATAATAAGAA
90476520 ATAATAATATATAATTAA-AA
1 ATAATAATATATAA-TAAGAA
90476540 ATAATA
1 ATAATA
90476546 CTTATAACAA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
18 10 0.19
19 12 0.23
20 26 0.50
21 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
ATAATAATATATAATAAGAA
Found at i:90478274 original size:83 final size:83
Alignment explanation
Indices: 90478134--90478401 Score: 403
Period size: 83 Copynumber: 3.2 Consensus size: 83
90478124 CGATTTGTGG
* * * * * * * *
90478134 GGATGCTAAATCAACTTGAGTCTATTTTGAGAATATCTGTGAGTCAAATCTGCTACGTCCTTGAT
1 GGATGCCAAACCATCTTGAGTCT-GTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTTGAT
90478199 TTGTTCCTTGTAAGCACAA
65 TTGTTCCTTGTAAGCACAA
90478218 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGT-CTTCGAT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTT-GAT
*
90478282 TTGTTCCTTTTAAGCACAA
65 TTGTTCCTTGTAAGCACAA
**
90478301 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCAATT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTTGATT
90478366 TGTTCCTTGTAAGCACAA
66 TGTTCCTTGTAAGCACAA
*
90478384 GGATGCCAAACTATCTTG
1 GGATGCCAAACCATCTTG
90478402 GATCTGCTTC
Statistics
Matches: 169, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
82 3 0.02
83 144 0.85
84 22 0.13
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (83 bp):
GGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTTGATT
TGTTCCTTGTAAGCACAA
Found at i:90478622 original size:119 final size:119
Alignment explanation
Indices: 90478325--90478639 Score: 499
Period size: 119 Copynumber: 2.6 Consensus size: 119
90478315 CTTGAGTCTG
* * * *
90478325 TTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGC
*
90478390 CAAA-CTATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTATTATA
66 CAAATC-ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATA
* * * *
90478444 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCTATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGC
90478509 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATA
* *
90478563 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGTACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGC
90478628 C-AATCCATCTTG
66 CAAAT-CATCTTG
90478640 AGTCTGTTTG
Statistics
Matches: 180, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
118 3 0.02
119 176 0.98
120 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATA
Found at i:90478663 original size:321 final size:321
Alignment explanation
Indices: 90478242--90478960 Score: 1267
Period size: 321 Copynumber: 2.2 Consensus size: 321
90478232 CTTGAGTCTG
* * * * * *
90478242 TTTGAGAACATTTGAGAGTCATATCTGCTACGTCTTCGATTTGTTCCTTTTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
90478307 CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCAATTTGTTCC
66 CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCAATTTGTTCC
* *
90478372 TTGTAAGCACAAGGATGCCAAACTATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATC
131 TTGTAAGCACAAGGATGCCAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATC
*
90478437 TATTATATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCTATTTGTTCCTTGTAAACACA
196 TATTATATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACA
90478502 AGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATA
261 AGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATA
*
90478563 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGTACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* *
90478628 CAATCCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCTTCAATTTGTTCC
66 CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCAATTTGTTCC
90478693 TTGTAAGCACAAGGATGCCAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATC
131 TTGTAAGCACAAGGATGCCAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATC
*
90478758 TGTTATATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACA
196 TATTATATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACA
* *
90478823 AGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
261 AGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATA
* * *
90478884 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATCC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
*
90478949 CAAATCATCTTG
66 CAAACCATCTTG
90478961 GATCTGCTTC
Statistics
Matches: 377, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
321 377 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (321 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCTACGTCCTCAATTTGTTCC
TTGTAAGCACAAGGATGCCAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATC
TATTATATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACA
AGAATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATA
Found at i:90478664 original size:202 final size:202
Alignment explanation
Indices: 90478444--90478817 Score: 631
Period size: 202 Copynumber: 1.9 Consensus size: 202
90478434 ATCTATTATA
* * *
90478444 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCTATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCTTGTAAACACAAGAATAC
* *
90478509 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATATTTGAGAACGT
66 CAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATATTTGAGAACGT
90478574 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGTACAAGGATGCCAATCCATCTT
131 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGTACAAGGATGCCAATCCATCTT
90478639 GAGTCTG
196 GAGTCTG
* * * * * *
90478646 TTTGAGAACATTTGAGAGTCATATCTGCTACGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCTTGTAAACACAAGAATAC
* *
90478711 CAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATATTTGAGAACGT
66 CAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATATTTGAGAACGT
90478776 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAA
131 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAA
90478818 ACACAAGAAT
Statistics
Matches: 159, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
202 159 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (202 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCTTGTAAACACAAGAATAC
CAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAAATCTATTATATTTGAGAACGT
CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGTACAAGGATGCCAATCCATCTT
GAGTCTG
Found at i:90478705 original size:83 final size:83
Alignment explanation
Indices: 90478563--90478721 Score: 246
Period size: 83 Copynumber: 1.9 Consensus size: 83
90478553 ATCTATTATA
* * * *
90478563 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGTACAAGGATGC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGC
*
90478628 CAATCCATCTTGAGTCTG
66 CAAACCATCTTGAGTCTG
* * *
90478646 TTTGAGAACATTTGAGAGTCATATCTGCTACGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGC
90478711 CAAACCATCTT
66 CAAACCATCTT
90478722 AGATCTGCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (83 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTACGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGC
CAAACCATCTTGAGTCTG
Found at i:90478857 original size:119 final size:119
Alignment explanation
Indices: 90478646--90479118 Score: 752
Period size: 119 Copynumber: 4.0 Consensus size: 119
90478636 CTTGAGTCTG
* * * * * * * * *
90478646 TTTGAGAACATTTGAGAGTCATATCTGCTACGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
90478711 CAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
90478765 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
90478830 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
*
90478884 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATCC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
90478949 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
* *
90479003 TTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTT-TTTCTTGTAAACACAAGAATA
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGA-TTTGTTCCTTGTAAACACAAGAATA
* **
90479067 CCAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGTT
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGTT
90479119 GTCTTCAATT
Statistics
Matches: 333, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
118 2 0.01
119 328 0.98
120 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
Found at i:90488963 original size:23 final size:22
Alignment explanation
Indices: 90488914--90488964 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
90488904 GAATTGATAG
* *
90488914 TTTAAAATATTTTTATAAAATA
1 TTTAAAATATTTTTAGAAAAGA
* *
90488936 ATTAAAATATGTTTTAGACAAGA
1 TTTAAAATAT-TTTTAGAAAAGA
90488959 TTTAAA
1 TTTAAA
90488965 GTTTTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (22 bp):
TTTAAAATATTTTTAGAAAAGA
Found at i:90489627 original size:31 final size:32
Alignment explanation
Indices: 90489575--90489641 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 32
90489565 AACCTTATGT
90489575 GTTT-TAAACAACTAATGCGTGAGCTTAAAAA
1 GTTTATAAACAACTAATGCGTGAGCTTAAAAA
90489606 GTTTATAAACAACT-ATGCGTGAGCTTAAAAA
1 GTTTATAAACAACTAATGCGTGAGCTTAAAAA
90489637 GTTTA
1 GTTTA
90489642 GTAAGTGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 26 0.74
32 9 0.26
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (32 bp):
GTTTATAAACAACTAATGCGTGAGCTTAAAAA
Found at i:90490339 original size:14 final size:14
Alignment explanation
Indices: 90490320--90490349 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90490310 AATGAGACTT
90490320 TAAGGATGTTACAA
1 TAAGGATGTTACAA
90490334 TAAGGATGTTACAA
1 TAAGGATGTTACAA
90490348 TA
1 TA
90490350 GTATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
TAAGGATGTTACAA
Found at i:90492140 original size:13 final size:12
Alignment explanation
Indices: 90492124--90492161 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
90492114 AGTGAACAAT
90492124 AGAAATAAGTAAA
1 AGAAATAAG-AAA
90492137 AGAAA-AAGAAA
1 AGAAATAAGAAA
90492148 AGGAAATAAGAAA
1 A-GAAATAAGAAA
90492161 A
1 A
90492162 TCTTTGCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.17
12 7 0.30
13 12 0.52
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (12 bp):
AGAAATAAGAAA
Found at i:90501946 original size:20 final size:21
Alignment explanation
Indices: 90501923--90501970 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
90501913 GATTAATAGT
*
90501923 GTAGTTTACTCTAAAACTT-A
1 GTAGTTTACCCTAAAACTTAA
90501943 GTAGTTTACCCTAAAACTTAA
1 GTAGTTTACCCTAAAACTTAA
90501964 GTAGTTT
1 GTAGTTT
90501971 TGTACACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (21 bp):
GTAGTTTACCCTAAAACTTAA
Found at i:90503202 original size:17 final size:16
Alignment explanation
Indices: 90503182--90503228 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
90503172 AAATTTAATT
90503182 AAAAAATAAAATTAAC
1 AAAAAATAAAATTAAC
*
90503198 AAAAAAATATAAA-TATC
1 -AAAAAATA-AAATTAAC
*
90503215 AAAAATTAAAATTA
1 AAAAAATAAAATTA
90503229 TCATTATGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 11 0.42
18 3 0.12
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATAAAATTAAC
Found at i:90503230 original size:16 final size:16
Alignment explanation
Indices: 90503182--90503231 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
90503172 AAATTTAATT
*
90503182 AAAAAATAAAATTAAC
1 AAAAAATAAAATTATC
90503198 AAAAAAATATAAA-TATC
1 -AAAAAATA-AAATTATC
*
90503215 AAAAATTAAAATTATC
1 AAAAAATAAAATTATC
90503231 A
1 A
90503232 TTATGCTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 3 0.10
16 12 0.41
17 11 0.38
18 3 0.10
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATAAAATTATC
Found at i:90508250 original size:6 final size:6
Alignment explanation
Indices: 90508239--90508288 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
90508229 ATTTAGCCAT
* *
90508239 TTTTTA TTTTTA TTTTTA TTTTAATA TTTTTA TTTTTA ATTTAA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTT--TA TTTTTA TTTTTA TTTTTA TTTTTA
90508289 CATTTTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 32 0.84
8 6 0.16
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:90508268 original size:20 final size:20
Alignment explanation
Indices: 90508243--90508287 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
90508233 AGCCATTTTT
*
90508243 TATTTTTATTTTTATTTTAA
1 TATTTTTATTTTTAATTTAA
90508263 TATTTTTATTTTTAATTTAA
1 TATTTTTATTTTTAATTTAA
90508283 T-TTTT
1 TATTTT
90508288 ACATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TATTTTTATTTTTAATTTAA
Found at i:90508275 original size:26 final size:26
Alignment explanation
Indices: 90508239--90508300 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
90508229 ATTTAGCCAT
* * *
90508239 TTTTTATTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAATTTAATTTTAACA
*
90508265 TTTTTATTTTTAATTTAATTTTTACA
1 TTTTTATTTTTAATTTAATTTTAACA
*
90508291 TTTTAATTTT
1 TTTTTATTTT
90508301 CCGTTTCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTATTTTTAATTTAATTTTAACA
Found at i:90508278 original size:15 final size:14
Alignment explanation
Indices: 90508239--90508274 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
90508229 ATTTAGCCAT
90508239 TTTTTATTTT--TA
1 TTTTTATTTTAATA
90508251 TTTTTATTTTAATA
1 TTTTTATTTTAATA
90508265 TTTTTATTTT
1 TTTTTATTTT
90508275 TAATTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
14 12 0.55
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTATTTTAATA
Found at i:90508293 original size:20 final size:20
Alignment explanation
Indices: 90508243--90508299 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
90508233 AGCCATTTTT
* *
90508243 TATTTTTATTTTTATTTTAA
1 TATTTTCATTTTTAATTTAA
*
90508263 TATTTTTATTTTTAATTTAA
1 TATTTTCATTTTTAATTTAA
90508283 T-TTTTACA-TTTTAATTT
1 TATTTT-CATTTTTAATTT
90508300 TCCGTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 13 0.38
20 21 0.62
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTTCATTTTTAATTTAA
Found at i:90508297 original size:14 final size:13
Alignment explanation
Indices: 90508239--90508300 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 13
90508229 ATTTAGCCAT
*
90508239 TTTTTATTTTT-A
1 TTTTAATTTTTAA
* *
90508251 TTTTTATTTTAATA
1 TTTTAATTTTTA-A
*
90508265 TTTTTATTTTTAA
1 TTTTAATTTTTAA
90508278 -TTTAATTTTTACA
1 TTTTAATTTTTA-A
90508291 TTTTAATTTT
1 TTTTAATTTT
90508301 CCGTTTCTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
12 20 0.47
13 2 0.05
14 21 0.49
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:90509840 original size:18 final size:18
Alignment explanation
Indices: 90509817--90509852 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
90509807 AAACAAGAAA
90509817 GAGCATAAATCGGTGGTT
1 GAGCATAAATCGGTGGTT
*
90509835 GAGCATAAGTCGGTGGTT
1 GAGCATAAATCGGTGGTT
90509853 AGAGAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.36, T:0.28
Consensus pattern (18 bp):
GAGCATAAATCGGTGGTT
Found at i:90510169 original size:53 final size:52
Alignment explanation
Indices: 90510086--90510238 Score: 155
Period size: 53 Copynumber: 2.9 Consensus size: 52
90510076 AAAGTTTTTA
* * *
90510086 GGGTTCGGAGGAAATAAAAGTTTTGAGAGAAAGCAAAAGGAAAAAAAAATTGG
1 GGGTTTGG-GGAAGTAAAAGTTTTGAGAGAAAGCAAAAGGAAAAAAAAATTAG
* *****
90510139 GGGTTTGGGGAAGTAAAAGTTTTGAGGAGAAAGTAAAAGGAAAATTTTTTTAG
1 GGGTTTGGGGAAGTAAAAGTTTTGA-GAGAAAGCAAAAGGAAAAAAAAATTAG
* *
90510192 GGGTTTGGAGGGAAGTAAAACTTTTGACG-GAAATCAAAAGGAAAAAA
1 GGGTTT-G-GGGAAGTAAAAGTTTTGA-GAGAAAGCAAAAGGAAAAAA
90510239 GTTATTCGAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
52 16 0.20
53 33 0.40
54 15 0.18
55 18 0.22
ACGTcount: A:0.44, C:0.03, G:0.31, T:0.22
Consensus pattern (52 bp):
GGGTTTGGGGAAGTAAAAGTTTTGAGAGAAAGCAAAAGGAAAAAAAAATTAG
Found at i:90511256 original size:25 final size:25
Alignment explanation
Indices: 90511228--90511283 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
90511218 ATAAACTTCC
*
90511228 AAATCAATCAATTATCT-G-AAAATGA
1 AAATCAAT-AATTATATAGCAAAAT-A
*
90511253 AAATCTATAATTATATAGCAAAATA
1 AAATCAATAATTATATAGCAAAATA
90511278 AAATCA
1 AAATCA
90511284 TTGTCGGTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 7 0.27
25 14 0.54
26 5 0.19
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (25 bp):
AAATCAATAATTATATAGCAAAATA
Found at i:90512514 original size:20 final size:20
Alignment explanation
Indices: 90512486--90512583 Score: 56
Period size: 20 Copynumber: 4.6 Consensus size: 20
90512476 TTTATTCATA
*
90512486 TTAACATTTTTAAAGTAATT
1 TTAAAATTTTTAAAGTAATT
*
90512506 TTAAAATTTTTACAATTTAATT
1 TTAAAATTTTTA-AA-GTAATT
* * *
90512528 TCT--AAGTTATAAAATCAAATCAT
1 T-TAAAATTTTTAAAGT--AAT--T
*
90512551 ATTAACATTTTTAAAGTAATT
1 -TTAAAATTTTTAAAGTAATT
90512572 TTAAAATTTTTA
1 TTAAAATTTTTA
90512584 CAATTTAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 20
0.66 0.11 0.23
Matches are distributed among these distances:
19 1 0.02
20 24 0.41
21 12 0.21
22 6 0.10
23 6 0.10
24 1 0.02
25 8 0.14
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (20 bp):
TTAAAATTTTTAAAGTAATT
Found at i:90512541 original size:30 final size:30
Alignment explanation
Indices: 90512507--90512608 Score: 80
Period size: 30 Copynumber: 3.2 Consensus size: 30
90512497 AAAGTAATTT
90512507 TAAAATTTTTACAATTTAATTTCTAAGTTA
1 TAAAATTTTTACAATTTAATTTCTAAGTTA
*** * * *
90512537 TAAAA-TCAAATCATATTAACATTTTTAAAGTAATTT
1 TAAAATTTTTA-CA-ATTTA-ATTTCT-AAG---TTA
90512573 TAAAATTTTTACAATTTAATTTCTAAGTTA
1 TAAAATTTTTACAATTTAATTTCTAAGTTA
90512603 TAAAAT
1 TAAAAT
90512609 CAAATCAAGT
Statistics
Matches: 52, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
29 2 0.04
30 15 0.29
31 4 0.08
32 5 0.10
33 6 0.12
34 5 0.10
35 4 0.08
36 9 0.17
37 2 0.04
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (30 bp):
TAAAATTTTTACAATTTAATTTCTAAGTTA
Found at i:90512552 original size:66 final size:66
Alignment explanation
Indices: 90512481--90512615 Score: 270
Period size: 66 Copynumber: 2.0 Consensus size: 66
90512471 CTTAGTTTAT
90512481 TCATATTAACATTTTTAAAGTAATTTTAAAATTTTTACAATTTAATTTCTAAGTTATAAAATCAA
1 TCATATTAACATTTTTAAAGTAATTTTAAAATTTTTACAATTTAATTTCTAAGTTATAAAATCAA
90512546 A
66 A
90512547 TCATATTAACATTTTTAAAGTAATTTTAAAATTTTTACAATTTAATTTCTAAGTTATAAAATCAA
1 TCATATTAACATTTTTAAAGTAATTTTAAAATTTTTACAATTTAATTTCTAAGTTATAAAATCAA
90512612 A
66 A
90512613 TCA
1 TCA
90512616 AGTTAAATTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (66 bp):
TCATATTAACATTTTTAAAGTAATTTTAAAATTTTTACAATTTAATTTCTAAGTTATAAAATCAA
A
Found at i:90516772 original size:20 final size:19
Alignment explanation
Indices: 90516749--90516812 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
90516739 CAATTTTTTT
90516749 AAAAAAATTATAAAAATTAA
1 AAAAAAATTA-AAAAATTAA
* *
90516769 AAAAAAACTAAAAAGTATAA
1 AAAAAAATTAAAAAAT-TAA
*
90516789 AAAGAAAGTTAAAAAATTAA
1 AAA-AAAATTAAAAAATTAA
90516809 AAAA
1 AAAA
90516813 TTTCTAGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 6 0.16
20 21 0.57
21 10 0.27
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAAAAATTAAAAAATTAA
Done.