Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 27 of 126
Found at i:7648613 original size:43 final size:43
Alignment explanation
Indices: 7648547--7648633 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
7648537 ACATATGCAA
* * *
7648547 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
* * *
7648590 GGTAATAAAAGATATAATACATTTACTTACTCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
7648633 G
1 G
7648634 TACATCATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:7652560 original size:16 final size:16
Alignment explanation
Indices: 7652513--7652562 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
7652503 GGTTCCCTGA
7652513 ATTGGATTAGAGGTGT
1 ATTGGATTAGAGGTGT
*
7652529 ATTGAAATTAGAGGTGT
1 ATTG-GATTAGAGGTGT
*
7652546 ATTGGATTAGTGGTGT
1 ATTGGATTAGAGGTGT
7652562 A
1 A
7652563 ATAGCAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 15 0.50
17 15 0.50
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
ATTGGATTAGAGGTGT
Found at i:7652825 original size:18 final size:17
Alignment explanation
Indices: 7652804--7652838 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7652794 TTATTATTAA
*
7652804 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7652822 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7652839 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7652999 original size:19 final size:18
Alignment explanation
Indices: 7652924--7653079 Score: 68
Period size: 18 Copynumber: 8.0 Consensus size: 18
7652914 TTATTATTAA
*
7652924 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
*
7652942 ACATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
7652960 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
7652979 ATATGAATTTAATAAAATT
1 ATAT-AATTTAATAAAATT
* *
7652998 ATA-ATATATAATACTATAA-A
1 ATATA-ATTTAATA--A-AATT
7653018 ATATAATTTAAAATAATTATTATT
1 ATATAATTT--AATAA--A--ATT
7653042 AAATATAATTTAATAGAAA-T
1 --ATATAATTTAATA-AAATT
7653062 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
7653080 CTTAATATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 38
0.66 0.10 0.24
Matches are distributed among these distances:
17 8 0.08
18 39 0.38
19 16 0.15
20 12 0.12
21 9 0.09
22 4 0.04
23 2 0.02
24 4 0.04
25 1 0.01
26 9 0.09
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:7653026 original size:38 final size:38
Alignment explanation
Indices: 7652979--7653158 Score: 141
Period size: 38 Copynumber: 4.5 Consensus size: 38
7652969 AAATATTCTT
7652979 ATATGAATTTAATAAAATTATAATATATAATACTATAAA
1 ATAT-AATTTAATAAAATTATAATATATAATACTATAAA
* * *
7653018 ATATAATTTAA-AATAATTATTATTAAATATAATTTAATAGAAA
1 ATATAATTTAATAA-AATTA-TA--ATATATAA--TACTATAAA
* * * * *
7653061 TATATAATTTAATAAAATTCTTAATATTTAAATATTCTTAA
1 -ATATAATTTAATAAAATT-ATAATATAT-AATACTATAAA
* * *
7653102 AT-GAATTTACTAAAATCATAATATATAATACTATAAA
1 ATATAATTTAATAAAATTATAATATATAATACTATAAA
7653139 ATATAATTTAA-AATAATTAT
1 ATATAATTTAATAA-AATTAT
7653159 TATTAAATAT
Statistics
Matches: 108, Mismatches: 21, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
37 14 0.13
38 30 0.28
39 18 0.17
40 2 0.02
41 12 0.11
42 4 0.04
43 9 0.08
44 17 0.16
45 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (38 bp):
ATATAATTTAATAAAATTATAATATATAATACTATAAA
Found at i:7653032 original size:22 final size:23
Alignment explanation
Indices: 7652990--7653032 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
7652980 TATGAATTTA
*
7652990 ATAAAATTATAATATATAATACT
1 ATAAAATTATAATATAAAATACT
*
7653013 ATAAAA-TATAATTTAAAATA
1 ATAAAATTATAATATAAAATA
7653033 ATTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAATTATAATATAAAATACT
Found at i:7653148 original size:121 final size:119
Alignment explanation
Indices: 7652782--7653207 Score: 569
Period size: 120 Copynumber: 3.5 Consensus size: 119
7652772 ATTTAATCAT
* *
7652782 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAAT-
* ** * * *
7652847 ATTAGCAGA-AAT-TT-AT---TTTGGTAAATTATTATTAATA-ATAAATAATTTAAAAGATA
64 ATTA--A-ATATTCTTAATGAATTTAATAAA--ATTA-TAATATAT-AATACTATAAAATATA
* *
7652903 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATACATAATTTAATAAAATTCTTAATAT
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
7652968 TAAATATTCTTATATGAATTTAATAAAATTATAATATATAATACTATAAAATATA
66 TAAATATTCTTA-ATGAATTTAATAAAATTATAATATATAATACTATAAAATATA
*
7653023 ATTTAAAATAATTATTATTAAATATAATTTAATAGAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-
* *
7653088 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
65 TTAAATATTCTT-AATGAATTTAATAAAATTATAATATATAATACTATAAAATATA
*
7653144 ATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
7653208 ATTAGCAGAA
Statistics
Matches: 278, Mismatches: 17, Indels: 20
0.88 0.05 0.06
Matches are distributed among these distances:
116 1 0.00
117 3 0.01
118 2 0.01
119 4 0.01
120 134 0.48
121 126 0.45
122 1 0.00
123 7 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (119 bp):
ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTAATGAATTTAATAAAATTATAATATATAATACTATAAAATATA
Found at i:7653343 original size:18 final size:17
Alignment explanation
Indices: 7653322--7653356 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7653312 TTATTATTAA
*
7653322 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7653340 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7653357 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7653453 original size:157 final size:156
Alignment explanation
Indices: 7653144--7653434 Score: 411
Period size: 157 Copynumber: 1.8 Consensus size: 156
7653134 ATAAAATATA
7653144 ATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATAA
*** ** * *** * *
7653209 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
66 TTAGCAGAAATTTGTTTTGGTAAATTATTATTACAATAATAATTTAAAAGATAATAACATAATTA
7653274 ATATCAATAATAAATAATTTAATCAT
131 ATATCAATAATAAATAATTTAATCAT
* **
7653300 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATA
7653365 ATTAGCAGAAATTTGTTTTGGTAAATTATTATTAACAATAAATAATTTAAAAGATAATTTAACAT
65 ATTAGCAGAAATTTGTTTTGGTAAATTATTATT-ACAAT-AATAATTTAAAAGATAA--TAACAT
7653430 AATTA
126 AATTA
7653435 TTATTAAATA
Statistics
Matches: 116, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
156 7 0.06
157 87 0.75
158 2 0.02
159 11 0.09
161 9 0.08
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (156 bp):
ATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAATAA
TTAGCAGAAATTTGTTTTGGTAAATTATTATTACAATAATAATTTAAAAGATAATAACATAATTA
ATATCAATAATAAATAATTTAATCAT
Found at i:7656160 original size:14 final size:14
Alignment explanation
Indices: 7656137--7656175 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
7656127 TCTTAAATCT
*
7656137 CTAACTCTTAAC-C
1 CTAACCCTTAACTC
7656150 CTTAACCCTTAACTC
1 C-TAACCCTTAACTC
7656165 CTAACCCTTAA
1 CTAACCCTTAA
7656176 ACATTAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 1 0.04
14 20 0.87
15 2 0.09
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (14 bp):
CTAACCCTTAACTC
Found at i:7656182 original size:21 final size:21
Alignment explanation
Indices: 7656138--7656198 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
7656128 CTTAAATCTC
* * *
7656138 TAACTCTTAACCCTTAACCCT
1 TAACTCCTAACCCTTAAACAT
7656159 TAACTCCTAACCCTTAAACAT
1 TAACTCCTAACCCTTAAACAT
* *
7656180 TAAATCCCAACCCTTAAAC
1 TAACTCCTAACCCTTAAAC
7656199 CATAATCCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (21 bp):
TAACTCCTAACCCTTAAACAT
Found at i:7656497 original size:20 final size:21
Alignment explanation
Indices: 7656472--7656510 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7656462 CTAGTTAATC
7656472 TAAACCCT-AAACCATAAACT
1 TAAACCCTAAAACCATAAACT
7656492 TAAACCCTAAAACCATAAA
1 TAAACCCTAAAACCATAAA
7656511 ACCATAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAACT
Found at i:7656519 original size:7 final size:7
Alignment explanation
Indices: 7656472--7656575 Score: 52
Period size: 7 Copynumber: 14.4 Consensus size: 7
7656462 CTAGTTAATC
*
7656472 TAAACCC
1 TAAACCA
7656479 TAAACCA
1 TAAACCA
*
7656486 TAAA-CT
1 TAAACCA
*
7656492 TAAACCC
1 TAAACCA
7656499 TAAAACCA
1 T-AAACCA
7656507 TAAAACCA
1 T-AAACCA
7656515 TAAACTC-
1 TAAAC-CA
*
7656522 TTAACACA
1 TAAAC-CA
*
7656530 T-AACCTC
1 TAAACC-A
*
7656537 TAAACCT
1 TAAACCA
* *
7656544 TAAGCCTT
1 TAAACC-A
*
7656552 TAAATCA
1 TAAACCA
7656559 TAAACCA
1 TAAACCA
7656566 TAAACCA
1 TAAACCA
7656573 TAA
1 TAA
7656576 CTCCTAAACC
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
6 6 0.08
7 46 0.60
8 25 0.32
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:7656677 original size:13 final size:13
Alignment explanation
Indices: 7656659--7656685 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7656649 CCAAAAACCC
7656659 TATACTCTAACGA
1 TATACTCTAACGA
7656672 TATACTCTAACGA
1 TATACTCTAACGA
7656685 T
1 T
7656686 TATAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (13 bp):
TATACTCTAACGA
Found at i:7656889 original size:41 final size:41
Alignment explanation
Indices: 7656808--7657061 Score: 309
Period size: 41 Copynumber: 6.2 Consensus size: 41
7656798 TAAATTATTT
* * * *
7656808 TAAATCCCTGAGCATTAGCGGTGCTTCTTA--GAAAATGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGC-T-TTACCAAAAACGCCGC
* *
7656849 AAAAGCCCTGAGCATTCGCGGCGCTTTAACC-AAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTT-ACCAAAAACGCCGC
* *
7656890 TAAAGCCCTAAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACGCCGC
* *
7656931 TAAAGCCTTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACGCCGC
7656972 TAAAGCCCTGAGCATTAGCGGCGCTTTTA-CAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGC-TTTACCAAAAACGCCGC
* * * * *
7657013 TAAAGCCTTGAGAATTAGCGGCTCTTTCCCAAAAACGCTGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACGCCGC
7657054 TAAAGCCC
1 TAAAGCCC
7657062 CCAAAGCTCA
Statistics
Matches: 188, Mismatches: 19, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.01
40 7 0.04
41 176 0.94
42 3 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACGCCGC
Found at i:7656955 original size:82 final size:82
Alignment explanation
Indices: 7656808--7657061 Score: 341
Period size: 82 Copynumber: 3.1 Consensus size: 82
7656798 TAAATTATTT
* * * * * * * *
7656808 TAAATCCCTGAGCATTAGCGGTGCTTCTTA-GAAAATGCCGCAAAAGCCCTGAGCATTCGCGGCG
1 TAAAGCCCTGAGCATTAGCGGCGCTT-TCACAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCG
*
7656872 CTTTAACC-AAAACGCCGC
65 CTTT-CCCAAAAACGCCGC
* *
7656890 TAAAGCCCTAAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGC
7656955 TTTCCCAAAAACGCCGC
66 TTTCCCAAAAACGCCGC
* * *
7656972 TAAAGCCCTGAGCATTAGCGGCGCTTTTACAAAAACGCCGCTAAAGCCTTGAGAATTAGCGGCTC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGC
*
7657037 TTTCCCAAAAACGCTGC
66 TTTCCCAAAAACGCCGC
7657054 TAAAGCCC
1 TAAAGCCC
7657062 CCAAAGCTCA
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
81 3 0.02
82 150 0.98
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (82 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCACAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGC
TTTCCCAAAAACGCCGC
Found at i:7657040 original size:123 final size:123
Alignment explanation
Indices: 7656816--7657060 Score: 357
Period size: 123 Copynumber: 2.0 Consensus size: 123
7656806 TTTAAATCCC
* ** * * *
7656816 TGAGCATTAGCGGTGCTTCTTAGAAAATGCCGCAAAAGCCCTGAGCATTCGCGGCGCTTTAACCA
1 TGAGCATTAGCGGCGCTTCCCAGAAAACGCCGCAAAAGCCCTGAGCATTAGCGGCGCTTTAACAA
*
7656881 AAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCT
66 AAACGCCGCTAAAGCCCTAAGAATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCT
* *
7656939 TGAGCATTAGCGGCGCTTTCCCA-AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTACA
1 TGAGCATTAGCGGCGC-TTCCCAGAAAACGCCGCAAAAGCCCTGAGCATTAGCGGCGCTTTAACA
* * * *
7657003 AAAACGCCGCTAAAGCCTTGAGAATTAGCGGCTCTTTCCCAAAAACGCTGCTAAAGCC
65 AAAACGCCGCTAAAGCCCTAAGAATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
7657061 CCCAAAGCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
123 104 0.96
124 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.20
Consensus pattern (123 bp):
TGAGCATTAGCGGCGCTTCCCAGAAAACGCCGCAAAAGCCCTGAGCATTAGCGGCGCTTTAACAA
AAACGCCGCTAAAGCCCTAAGAATTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCT
Found at i:7657152 original size:39 final size:41
Alignment explanation
Indices: 7657096--7657232 Score: 147
Period size: 40 Copynumber: 3.4 Consensus size: 41
7657086 TGGGCTTAGG
* *
7657096 TTTTTTGCGGCGCTTTTTCAGAAAA-CGCCGCTAATGCTTG-
1 TTTTTAGCGGCG-TTTTTCAGAAAAGCGCCGCTAATGCTAGA
*
7657136 TTTTTAGCGGCGTTTTTCA-AAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCAGAAAAGCGCCGCTAATGCTAGA
** * * *
7657176 CCTTTAGTGGTGCTTTTC-GAAAAGCGCCGCTAATGCTAGA
1 TTTTTAGCGGCGTTTTTCAGAAAAGCGCCGCTAATGCTAGA
* *
7657216 TTTTCAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
7657233 TGTCCAATCG
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 4 0.05
39 21 0.26
40 56 0.69
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTTCAGAAAAGCGCCGCTAATGCTAGA
Found at i:7657943 original size:12 final size:12
Alignment explanation
Indices: 7657926--7657956 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
7657916 TATTTTAAGT
7657926 TATATATATGTA
1 TATATATATGTA
7657938 TATATATATGTA
1 TATATATATGTA
7657950 TATATAT
1 TATATAT
7657957 TATTTACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
TATATATATGTA
Found at i:7660326 original size:19 final size:20
Alignment explanation
Indices: 7660286--7660329 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
7660276 GTCTCTTTTG
* *
7660286 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
7660305 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
7660324 GCATTA
1 GCATTA
7660330 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:7679834 original size:9 final size:10
Alignment explanation
Indices: 7679809--7679834 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7679799 TTTCTTAAAG
7679809 AATTTTTTAA
1 AATTTTTTAA
7679819 AATTTTTTAA
1 AATTTTTTAA
7679829 AATTTT
1 AATTTT
7679835 CTATTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:7680955 original size:20 final size:22
Alignment explanation
Indices: 7680930--7680969 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7680920 TAGATTGAGA
7680930 TTTTT-AA-ATAAAAATTAATT
1 TTTTTAAATATAAAAATTAATT
7680950 TTTTTAAATATAAAAATTAA
1 TTTTTAAATATAAAAATTAA
7680970 ATTTCAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTTAAATATAAAAATTAATT
Found at i:7685121 original size:36 final size:36
Alignment explanation
Indices: 7685073--7685148 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
7685063 ATTGTAAATA
* * * *
7685073 TTTT-ATTGTTACTAATATTCTTAATTTGATTTTTT
1 TTTTAATTGTTACTAATATACATAATTTGAATATTT
* *
7685108 TTTTAATTTTTACTAGTATACATAATTTGAATATTT
1 TTTTAATTGTTACTAATATACATAATTTGAATATTT
7685144 TTTTA
1 TTTTA
7685149 CTATTTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 4 0.12
36 30 0.88
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (36 bp):
TTTTAATTGTTACTAATATACATAATTTGAATATTT
Found at i:7689034 original size:32 final size:30
Alignment explanation
Indices: 7688990--7689070 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
7688980 CCAAAATGAC
* * *
7688990 TTTTCATTTAAAACAAATTTATCCTTTTGGTT-
1 TTTTTATTTAAAACAAATTT-T-ATTTT-ATTA
7689022 TTTTTATTTAAAACAAATTTTATTTTATTA
1 TTTTTATTTAAAACAAATTTTATTTTATTA
*
7689052 TTATTATTTAAAACAAATT
1 TTTTTATTTAAAACAAATT
7689071 AAATAGACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.05
30 22 0.50
31 1 0.02
32 19 0.43
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTTTATTTAAAACAAATTTTATTTTATTA
Found at i:7691354 original size:17 final size:17
Alignment explanation
Indices: 7691332--7691365 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7691322 TTTTGAAATT
7691332 TATTTTCAAATTTTTAA
1 TATTTTCAAATTTTTAA
*
7691349 TATTTTCTAATTTTTAA
1 TATTTTCAAATTTTTAA
7691366 AAATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTTCAAATTTTTAA
Found at i:7691383 original size:22 final size:20
Alignment explanation
Indices: 7691341--7691399 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
7691331 TTATTTTCAA
*
7691341 ATTTTT-AA-TATTTTCTA-
1 ATTTTTAAATTATTTTTTAT
7691358 ATTTTTAAAAATTATTTTTTAT
1 ATTTTT--AAATTATTTTTTAT
7691380 ATTTTTAAATT-TTTTTTAT
1 ATTTTTAAATTATTTTTTAT
7691399 A
1 A
7691400 CATTACATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 6 0.17
19 9 0.25
20 7 0.19
21 8 0.22
22 6 0.17
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTAAATTATTTTTTAT
Found at i:7693302 original size:3 final size:3
Alignment explanation
Indices: 7693294--7693336 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
7693284 TTTAGCAATT
* * *
7693294 TTA TTA TTA TTA TTA CTA TTA TTA TTG CTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7693337 AATTGTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7705915 original size:46 final size:45
Alignment explanation
Indices: 7705848--7706188 Score: 207
Period size: 46 Copynumber: 7.8 Consensus size: 45
7705838 ATTATACAGG
*
7705848 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-ATTTCAGA
* * * *
7705894 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAT-TTCAGA
* * * * * *
7705938 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG------GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTTCAGA
* * * *
7705977 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC----ATATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTTCAGA
*
7706018 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-ATTTCAGA
* * * * *
7706064 TCTTATCTCCATGAGATTACAGCGGAGCAGATCGAAGA---CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTTCA-GA
* * * * ***
7706107 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAACAGATCAAAGATTTCAGA
* * *
7706151 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGA
7706189 CACTATCTTA
Statistics
Matches: 226, Mismatches: 45, Indels: 49
0.71 0.14 0.15
Matches are distributed among these distances:
38 1 0.00
39 23 0.10
40 1 0.00
41 27 0.12
42 5 0.02
43 29 0.13
44 61 0.27
45 7 0.03
46 72 0.32
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTTCAGA
Found at i:7706128 original size:43 final size:43
Alignment explanation
Indices: 7706018--7706221 Score: 164
Period size: 43 Copynumber: 4.7 Consensus size: 43
7706008 TCATATCAGG
* * * * *
7706018 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---C-TA
*
7706064 TCTTATCTCCATGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
* * * * * * **
7706107 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGA-CA-CTA
7706151 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
* *
7706194 TCTTATCTCCCCGA-AGTTACAGTGGAGC
1 TCTTATCTCCCTGAGA-TTACAGCGGAGC
7706222 GGATTAAAGG
Statistics
Matches: 126, Mismatches: 25, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
42 5 0.04
43 53 0.42
44 30 0.24
45 4 0.03
46 33 0.26
47 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
Found at i:7706152 original size:87 final size:87
Alignment explanation
Indices: 7706061--7706229 Score: 311
Period size: 87 Copynumber: 1.9 Consensus size: 87
7706051 AAAGAATTTC
*
7706061 AGATCTTATCTCCATGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCATGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
7706126 CAGTGGAGCGGATTAAAATAAG
66 CAGTGGAGCGGATTAAAATAAG
* *
7706148 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTA
1 AGATCTTATCTCCATGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
7706213 CAGTGGAGCGGATTAAA
66 CAGTGGAGCGGATTAAA
7706230 GGATCTTATC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (87 bp):
AGATCTTATCTCCATGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
CAGTGGAGCGGATTAAAATAAG
Found at i:7706164 original size:44 final size:42
Alignment explanation
Indices: 7706110--7706254 Score: 127
Period size: 43 Copynumber: 3.5 Consensus size: 42
7706100 GACACTATCC
7706110 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA-AA-AGATCT
* * * * * **
7706154 TATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACACTATCT
1 TATCTCCCTGAAG-TTACAGTGGAGCGGAT-TAAAAAAAGATCT
* *
7706197 TATCTCCCCGAAGTTACAGTGGAGCGGATT---AAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAAAGATCT
* *
7706236 TATCTCTCTGAGGTTACAG
1 TATCTCCCTGAAGTTACAG
7706255 CAGAGTAGAT
Statistics
Matches: 81, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
39 22 0.27
43 29 0.36
44 27 0.33
45 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (42 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAAAGATCT
Found at i:7706265 original size:82 final size:84
Alignment explanation
Indices: 7706061--7706266 Score: 301
Period size: 87 Copynumber: 2.4 Consensus size: 84
7706051 AAAGAATTTC
*
7706061 AGATCTTATCTCCATGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCC-TGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
7706126 CAGTGGAGCGGATTAAAATAAG
65 CAGTGGAGCGGATT--AATAAG
*
7706148 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCTTATCTCCCCGAAGTTA
1 AGATCTTATCT-CCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
7706213 CAGTGGAGCGGATT-A-AAG
65 CAGTGGAGCGGATTAATAAG
* * *
7706231 -GATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 AGATCTTATCTC-CTGAGATTACAGCGGAGCAGATCG
7706267 CATCAAGTCT
Statistics
Matches: 112, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
81 1 0.01
82 31 0.28
83 3 0.03
84 1 0.01
87 74 0.66
88 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (84 bp):
AGATCTTATCTCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTAC
AGTGGAGCGGATTAATAAG
Found at i:7712991 original size:36 final size:36
Alignment explanation
Indices: 7712944--7713018 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
7712934 AGTATAAATA
** *
7712944 TTTTATCGTTACTAGTACT-CTTAATTTGAATATTTT
1 TTTTATCGTTACTAGTA-TAAATAAATTGAATATTTT
*
7712980 TTTTATTGTTACTAGTATAAATAAATTGAATATTTT
1 TTTTATCGTTACTAGTATAAATAAATTGAATATTTT
7713016 TTT
1 TTT
7713019 AGTATCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (36 bp):
TTTTATCGTTACTAGTATAAATAAATTGAATATTTT
Found at i:7715534 original size:29 final size:30
Alignment explanation
Indices: 7715502--7715560 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
7715492 TATAGTTTAA
* * *
7715502 TGTGTAATTATATATAT-TAACTTTGATTT
1 TGTGCAATTATATACATGAAACTTTGATTT
*
7715531 TGTGCAATTTTATACATGAAACTTTGATTT
1 TGTGCAATTATATACATGAAACTTTGATTT
7715561 GATCCAATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.51
Consensus pattern (30 bp):
TGTGCAATTATATACATGAAACTTTGATTT
Found at i:7723648 original size:21 final size:22
Alignment explanation
Indices: 7723598--7723649 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7723588 AAAAAAAAAC
* * *
7723598 CCTTACACCCATCACATCCTAA
1 CCTTTCACCCATCAAATCCAAA
7723620 CCTTTCACCCATCAAAT-CAAA
1 CCTTTCACCCATCAAATCCAAA
*
7723641 CTTTTCACC
1 CCTTTCACC
7723650 TAAAAAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.31, C:0.42, G:0.00, T:0.27
Consensus pattern (22 bp):
CCTTTCACCCATCAAATCCAAA
Found at i:7723755 original size:22 final size:22
Alignment explanation
Indices: 7723727--7723776 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
7723717 TAAAAACAAA
7723727 AACCTTTCACCCATCAAATCCT
1 AACCTTTCACCCATCAAATCCT
*
7723749 AACCTTTCACCCATCACATCCT
1 AACCTTTCACCCATCAAATCCT
*
7723771 AGCCTT
1 AACCTT
7723777 CTCTTTACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.42, G:0.02, T:0.28
Consensus pattern (22 bp):
AACCTTTCACCCATCAAATCCT
Found at i:7734201 original size:17 final size:17
Alignment explanation
Indices: 7734169--7734201 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7734159 GCTTGAGATT
*
7734169 CAAAACAACCTTAAAAC
1 CAAAACAACCTAAAAAC
7734186 CAAAACAACCTAAAAA
1 CAAAACAACCTAAAAA
7734202 AAAAAGATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.27, G:0.00, T:0.09
Consensus pattern (17 bp):
CAAAACAACCTAAAAAC
Found at i:7738069 original size:18 final size:20
Alignment explanation
Indices: 7738046--7738085 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
7738036 CCCTTTTTAC
7738046 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
7738064 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
7738084 AT
1 AT
7738086 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:7740523 original size:38 final size:39
Alignment explanation
Indices: 7740441--7740527 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 39
7740431 CGTTTGGATA
* * *
7740441 AAAAATGCCGCTATAGATTGAGCATTAGCGGCGCTTTTTG
1 AAAAATGCCGCTATAGATCGACCATTAGC-GCGCTTCTTG
*
7740481 AAAAATGCCGCTATAGGTCGACCATTAGC-CGCTTCTTG
1 AAAAATGCCGCTATAGATCGACCATTAGCGCGCTTCTTG
7740519 AAAAATGCC
1 AAAAATGCC
7740528 ACAAAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
38 17 0.40
40 26 0.60
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (39 bp):
AAAAATGCCGCTATAGATCGACCATTAGCGCGCTTCTTG
Found at i:7740643 original size:40 final size:40
Alignment explanation
Indices: 7740567--7740673 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
7740557 AGCTTTAGTG
*
7740567 GCATTAGCGGCGCTTTTTGAAAAACGCAAATGTAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCAAATATAGATCGA
* * ***
7740607 GCATTAGCGGTGCTTTTTGAAAAATGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCAAATATAGATCGA
* * * *
7740647 GCTTTGGCGGCGCTTTATCAAAAACGC
1 GCATTAGCGGCGCTTTTTGAAAAACGC
7740674 CACAAAAAAC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCAAATATAGATCGA
Found at i:7741003 original size:14 final size:14
Alignment explanation
Indices: 7740984--7741044 Score: 77
Period size: 14 Copynumber: 4.4 Consensus size: 14
7740974 TATCATTATA
* *
7740984 GTTTAGGCTCTATG
1 GTTTAGGGTATATG
7740998 GTTTAGGGTATATG
1 GTTTAGGGTATATG
*
7741012 ATTTAGGGTATATG
1 GTTTAGGGTATATG
* *
7741026 GTTTAGGGTTTAAG
1 GTTTAGGGTATATG
7741040 GTTTA
1 GTTTA
7741045 AGAGTTACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTATATG
Found at i:7741037 original size:7 final size:7
Alignment explanation
Indices: 7740997--7741195 Score: 50
Period size: 7 Copynumber: 28.0 Consensus size: 7
7740987 TAGGCTCTAT
7740997 GGTTTAG
1 GGTTTAG
* *
7741004 GGTATAT
1 GGTTTAG
*
7741011 GATTTAG
1 GGTTTAG
* *
7741018 GGTATAT
1 GGTTTAG
7741025 GGTTTAG
1 GGTTTAG
*
7741032 GGTTTAA
1 GGTTTAG
7741039 GGTTTAAG
1 GGTTT-AG
*
7741047 AGTTACTA-
1 GGTT--TAG
* *
7741055 -TTTTAA
1 GGTTTAG
*
7741061 GGTTTAA
1 GGTTTAG
*
7741068 GGATTATG
1 GGTTTA-G
7741076 GGTTTAG
1 GGTTTAG
*
7741083 GGATTATG
1 GGTTTA-G
*
7741091 GG-TTAT
1 GGTTTAG
*
7741097 GG-TTAT
1 GGTTTAG
7741103 GGTTTAAG
1 GGTTT-AG
* *
7741111 AG-TTGG
1 GGTTTAG
7741117 GGTTTAG
1 GGTTTAG
*
7741124 GGGTTAG
1 GGTTTAG
*
7741131 GGGTTAGG
1 GGTTTA-G
*
7741139 GGTTTAT
1 GGTTTAG
* *
7741146 GTTTTAT
1 GGTTTAG
*
7741153 GATTTAG
1 GGTTTAG
*
7741160 GATTTAG
1 GGTTTAG
**
7741167 GGGATAG
1 GGTTTAG
7741174 GAG-TTAGG
1 G-GTTTA-G
7741182 GGTTTAG
1 GGTTTAG
7741189 GGTTTAG
1 GGTTTAG
7741196 ATTAATAGTA
Statistics
Matches: 143, Mismatches: 35, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
5 2 0.01
6 10 0.07
7 103 0.72
8 26 0.18
9 1 0.01
10 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:7741079 original size:15 final size:15
Alignment explanation
Indices: 7741061--7741110 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
7741051 ACTATTTTAA
7741061 GGTTTAAGGATTATG
1 GGTTTAAGGATTATG
*
7741076 GGTTTAGGGATTATG
1 GGTTTAAGGATTATG
*
7741091 GG-TTATGG-TTAT-
1 GGTTTAAGGATTATG
7741103 GGTTTAAG
1 GGTTTAAG
7741111 AGTTGGGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 2 0.06
13 8 0.26
14 5 0.16
15 16 0.52
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (15 bp):
GGTTTAAGGATTATG
Found at i:7741081 original size:22 final size:23
Alignment explanation
Indices: 7741031--7741114 Score: 54
Period size: 22 Copynumber: 3.9 Consensus size: 23
7741021 ATATGGTTTA
7741031 GGGTTTAAGGTTTAAGAGTTACT
1 GGGTTTAAGGTTTAAGAGTTACT
**
7741054 -ATTTTAAGGTTTAAG-GATTA-T
1 GGGTTTAAGGTTTAAGAG-TTACT
* * * *
7741075 GGGTTTAGGGATTATGGGTTA-T
1 GGGTTTAAGGTTTAAGAGTTACT
*
7741097 -GG-TTATGGTTTAAGAGTT
1 GGGTTTAAGGTTTAAGAGTT
7741115 GGGGTTTAGG
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
20 12 0.26
21 4 0.09
22 30 0.64
23 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (23 bp):
GGGTTTAAGGTTTAAGAGTTACT
Found at i:7741810 original size:41 final size:42
Alignment explanation
Indices: 7741729--7741811 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
7741719 AATAATAGCG
* *
7741729 GCATTTTTGTTGCAAACGCCGCAAAAAAGTTGAGCAATAGTA
1 GCATTTTTGGTGCAAACGCCGCAAAAAAGTCGAGCAATAGTA
*
7741771 GCATTTTTGGT-CTAAACGCCGC-TAAAAGTCGAGCAATAGTA
1 GCATTTTTGGTGC-AAACGCCGCAAAAAAGTCGAGCAATAGTA
7741812 TCGTTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 18 0.49
42 19 0.51
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (42 bp):
GCATTTTTGGTGCAAACGCCGCAAAAAAGTCGAGCAATAGTA
Found at i:7749787 original size:21 final size:21
Alignment explanation
Indices: 7749762--7749805 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7749752 ATTGGGCTGT
* *
7749762 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
7749783 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
7749804 TA
1 TA
7749806 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:7754946 original size:43 final size:43
Alignment explanation
Indices: 7754899--7755028 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
7754889 GAACGGTACT
* *
7754899 TTTAACGGTGTTTGTGATAAAAGCGCCACTAAAGGTCATGTTC
1 TTTAACGGTGTTTGTGATAAAAGCGCCGCTAAATGTCATGTTC
* ** *
7754942 TTTAACGGTGTTTGTGATAAAAGTGTTGCGAAATGTCATGTTC
1 TTTAACGGTGTTTGTGATAAAAGCGCCGCTAAATGTCATGTTC
** * *
7754985 TTTAGTGGCGTTTGTGATAAAAGCGCCGCTACATGTCATGTTC
1 TTTAACGGTGTTTGTGATAAAAGCGCCGCTAAATGTCATGTTC
7755028 T
1 T
7755029 ATAGCGGCAT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
TTTAACGGTGTTTGTGATAAAAGCGCCGCTAAATGTCATGTTC
Found at i:7761619 original size:38 final size:38
Alignment explanation
Indices: 7761577--7761651 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
7761567 GATGTCAAAG
* *
7761577 TATGTAAAATTTTTAAAGAAGCTGTTAACAAACAAAAT
1 TATGTAAAATTCTTAAAGAAGCTATTAACAAACAAAAT
*
7761615 TATGTAAAATTCTTAAAGAAGCTATTAACAAGCAAAA
1 TATGTAAAATTCTTAAAGAAGCTATTAACAAACAAAA
7761652 GGAAGTTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (38 bp):
TATGTAAAATTCTTAAAGAAGCTATTAACAAACAAAAT
Found at i:7764587 original size:20 final size:20
Alignment explanation
Indices: 7764562--7764600 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7764552 ATGAGTACAA
7764562 GGGATTTCCCCACATTATAT
1 GGGATTTCCCCACATTATAT
7764582 GGGATTTCCCCACATTATA
1 GGGATTTCCCCACATTATA
7764601 CCGCCACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (20 bp):
GGGATTTCCCCACATTATAT
Found at i:7770826 original size:13 final size:13
Alignment explanation
Indices: 7770808--7770834 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7770798 CTCTCACAAC
7770808 AAAAATTACAATA
1 AAAAATTACAATA
7770821 AAAAATTACAATA
1 AAAAATTACAATA
7770834 A
1 A
7770835 TATTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATTACAATA
Found at i:7770844 original size:20 final size:18
Alignment explanation
Indices: 7770819--7770870 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 18
7770809 AAAATTACAA
7770819 TAAAAAATTACAATAATATT
1 TAAAAAATT-CAA-AATATT
7770839 T-AAAAATTCAAAATATT
1 TAAAAAATTCAAAATATT
7770856 TATAAAAATTTCAAA
1 TA-AAAAA-TTCAAA
7770871 TTTTATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.24
18 3 0.10
19 12 0.41
20 7 0.24
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAAATTCAAAATATT
Found at i:7770862 original size:18 final size:19
Alignment explanation
Indices: 7770821--7770862 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
7770811 AATTACAATA
7770821 AAAAATTACAATAATATTT
1 AAAAATTACAATAATATTT
7770840 AAAAATT-CAA-AATATTT
1 AAAAATTACAATAATATTT
7770857 ATAAAA
1 A-AAAA
7770863 ATTTCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTACAATAATATTT
Found at i:7770871 original size:19 final size:18
Alignment explanation
Indices: 7770821--7770877 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
7770811 AATTACAATA
*
7770821 AAAAATTACAATAATATT-T
1 AAAAATT-CAA-AATTTTAT
7770840 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAAT-TTTAT
7770859 AAAAATTTC-AAATTTTAT
1 AAAAA-TTCAAAATTTTAT
7770877 A
1 A
7770878 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 3 0.09
18 11 0.32
19 17 0.50
20 3 0.09
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTCAAAATTTTAT
Found at i:7777767 original size:14 final size:15
Alignment explanation
Indices: 7777733--7777772 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
7777723 GGGTCTTTAC
7777733 CTTTTTCCTTCTCATT
1 CTTTTT-CTTCTCATT
*
7777749 CTTTTTCTTCTTA-T
1 CTTTTTCTTCTCATT
7777763 CTTTTTCTTC
1 CTTTTTCTTC
7777773 ATATTTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.48
15 6 0.26
16 6 0.26
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.68
Consensus pattern (15 bp):
CTTTTTCTTCTCATT
Found at i:7787152 original size:48 final size:48
Alignment explanation
Indices: 7787080--7787172 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
7787070 CAATGATGAT
7787080 AGGATGAGGAGAAAGAACTATACCTAATACAAACCCTTCAAGACCGAA
1 AGGATGAGGAGAAAGAACTATACCTAATACAAACCCTTCAAGACCGAA
*
7787128 AGGATGAGGAGAAAGAACTGTACCTAATACAAACCCTTCAAGACC
1 AGGATGAGGAGAAAGAACTATACCTAATACAAACCCTTCAAGACC
7787173 ATAACCCTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (48 bp):
AGGATGAGGAGAAAGAACTATACCTAATACAAACCCTTCAAGACCGAA
Found at i:7790572 original size:66 final size:66
Alignment explanation
Indices: 7790466--7790598 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
7790456 TTGATGCTCA
7790466 CAGTAATACATGACTTGAAACGCATACTTTTTGGAAAAGATAACAGTTTGCTGCCTCTGGTGCCA
1 CAGTAATACATGACTTGAAACGCATACTTTTTGGAAAAGATAACAGTTTGCTGCCTCTGGTGCCA
7790531 T
66 T
7790532 CAGTAATACATGACTTGAAACGCATACTTTTTGGAAAAGATAACAGTTTGCTGCCTCTGGTGCCA
1 CAGTAATACATGACTTGAAACGCATACTTTTTGGAAAAGATAACAGTTTGCTGCCTCTGGTGCCA
7790597 T
66 T
7790598 C
1 C
7790599 TTGAAATTCT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (66 bp):
CAGTAATACATGACTTGAAACGCATACTTTTTGGAAAAGATAACAGTTTGCTGCCTCTGGTGCCA
T
Found at i:7792830 original size:294 final size:294
Alignment explanation
Indices: 7792301--7792889 Score: 1169
Period size: 294 Copynumber: 2.0 Consensus size: 294
7792291 TTTTTATTGT
7792301 AGAATAATTAAATTATTTGTTTCACTAATGATATTTTAGCATATTAAATATGTATCGCAGTTTAA
1 AGAATAATTAAATTATTTGTTTCACTAATGATATTTTAGCATATTAAATATGTATCGCAGTTTAA
7792366 AAATAATAAAGTAGATTATGTATTATTTTTATTGTATTATATATTATGATTTTTTAATTCATATA
66 AAATAATAAAGTAGATTATGTATTATTTTTATTGTATTATATATTATGATTTTTTAATTCATATA
*
7792431 ATAATAATTATATTAAGAATTCTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAA
131 ATAATAATTATATTAAGAATTCTATTAAATCATATTTAATAATAATTATGTTAAAATATGGTTAA
7792496 ATTATTTATTATTTTTATTAAATTATCTTTAATAATAATCGTATTAAAATTTAATAACAATAACA
196 ATTATTTATTATTTTTATTAAATTATCTTTAATAATAATCGTATTAAAATTTAATAACAATAACA
7792561 ATAATCATCTACCTAAAAAAAATTATGCTACGGC
261 ATAATCATCTACCTAAAAAAAATTATGCTACGGC
7792595 AGAATAATTAAATTATTTGTTTCACTAATGATATTTTAGCATATTAAATATGTATCGCAGTTTAA
1 AGAATAATTAAATTATTTGTTTCACTAATGATATTTTAGCATATTAAATATGTATCGCAGTTTAA
7792660 AAATAATAAAGTAGATTATGTATTATTTTTATTGTATTATATATTATGATTTTTTAATTCATATA
66 AAATAATAAAGTAGATTATGTATTATTTTTATTGTATTATATATTATGATTTTTTAATTCATATA
7792725 ATAATAATTATATTAAGAATTCTATTAAATCATATTTAATAATAATTATGTTAAAATATGGTTAA
131 ATAATAATTATATTAAGAATTCTATTAAATCATATTTAATAATAATTATGTTAAAATATGGTTAA
7792790 ATTATTTATTATTTTTATTAAATTATCTTTAATAATAATCGTATTAAAATTTAATAACAATAACA
196 ATTATTTATTATTTTTATTAAATTATCTTTAATAATAATCGTATTAAAATTTAATAACAATAACA
7792855 ATAATCATCTACCTAAAAAAAATTATGCTACGGC
261 ATAATCATCTACCTAAAAAAAATTATGCTACGGC
7792889 A
1 A
7792890 TTCTAGTCAT
Statistics
Matches: 294, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
294 294 1.00
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (294 bp):
AGAATAATTAAATTATTTGTTTCACTAATGATATTTTAGCATATTAAATATGTATCGCAGTTTAA
AAATAATAAAGTAGATTATGTATTATTTTTATTGTATTATATATTATGATTTTTTAATTCATATA
ATAATAATTATATTAAGAATTCTATTAAATCATATTTAATAATAATTATGTTAAAATATGGTTAA
ATTATTTATTATTTTTATTAAATTATCTTTAATAATAATCGTATTAAAATTTAATAACAATAACA
ATAATCATCTACCTAAAAAAAATTATGCTACGGC
Found at i:7793021 original size:46 final size:44
Alignment explanation
Indices: 7792932--7793025 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
7792922 ATTACAACAT
7792932 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
* * * *
7792976 CATTTCATTCAACCAAACA-ATGGAATTATTGATTACAGTTTTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACT-ATTACAGTTCTATTC
7793022 CATT
1 CATT
7793026 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 3 0.07
46 18 0.42
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:7793028 original size:16 final size:16
Alignment explanation
Indices: 7793007--7793062 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
7792997 GGAATTATTG
*
7793007 ATTACAGTTTTATTCC
1 ATTACAGTTCTATTCC
* *
7793023 ATTACAGCTCTATTCA
1 ATTACAGTTCTATTCC
*
7793039 ATTACAGTTCTATTTC
1 ATTACAGTTCTATTCC
7793055 ATTACAGT
1 ATTACAGT
7793063 GAACCAAACG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.45
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:7794494 original size:51 final size:51
Alignment explanation
Indices: 7794364--7794550 Score: 171
Period size: 51 Copynumber: 3.7 Consensus size: 51
7794354 AAAGTGATGG
* * * ** * * *
7794364 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCGGAATGGT-A-GG
1 TCACATGTGTGGTACTATGTGCAGGCTACTATGTGTACCAG-ATAGTAATGA
* * * **
7794414 TCGCATGTGTAGTACTATGTGCAGACTACTATGTGTACCAGATAGTTTTGA
1 TCACATGTGTGGTACTATGTGCAGGCTACTATGTGTACCAGATAGTAATGA
* * * * * *
7794465 TCACGTGTGTGGTACTATGTGTAGGCTACTACGTGTATCAGATGGTAATGG
1 TCACATGTGTGGTACTATGTGCAGGCTACTATGTGTACCAGATAGTAATGA
*
7794516 TCACATGTGTGGCACTATGTGCAGGCTACTATGTG
1 TCACATGTGTGGTACTATGTGCAGGCTACTATGTG
7794551 AACCGAACAT
Statistics
Matches: 110, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
49 4 0.04
50 34 0.31
51 72 0.65
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (51 bp):
TCACATGTGTGGTACTATGTGCAGGCTACTATGTGTACCAGATAGTAATGA
Found at i:7794567 original size:102 final size:101
Alignment explanation
Indices: 7794364--7794554 Score: 240
Period size: 101 Copynumber: 1.9 Consensus size: 101
7794354 AAAGTGATGG
* * *
7794364 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCGGAATGGTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGAATGGTAGGTCACATGTGTAGCAC
* * *
7794429 TATGTGCAGACTACTATGTGTACCAGATAGTTTTGA
66 TATGTGCAGACTACTATGTGAACCAGATAATATTGA
* * * * * *
7794465 TCACGTGTGTGGTACTATGTGTAGGCTACTACGTGTATCAG-ATGGTAATGGTCACATGTGTGGC
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGAATGGT-A-GGTCACATGTGTAGC
*
7794529 ACTATGTGCAGGCTACTATGTGAACC
64 ACTATGTGCAGACTACTATGTGAACC
7794555 GAACATCATT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
100 5 0.06
101 36 0.47
102 36 0.47
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGAATGGTAGGTCACATGTGTAGCAC
TATGTGCAGACTACTATGTGAACCAGATAATATTGA
Found at i:7795938 original size:329 final size:329
Alignment explanation
Indices: 7795340--7795997 Score: 1181
Period size: 329 Copynumber: 2.0 Consensus size: 329
7795330 CTTAATTTGG
* *
7795340 AGCTCTGTAGCTCCGGATAAAAATGATTTAGTGACTCTGACTCAAATAGACAGCTTTGAATTTAA
1 AGCTCTGTAGCTCCGGATAAAAATGATTTAGTGACTCTGACTCAAATAGACAGCTCTAAATTTAA
7795405 ATATAAGTGAATAGTGAAATTATGTATAATGCTATTTGAGCATGTTATATACATAAAGAATGTGG
66 ATATAAGTGAATAGTGAAATTATGTATAATGCTATTTGAGCATGTTATATACATAAAGAATGTGG
*
7795470 GATGGAGAGGAGGAGGAGGATAATAAAGTATATGAATGAATTATGTATAATTGGTTGTATGCCTG
131 GATGGAGAGGAGGAGGAGGATAATAAAGTATATGAATGAATTATGTATAATTGGTTATATGCCTG
* * *
7795535 ATTATAATCAATAAACATTGAAATAGGAGTGATGTTTATATTGGTGCATTACTGGTCATGGTAAG
196 ATTATAATCAATAAACATTGAAATAGGAGTGATGCTTATATTGGTACATTACTGGTCATGGTAAA
*
7795600 CTCATGAGAGAAAATAAAGTTTCATAGCATATGTGTTTGGTATATTTGGCATGAAGTGATATCAT
261 CTCATGAGAGAAAATAAAGTTTCATAGCATATGTGTGTGGTATATTTGGCATGAAGTGATATCAT
7795665 GAGT
326 GAGT
7795669 AGCTCTGTAGCTCCGGATAAAAATGATTTAGTGACTCTGACTCAAATAGACAGCTCTAAATTTAA
1 AGCTCTGTAGCTCCGGATAAAAATGATTTAGTGACTCTGACTCAAATAGACAGCTCTAAATTTAA
*
7795734 TTATAAGTGAATAGTGAAATTATGTATAATGCTATTTGAGCATGTTATATACATAAAGAATGTGG
66 ATATAAGTGAATAGTGAAATTATGTATAATGCTATTTGAGCATGTTATATACATAAAGAATGTGG
* *
7795799 GATGGAGAGGAGGAGGAGGATAATAAAGTATATGAATGAATTGTGTATAATTGGTTATATGTCTG
131 GATGGAGAGGAGGAGGAGGATAATAAAGTATATGAATGAATTATGTATAATTGGTTATATGCCTG
* * * *
7795864 ATTATCATCGATAAACGTTGAAATAGGAGTGATGCTTATATTGGTACATTATTGGTCATGGTAAA
196 ATTATAATCAATAAACATTGAAATAGGAGTGATGCTTATATTGGTACATTACTGGTCATGGTAAA
*
7795929 CTCATGAGAGAAAATAAAGTTTCATAGCATATGTGTGTGGTATATTTGGCATGAAGTGATGTCAT
261 CTCATGAGAGAAAATAAAGTTTCATAGCATATGTGTGTGGTATATTTGGCATGAAGTGATATCAT
7795994 GAGT
326 GAGT
7795998 GACTCATGAA
Statistics
Matches: 314, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
329 314 1.00
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.33
Consensus pattern (329 bp):
AGCTCTGTAGCTCCGGATAAAAATGATTTAGTGACTCTGACTCAAATAGACAGCTCTAAATTTAA
ATATAAGTGAATAGTGAAATTATGTATAATGCTATTTGAGCATGTTATATACATAAAGAATGTGG
GATGGAGAGGAGGAGGAGGATAATAAAGTATATGAATGAATTATGTATAATTGGTTATATGCCTG
ATTATAATCAATAAACATTGAAATAGGAGTGATGCTTATATTGGTACATTACTGGTCATGGTAAA
CTCATGAGAGAAAATAAAGTTTCATAGCATATGTGTGTGGTATATTTGGCATGAAGTGATATCAT
GAGT
Found at i:7799205 original size:20 final size:19
Alignment explanation
Indices: 7799174--7799221 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
7799164 TAATTTAGCC
*
7799174 ATTTTTTATTTTTATTTTA
1 ATTTTTTATTTTTAATTTA
*
7799193 ATATTTTTGTTTTTAATTTA
1 AT-TTTTTATTTTTAATTTA
7799213 ATTTTTTAT
1 ATTTTTTAT
7799222 ATTCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (19 bp):
ATTTTTTATTTTTAATTTA
Found at i:7802034 original size:19 final size:19
Alignment explanation
Indices: 7802010--7802053 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
7802000 TGTTATTTTT
*
7802010 AAAAAAATTGAAAAGTT-G
1 AAAAAAATTAAAAAGTTGG
*
7802028 AAAAAAATTAAAAATTTGG
1 AAAAAAATTAAAAAGTTGG
7802047 AAAAAAA
1 AAAAAAA
7802054 AAAGAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.20
Consensus pattern (19 bp):
AAAAAAATTAAAAAGTTGG
Found at i:7802558 original size:5 final size:5
Alignment explanation
Indices: 7802548--7802574 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7802538 GATTTATATC
7802548 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
7802575 ATGTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:7802591 original size:10 final size:11
Alignment explanation
Indices: 7802548--7802591 Score: 58
Period size: 10 Copynumber: 4.2 Consensus size: 11
7802538 GATTTATATC
7802548 TTTTATT-TTA
1 TTTTATTATTA
7802558 TTTTATT-TTA
1 TTTTATTATTA
7802568 TTTTATTATGTA
1 TTTTATTAT-TA
7802580 TTTT-TTATTA
1 TTTTATTATTA
7802590 TT
1 TT
7802592 CTTTTTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 21 0.66
11 5 0.16
12 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:7804691 original size:13 final size:13
Alignment explanation
Indices: 7804673--7804722 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
7804663 TCTTCGTTAC
7804673 TTTTGAAAAATAT
1 TTTTGAAAAATAT
* *
7804686 TTTTGAAAAGT-G
1 TTTTGAAAAATAT
*
7804698 TTATGAAAAAGTAT
1 TTTTGAAAAA-TAT
7804712 TTTTGAAAAAT
1 TTTTGAAAAAT
7804723 TTAGTTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
12 8 0.28
13 12 0.41
14 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (13 bp):
TTTTGAAAAATAT
Found at i:7805587 original size:25 final size:23
Alignment explanation
Indices: 7805547--7805592 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
7805537 TCATGTTAAA
*
7805547 ATTTGATATTTAATTTCTAATAT
1 ATTTGATATTTAATTTATAATAT
7805570 ATTTAGATATTATAATTTATAAT
1 ATTT-GATATT-TAATTTATAAT
7805593 GTTATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 6 0.30
25 10 0.50
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (23 bp):
ATTTGATATTTAATTTATAATAT
Found at i:7808926 original size:151 final size:151
Alignment explanation
Indices: 7808675--7808950 Score: 471
Period size: 151 Copynumber: 1.8 Consensus size: 151
7808665 AAGTGGATCC
* ** *
7808675 GGGTGCTGGTCATAAGTTCTACCAGTGGCTGGGTATACCGGCATATGTTGTGGATACTTGACAGC
1 GGGTGCTAGTCATAAGTTCTACCAGTGGCTGGGTATACCGGCATATGTTGCAGATACCTGACAGC
* * *
7808740 TTGTGTGAGCAGCACTGAGTAGTAACGAATGACTGACAGCTTGTATGAGTAGGCTCGTGATGCGA
66 TTGTGTGAGCAGCACTGAGTAGTAACGAAAGACTGACAGCTTGTATGAGCAGACTCGTGATGCGA
7808805 AATTGTGATTAATGTGAACTT
131 AATTGTGATTAATGTGAACTT
*
7808826 GGGTGCTAGTCTTAAGTTCTACCAGTGGCTGGGTATACCGGCATATGTTGCAGATACCTGACAGC
1 GGGTGCTAGTCATAAGTTCTACCAGTGGCTGGGTATACCGGCATATGTTGCAGATACCTGACAGC
*
7808891 TTGTGTGAGCAGCACTGAGTAGTAACGAAAGACTGACAGCTTGTGTGAGCAGACTCGTGA
66 TTGTGTGAGCAGCACTGAGTAGTAACGAAAGACTGACAGCTTGTATGAGCAGACTCGTGA
7808951 AAGTGAATAG
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 116 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (151 bp):
GGGTGCTAGTCATAAGTTCTACCAGTGGCTGGGTATACCGGCATATGTTGCAGATACCTGACAGC
TTGTGTGAGCAGCACTGAGTAGTAACGAAAGACTGACAGCTTGTATGAGCAGACTCGTGATGCGA
AATTGTGATTAATGTGAACTT
Found at i:7816622 original size:19 final size:19
Alignment explanation
Indices: 7816598--7816635 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7816588 ACTGTTCCAC
7816598 ATTATCCAACACATACACT
1 ATTATCCAACACATACACT
7816617 ATTATCCAACACATACACT
1 ATTATCCAACACATACACT
7816636 TTGAGCTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
ATTATCCAACACATACACT
Found at i:7820514 original size:171 final size:171
Alignment explanation
Indices: 7820229--7820570 Score: 684
Period size: 171 Copynumber: 2.0 Consensus size: 171
7820219 CTTCCAATTT
7820229 TCCTTAATAATTCCTTAAATGAACCTAAACCAAAATTCAGTATAAATTCAATAAAATTAACCTTA
1 TCCTTAATAATTCCTTAAATGAACCTAAACCAAAATTCAGTATAAATTCAATAAAATTAACCTTA
7820294 AACTATCCCTCAAACACCCACTTATGAGTTCAAACCAATCGTTGAAATTATAACTATTTTATGAA
66 AACTATCCCTCAAACACCCACTTATGAGTTCAAACCAATCGTTGAAATTATAACTATTTTATGAA
7820359 TTCAAACTAGTTAGATTCCTTACATTATATCGATGCAAACC
131 TTCAAACTAGTTAGATTCCTTACATTATATCGATGCAAACC
7820400 TCCTTAATAATTCCTTAAATGAACCTAAACCAAAATTCAGTATAAATTCAATAAAATTAACCTTA
1 TCCTTAATAATTCCTTAAATGAACCTAAACCAAAATTCAGTATAAATTCAATAAAATTAACCTTA
7820465 AACTATCCCTCAAACACCCACTTATGAGTTCAAACCAATCGTTGAAATTATAACTATTTTATGAA
66 AACTATCCCTCAAACACCCACTTATGAGTTCAAACCAATCGTTGAAATTATAACTATTTTATGAA
7820530 TTCAAACTAGTTAGATTCCTTACATTATATCGATGCAAACC
131 TTCAAACTAGTTAGATTCCTTACATTATATCGATGCAAACC
7820571 GTACGTACAA
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 171 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.32
Consensus pattern (171 bp):
TCCTTAATAATTCCTTAAATGAACCTAAACCAAAATTCAGTATAAATTCAATAAAATTAACCTTA
AACTATCCCTCAAACACCCACTTATGAGTTCAAACCAATCGTTGAAATTATAACTATTTTATGAA
TTCAAACTAGTTAGATTCCTTACATTATATCGATGCAAACC
Found at i:7823652 original size:3 final size:3
Alignment explanation
Indices: 7823632--7823681 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
7823622 AATCCAACCT
* *
7823632 TTA TTC TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7823680 TT
1 TT
7823682 TAATCTTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7825446 original size:22 final size:22
Alignment explanation
Indices: 7825421--7825463 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7825411 AGAGTGTAAA
*
7825421 AATTAAATTATAATTTTTTATG
1 AATTAAAATATAATTTTTTATG
* *
7825443 AATTAAAATGTATTTTTTTAT
1 AATTAAAATATAATTTTTTAT
7825464 TATAAACTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
AATTAAAATATAATTTTTTATG
Found at i:7825544 original size:30 final size:31
Alignment explanation
Indices: 7825466--7825528 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
7825456 TTTTTTATTA
*
7825466 TAAACTCATAATTTTATAATTTTTAGAAAGAT
1 TAAA-TCATAATTTTATTATTTTTAGAAAGAT
*
7825498 TAAATTATAATTTTATTATTTTTA-AAAGAT
1 TAAATCATAATTTTATTATTTTTAGAAAGAT
7825528 T
1 T
7825529 TTATCATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 7 0.24
31 18 0.62
32 4 0.14
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (31 bp):
TAAATCATAATTTTATTATTTTTAGAAAGAT
Found at i:7831773 original size:6 final size:6
Alignment explanation
Indices: 7831762--7831797 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
7831752 TTTATTTCTC
* *
7831762 CATTTT CATTTT CATTTT CATCTT CATTTC CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
7831798 GGAGAAAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (6 bp):
CATTTT
Found at i:7843133 original size:14 final size:14
Alignment explanation
Indices: 7843114--7843143 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7843104 TCAAATCACC
7843114 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
7843128 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
7843142 GG
1 GG
7843144 CCTAAATGAC
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:0.07, C:0.13, G:0.47, T:0.33
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:7848248 original size:14 final size:14
Alignment explanation
Indices: 7848229--7848258 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7848219 TCAAATCACC
7848229 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
7848243 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
7848257 GG
1 GG
7848259 CCTAAATGAC
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:0.07, C:0.13, G:0.47, T:0.33
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:7849390 original size:30 final size:30
Alignment explanation
Indices: 7849341--7849407 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
7849331 ATAAGCTATT
**
7849341 AAAATAATAAAATTAAATTTTTACTA-TCATA
1 AAAAT-ATAAAATTAAATTTCGACTAGTCA-A
* *
7849372 AAAATATACAATTTAATTTCGACTAGTCAA
1 AAAATATAAAATTAAATTTCGACTAGTCAA
7849402 AAAATA
1 AAAATA
7849408 AAATTTCTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAATATAAAATTAAATTTCGACTAGTCAA
Found at i:7851923 original size:22 final size:25
Alignment explanation
Indices: 7851895--7851941 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7851885 TCTCAATATT
7851895 TAATAA-TCTT-TCATA-ATTTCAC
1 TAATAATTCTTATCATACATTTCAC
*
7851917 TAATAATTCTTATTATACATTTCAC
1 TAATAATTCTTATCATACATTTCAC
7851942 CTATCACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 4 0.19
24 4 0.19
25 7 0.33
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (25 bp):
TAATAATTCTTATCATACATTTCAC
Found at i:7855632 original size:23 final size:23
Alignment explanation
Indices: 7855605--7855657 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
7855595 TTCATATATT
*
7855605 CTTTAATGGTAAAGTTGTCATAA
1 CTTTAATGGTAAAGTTGCCATAA
* *
7855628 CTTTAACGGTAAAGTTGCCATGA
1 CTTTAATGGTAAAGTTGCCATAA
7855651 CTTTAAT
1 CTTTAAT
7855658 AAAATTAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (23 bp):
CTTTAATGGTAAAGTTGCCATAA
Found at i:7858961 original size:23 final size:23
Alignment explanation
Indices: 7858935--7858990 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
7858925 TTTTGTTTTA
*
7858935 GATTAATTAATATAACAATATTT
1 GATTAATTAATATAACAATACTT
*
7858958 GATTAATTAATATAATAATACTT
1 GATTAATTAATATAACAATACTT
7858981 GATTATATTA
1 GATTA-ATTA
7858991 TTTTAATACC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (23 bp):
GATTAATTAATATAACAATACTT
Found at i:7872035 original size:16 final size:16
Alignment explanation
Indices: 7872014--7872074 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
7872004 CGTTTAGTTC
7872014 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
7872030 GCTGTAATGAAATAGA
1 GCTGTAATGGAATAGA
* * *
7872046 GGTATAATAGAATAGA
1 GCTGTAATGGAATAGA
*
7872062 GCTGTAGTGGAAT
1 GCTGTAATGGAAT
7872075 TGAAGCATAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.39, C:0.05, G:0.30, T:0.26
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:7872085 original size:32 final size:32
Alignment explanation
Indices: 7872018--7872087 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
7872008 TAGTTCGCTG
* * *
7872018 TAATGGAATAGAGCTGTAATGAAATAGAGGTA
1 TAATAGAATAGAGCTGTAATGAAATAGAAGCA
* * *
7872050 TAATAGAATAGAGCTGTAGTGGAATTGAAGCA
1 TAATAGAATAGAGCTGTAATGAAATAGAAGCA
7872082 TAATAG
1 TAATAG
7872088 TAATTCAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.04, G:0.27, T:0.26
Consensus pattern (32 bp):
TAATAGAATAGAGCTGTAATGAAATAGAAGCA
Found at i:7872119 original size:45 final size:44
Alignment explanation
Indices: 7872064--7872159 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
7872054 AGAATAGAGC
* *
7872064 TGTAGTGGAATTGAAGCATAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAAGCATAATAGT-ATTC-ATGTGTTTGGTTGAA
* * *
7872109 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCATAATAGTATTCATGTGTTTGGTTGAA
*
7872153 TGGAATG
1 TGTAATG
7872160 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (44 bp):
TGTAATGGAATAGAAGCATAATAGTATTCATGTGTTTGGTTGAA
Found at i:7872460 original size:18 final size:18
Alignment explanation
Indices: 7872437--7872472 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7872427 AATTATTATT
7872437 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
7872455 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
7872473 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:7872733 original size:122 final size:120
Alignment explanation
Indices: 7872299--7872913 Score: 1023
Period size: 120 Copynumber: 5.1 Consensus size: 120
7872289 TTAATCATAT
*
7872299 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
7872364 AAATATTTTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
7872419 TTTAACATAATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * * *
7872484 AAATATTCTTGTACGAATTTAATAAAATCATAATATATAATACAATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
7872539 TTTAAAATATTTTTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
7872604 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * **
7872659 TTTAAAATAATTATTATGAAAATTGTAATTTAGGAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATTATTAT-TAAA-TATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
7872724 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * **
7872781 TTTAAAATAATTATTATGAAAATTGTAATTTAGGAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAAAATAATTATTAT-TAAA-TATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
7872846 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
7872903 TTTAAAATAAT
1 TTTAAAATAAT
7872914 AAAATTTGAA
Statistics
Matches: 472, Mismatches: 21, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
120 240 0.51
121 3 0.01
122 229 0.49
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:7876915 original size:18 final size:19
Alignment explanation
Indices: 7876873--7876916 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
7876863 GAAATGTTAT
*
7876873 ATAAATATTTTATTATAAT
1 ATAAATATTTTATTATAAC
*
7876892 AGAAATATTTTA-TATAAC
1 ATAAATATTTTATTATAAC
7876910 ATAAATA
1 ATAAATA
7876917 AAATTCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
ATAAATATTTTATTATAAC
Found at i:7877389 original size:30 final size:30
Alignment explanation
Indices: 7877355--7877417 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
7877345 ACTTATTTTA
*
7877355 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTCATTATTTTAAAGACAT
* *
7877385 TTGTTAATTTTGTCATTATTTTAGAGGCAT
1 TTGTTAATTTTGTCATTATTTTAAAGACAT
7877415 TTG
1 TTG
7877418 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTCATTATTTTAAAGACAT
Found at i:7877569 original size:12 final size:12
Alignment explanation
Indices: 7877534--7877571 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
7877524 TGTATTATAT
*
7877534 ATATTAAAATT-
1 ATATAAAAATTA
7877545 ATATAAAAA-TA
1 ATATAAAAATTA
7877556 ATATAAAAATTA
1 ATATAAAAATTA
7877568 ATAT
1 ATAT
7877572 GGTGGGCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 17 0.71
12 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:7878052 original size:32 final size:32
Alignment explanation
Indices: 7878015--7878091 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
7878005 ATGCATGTGT
* * **
7878015 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
7878047 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
7878079 GTAACTTTTCATA
1 GTAACTTTTCATA
7878092 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:7887169 original size:7 final size:7
Alignment explanation
Indices: 7887157--7887233 Score: 82
Period size: 7 Copynumber: 10.3 Consensus size: 7
7887147 GTGAAACATT
7887157 TAATATA
1 TAATATA
7887164 TAATATA
1 TAATATA
7887171 TAATATA
1 TAATATA
7887178 TAATATA
1 TAATATA
7887185 TAATATATA
1 T-A-ATATA
7887194 TTAATATA
1 -TAATATA
* *
7887202 TTATGTTA
1 TAAT-ATA
*
7887210 TAATCTA
1 TAATATA
7887217 TAATATA
1 TAATATA
7887224 TTAATATA
1 -TAATATA
7887232 TA
1 TA
7887234 TGTGTGTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
7 35 0.58
8 18 0.30
9 6 0.10
10 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (7 bp):
TAATATA
Found at i:7887171 original size:2 final size:2
Alignment explanation
Indices: 7887159--7887234 Score: 50
Period size: 2 Copynumber: 44.0 Consensus size: 2
7887149 GAAACATTTA
7887159 AT AT AT A- AT AT AT A- AT AT AT A- AT AT AT A- AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
7887196 A- AT AT AT -T AT GT -T AT A- AT CT AT A- AT AT AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7887231 AT AT
1 AT AT
7887235 GTGTGTTTTG
Statistics
Matches: 59, Mismatches: 3, Indels: 24
0.69 0.03 0.28
Matches are distributed among these distances:
1 12 0.20
2 47 0.80
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7887451 original size:19 final size:19
Alignment explanation
Indices: 7887448--7887491 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
7887438 TTTAAAATAC
*
7887448 TTTTAAAATAATTTTTTAT
1 TTTTAAAATAATTTTTTAA
7887467 TTTTAAAATAATTTTTTAA
1 TTTTAAAATAATTTTTTAA
7887486 TGTTTA
1 T-TTTA
7887492 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTAAAATAATTTTTTAA
Found at i:7887469 original size:18 final size:19
Alignment explanation
Indices: 7887448--7887484 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
7887438 TTTAAAATAC
7887448 TTTTAAAATAATTTTTTAT
1 TTTTAAAATAATTTTTTAT
7887467 TTTTAAAATAATTTTTTA
1 TTTTAAAATAATTTTTTA
7887485 ATGTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAATAATTTTTTAT
Found at i:7888191 original size:28 final size:29
Alignment explanation
Indices: 7888138--7888194 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
7888128 TTTTGTGCAG
7888138 GGATACAATTTGGGGCTAAATAGAAGAAAA
1 GGATACAATTT-GGGCTAAATAGAAGAAAA
* *
7888168 GGATACAATTT-GGCTAGATTGAAGAAA
1 GGATACAATTTGGGCTAAATAGAAGAAA
7888195 GAAGCAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.56
30 11 0.44
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (29 bp):
GGATACAATTTGGGCTAAATAGAAGAAAA
Found at i:7894462 original size:6 final size:6
Alignment explanation
Indices: 7894447--7894478 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
7894437 CCTTCCATTA
7894447 TTTA-T TTTATT TTTATT TTTA-T TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
7894479 CATAGAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 9 0.36
6 16 0.64
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:7894463 original size:11 final size:12
Alignment explanation
Indices: 7894447--7894478 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
7894437 CCTTCCATTA
7894447 TTTA-TTTTATT
1 TTTATTTTTATT
7894458 TTTATTTTTA-T
1 TTTATTTTTATT
7894469 TTTATTTTTA
1 TTTATTTTTA
7894479 CATAGAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:7897666 original size:13 final size:13
Alignment explanation
Indices: 7897650--7897679 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
7897640 ATTGTCATGT
7897650 AATTGTTTTTCTG
1 AATTGTTTTTCTG
7897663 AATTGTTTTTCTG
1 AATTGTTTTTCTG
7897676 AATT
1 AATT
7897680 TAGCTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:7898647 original size:82 final size:81
Alignment explanation
Indices: 7898556--7898805 Score: 187
Period size: 78 Copynumber: 3.1 Consensus size: 81
7898546 CATATAAGAA
7898556 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
7898621 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * * **
7898638 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-ATAACAATAATAATT-
1 TATTAATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATAT-TTAATAATAATTA
**** * *
7898697 TACCAAAACA-AATT---T
63 TGTTTAAATATGATTAAAT
* * *
7898712 CTAGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTAT
1 -TATTAATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTAT
*
7898777 GTTTAAATATGATTAAAA
64 GTTTAAATATGATTAAAT
*
7898795 TATTTATTATT
1 TATTAATTATT
7898806 GATAATAATA
Statistics
Matches: 115, Mismatches: 38, Indels: 30
0.63 0.21 0.16
Matches are distributed among these distances:
74 1 0.01
75 9 0.08
76 7 0.06
77 7 0.06
78 29 0.25
79 29 0.25
80 7 0.06
81 7 0.06
82 19 0.17
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (81 bp):
TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:7898725 original size:157 final size:157
Alignment explanation
Indices: 7898559--7898868 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
7898549 ATAAGAATAT
*
7898559 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
7898624 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
7898689 TAATAATTTACCAAAACAAATTTCTAG
131 TAATAATTTACCAAAACAAATTTCTAG
* *
7898716 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
7898781 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
7898846 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
7898869 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTAG
Found at i:7899019 original size:16 final size:16
Alignment explanation
Indices: 7898998--7899065 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
7898988 GATTTGCTAT
7898998 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7899014 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
7899030 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
7899046 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
7899062 TACA
1 TACA
7899066 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7907962 original size:28 final size:29
Alignment explanation
Indices: 7907922--7907980 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
7907912 CGAAGAGTTT
* *
7907922 AAAATTTTGAAAATCATAAAAAT-TTTAA
1 AAAATTGTAAAAATCATAAAAATCTTTAA
* *
7907950 AAAATTGTAAAAATTATAATAATCTTTAA
1 AAAATTGTAAAAATCATAAAAATCTTTAA
7907979 AA
1 AA
7907981 TGTATCTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTGTAAAAATCATAAAAATCTTTAA
Found at i:7909036 original size:8 final size:9
Alignment explanation
Indices: 7908988--7909044 Score: 71
Period size: 9 Copynumber: 6.3 Consensus size: 9
7908978 AATTTCCAAT
7908988 TTTTTATAA
1 TTTTTATAA
7908997 TTTTTATAA
1 TTTTTATAA
*
7909006 TATTTTACAA
1 T-TTTTATAA
*
7909016 TTTTTAAAA
1 TTTTTATAA
*
7909025 TTTTTA-AT
1 TTTTTATAA
7909033 TTTTTATAA
1 TTTTTATAA
7909042 TTT
1 TTT
7909045 AAAAAACTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.17
9 27 0.64
10 8 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7909036 original size:17 final size:18
Alignment explanation
Indices: 7908988--7909044 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 18
7908978 AATTTCCAAT
*
7908988 TTTTTATAATTTTTATAA
1 TTTTTACAATTTTTATAA
*
7909006 TATTTTACAATTTTTAAAA
1 T-TTTTACAATTTTTATAA
*
7909025 TTTTTA-ATTTTTTATAA
1 TTTTTACAATTTTTATAA
7909042 TTT
1 TTT
7909045 AAAAAACTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 12 0.35
18 6 0.18
19 16 0.47
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTACAATTTTTATAA
Found at i:7909050 original size:26 final size:27
Alignment explanation
Indices: 7908998--7909050 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
7908988 TTTTTATAAT
**
7908998 TTTTATAATATTTTACAATTTTTAAAA
1 TTTTATAATATTTTACAATTTAAAAAA
* *
7909025 TTTT-TAATTTTTTATAATTTAAAAAA
1 TTTTATAATATTTTACAATTTAAAAAA
7909051 CTATGTGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTATAATATTTTACAATTTAAAAAA
Found at i:7912698 original size:21 final size:20
Alignment explanation
Indices: 7912674--7912803 Score: 53
Period size: 17 Copynumber: 7.2 Consensus size: 20
7912664 CCATAATACG
7912674 CCAATGCTCATAAGATCTAAT
1 CCAATGCTCATAAGA-CTAAT
*
7912695 CCAA--C-CATAACAC--A-
1 CCAATGCTCATAAGACTAAT
7912709 CCAATGCTCATAAGAGCTAAT
1 CCAATGCTCATAAGA-CTAAT
* *
7912730 CCAA--C-CGTAACAC--A-
1 CCAATGCTCATAAGACTAAT
7912744 CCAATGCTCATAAGAGCTAAT
1 CCAATGCTCATAAGA-CTAAT
**
7912765 CCAA--C-CA-AA-AC-ACG
1 CCAATGCTCATAAGACTAAT
7912779 CCAATGCTCATAAGAGCTAAT
1 CCAATGCTCATAAGA-CTAAT
7912800 CCAA
1 CCAA
7912804 CCAAAACATG
Statistics
Matches: 78, Mismatches: 10, Indels: 42
0.60 0.08 0.32
Matches are distributed among these distances:
14 13 0.17
15 3 0.04
16 4 0.05
17 17 0.22
18 17 0.22
19 4 0.05
20 3 0.04
21 17 0.22
ACGTcount: A:0.42, C:0.31, G:0.10, T:0.18
Consensus pattern (20 bp):
CCAATGCTCATAAGACTAAT
Found at i:7912817 original size:35 final size:35
Alignment explanation
Indices: 7912659--7912817 Score: 246
Period size: 35 Copynumber: 4.5 Consensus size: 35
7912649 ACATCATCAG
* *
7912659 TCCAACCATAATACGCCAATGCTCATAAGATCTAA
1 TCCAACCATAACACGCCAATGCTCATAAGAGCTAA
*
7912694 TCCAACCATAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCATAACACGCCAATGCTCATAAGAGCTAA
* *
7912729 TCCAACCGTAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCATAACACGCCAATGCTCATAAGAGCTAA
*
7912764 TCCAACCAAAACACGCCAATGCTCATAAGAGCTAA
1 TCCAACCATAACACGCCAATGCTCATAAGAGCTAA
* *
7912799 TCCAACCAAAACATGCCAA
1 TCCAACCATAACACGCCAA
7912818 ACAAAAAGTA
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 116 1.00
ACGTcount: A:0.42, C:0.31, G:0.09, T:0.17
Consensus pattern (35 bp):
TCCAACCATAACACGCCAATGCTCATAAGAGCTAA
Found at i:7926030 original size:24 final size:24
Alignment explanation
Indices: 7926003--7926054 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7925993 TTAGTAAGTC
*
7926003 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7926027 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7926051 AAAT
1 AAAT
7926055 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7928413 original size:41 final size:41
Alignment explanation
Indices: 7928308--7928414 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
7928298 CGGCTTTTAT
* * * * * *
7928308 CCTGCTAGAC-TTATAGTCCGAATAATTTCACTGGCATTAAG
1 CCTGCTAGACAATA-AGTCTGAATTATATCACCGGCATCAAG
*
7928349 CCTGCTAGACAATGAGTCTGAATTATATCACCGGCATCAAG
1 CCTGCTAGACAATAAGTCTGAATTATATCACCGGCATCAAG
7928390 CCTGCTAGACAATAAGTCTGAATTA
1 CCTGCTAGACAATAAGTCTGAATTA
7928415 CATTCGATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 56 0.98
42 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (41 bp):
CCTGCTAGACAATAAGTCTGAATTATATCACCGGCATCAAG
Found at i:7929382 original size:23 final size:23
Alignment explanation
Indices: 7929355--7929400 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
7929345 TAATTTGTTA
7929355 TATTAA-ACATATATTAACCTTAT
1 TATTAATAC-TATATTAACCTTAT
7929378 TATTAATTTACTATATTAACCTT
1 TATTAA--TACTATATTAACCTT
7929401 TACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATACTATATTAACCTTAT
Found at i:7930572 original size:24 final size:24
Alignment explanation
Indices: 7930544--7930595 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7930534 TTAGTAGGTC
* *
7930544 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7930568 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7930592 AAAT
1 AAAT
7930596 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7936677 original size:18 final size:20
Alignment explanation
Indices: 7936654--7936696 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
7936644 GATTTCTTTT
*
7936654 TAAAAAAATAA-AA-ACAAA
1 TAAAAAAATAATAATAAAAA
7936672 TAAAAAAATAATAATAAAAA
1 TAAAAAAATAATAATAAAAA
7936692 TAAAA
1 TAAAA
7936697 CAATTTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 2 0.09
20 9 0.41
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (20 bp):
TAAAAAAATAATAATAAAAA
Found at i:7938265 original size:17 final size:17
Alignment explanation
Indices: 7938235--7938274 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
7938225 AAATGTTGAC
* *
7938235 AAAAAATAATAATATAT
1 AAAAATTAAAAATATAT
7938252 AAAAATTAAAAATATAT
1 AAAAATTAAAAATATAT
7938269 AAAAAT
1 AAAAAT
7938275 ACATAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATTAAAAATATAT
Found at i:7942590 original size:48 final size:48
Alignment explanation
Indices: 7942530--7942622 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
7942520 CCAATATAAC
* *
7942530 TAATTGATATTACACAGTTTGTTCCAAGTTTTAATATTGTAATGTATT
1 TAATTGATATTACAAAGCTTGTTCCAAGTTTTAATATTGTAATGTATT
*
7942578 TAATTTATATTACAAAGCTTGTTCCAAGTTTTAATATTGTAATGT
1 TAATTGATATTACAAAGCTTGTTCCAAGTTTTAATATTGTAATGT
7942623 TGTAATGTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (48 bp):
TAATTGATATTACAAAGCTTGTTCCAAGTTTTAATATTGTAATGTATT
Found at i:7942625 original size:8 final size:8
Alignment explanation
Indices: 7942609--7942640 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
7942599 TTCCAAGTTT
*
7942609 TAATATTG
1 TAATGTTG
7942617 TAATGTTG
1 TAATGTTG
7942625 TAATGTTG
1 TAATGTTG
7942633 TAATGTTG
1 TAATGTTG
7942641 CAATTAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (8 bp):
TAATGTTG
Found at i:7943049 original size:33 final size:33
Alignment explanation
Indices: 7942966--7943051 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 33
7942956 TTGAGCCGGG
* *
7942966 AGGAGTGCCA-TACTGCGATGGATACGACCCAAA
1 AGGAGTG-CAGTACTGTGGTGGATACGACCCAAA
* * * * *
7942999 AAGAGTGGAGTAATGTGGTGGATACGAGCCAGA
1 AGGAGTGCAGTACTGTGGTGGATACGACCCAAA
*
7943032 AGGAGTGCTGTACTGTGGTG
1 AGGAGTGCAGTACTGTGGTG
7943052 AAGTAATGTC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
32 1 0.02
33 40 0.98
ACGTcount: A:0.29, C:0.15, G:0.36, T:0.20
Consensus pattern (33 bp):
AGGAGTGCAGTACTGTGGTGGATACGACCCAAA
Found at i:7944812 original size:11 final size:11
Alignment explanation
Indices: 7944792--7944822 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7944782 GAATGAATGA
*
7944792 AAATATAAAAT
1 AAATACAAAAT
7944803 AAATACAAAAT
1 AAATACAAAAT
7944814 AAATACAAA
1 AAATACAAA
7944823 CATCTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATACAAAAT
Found at i:7944963 original size:25 final size:26
Alignment explanation
Indices: 7944904--7944969 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
7944894 CAACAAAAAA
7944904 AACAAAAATAAATTAACATTTATTTTT
1 AACAAAAA-AAATTAACATTTATTTTT
7944931 AACAAAAAAAATTAACATTTATTTTT
1 AACAAAAAAAATTAACATTTATTTTT
7944957 AACAAAAAAAATT
1 AACAAAAAAAATT
7944970 TACTAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
26 31 0.79
27 8 0.21
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (26 bp):
AACAAAAAAAATTAACATTTATTTTT
Found at i:7945153 original size:3 final size:3
Alignment explanation
Indices: 7945145--7945184 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
7945135 CTTCTCGCTC
7945145 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC- TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
7945185 AAAATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:7951226 original size:22 final size:22
Alignment explanation
Indices: 7951201--7951266 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
7951191 AATGATTTTT
* *
7951201 CCTATAAAAATTCAGGTTATTC
1 CCTATAAAAACTCAAGTTATTC
7951223 CCTATAAAAACTCAAGTTATTC
1 CCTATAAAAACTCAAGTTATTC
* * *
7951245 CTTGT-AAAACTTAAGTT-TTC
1 CCTATAAAAACTCAAGTTATTC
7951265 CC
1 CC
7951267 CTCCTACTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.11
21 11 0.29
22 23 0.61
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (22 bp):
CCTATAAAAACTCAAGTTATTC
Done.