Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 124 of 199
Found at i:35696282 original size:61 final size:61
Alignment explanation
Indices: 35696207--35696331 Score: 171
Period size: 61 Copynumber: 2.0 Consensus size: 61
35696197 ATCACATTAT
* * * * *
35696207 TATTAAATTGATAAAATATTATCTAGATATAA-ATTAAATTAAATTAAATGTCTCATATGAA
1 TATTAAATTAATAAAATACTATCTAAATA-AATATTAAATTAAATTAAATATATCATATGAA
* *
35696268 TATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTTAATATATCATATTAA
1 TATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTAAATATATCATATGAA
35696329 TAT
1 TAT
35696332 ATAGCTAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 2 0.04
61 54 0.96
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (61 bp):
TATTAAATTAATAAAATACTATCTAAATAAATATTAAATTAAATTAAATATATCATATGAA
Found at i:35696304 original size:31 final size:31
Alignment explanation
Indices: 35696207--35696309 Score: 95
Period size: 31 Copynumber: 3.4 Consensus size: 31
35696197 ATCACATTAT
* * *
35696207 TATTAAATTGATAAAATATTATCTAGATATAA
1 TATTAAATTAATAAAATACTATCTAAATA-AA
* * * * *
35696239 -ATTAAATTAAATTAAAT-GTCTC-ATATGAA
1 TATTAAATT-AATAAAATACTATCTAAATAAA
35696268 TATTAAATTAATAAAATACTATCTAAATAAA
1 TATTAAATTAATAAAATACTATCTAAATAAA
35696299 TATTAAATTAA
1 TATTAAATTAA
35696310 ATTTAATATA
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
29 9 0.16
30 14 0.25
31 27 0.48
32 6 0.11
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (31 bp):
TATTAAATTAATAAAATACTATCTAAATAAA
Found at i:35701351 original size:9 final size:9
Alignment explanation
Indices: 35701333--35701372 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
35701323 TTTGGTTAAA
35701333 AATTAACCG
1 AATTAACCG
*
35701342 AATTACCCG
1 AATTAACCG
*
35701351 AATTACCCG
1 AATTAACCG
35701360 AATTAACCG
1 AATTAACCG
35701369 AATT
1 AATT
35701373 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:35701957 original size:16 final size:17
Alignment explanation
Indices: 35701936--35701971 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
35701926 TAATAAACAC
*
35701936 AAAAAATAT-TTTTTTT
1 AAAAAATATATATTTTT
35701952 AAAAAATATATATTTTT
1 AAAAAATATATATTTTT
35701969 AAA
1 AAA
35701972 GTATTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAAAATATATATTTTT
Found at i:35703618 original size:28 final size:27
Alignment explanation
Indices: 35703555--35703706 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
35703545 ATATTAAGTC
* * *
35703555 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
35703582 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
35703610 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
35703637 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
35703665 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
35703692 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35703707 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:35703639 original size:55 final size:55
Alignment explanation
Indices: 35703555--35703706 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
35703545 ATATTAAGTC
* * *
35703555 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
35703610 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
35703665 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
35703707 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:35719198 original size:9 final size:9
Alignment explanation
Indices: 35719180--35719255 Score: 109
Period size: 9 Copynumber: 8.4 Consensus size: 9
35719170 GTAGTGATTC
*
35719180 AATTCAGTT
1 AATTCGGTT
35719189 AATTCGGTT
1 AATTCGGTT
35719198 AATTCGAG-T
1 AATTCG-GTT
*
35719207 AATCCGGTT
1 AATTCGGTT
35719216 AATTCGGTT
1 AATTCGGTT
*
35719225 AATTCAGTT
1 AATTCGGTT
35719234 AATTCGGTT
1 AATTCGGTT
35719243 AATTCGGTT
1 AATTCGGTT
35719252 AATT
1 AATT
35719256 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
8 1 0.02
9 58 0.97
10 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:35721742 original size:15 final size:16
Alignment explanation
Indices: 35721722--35721755 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
35721712 TAAATATTAT
35721722 AAAATAAAAAT-AAAC
1 AAAATAAAAATCAAAC
*
35721737 AAAATAAACATCAAAC
1 AAAATAAAAATCAAAC
35721753 AAA
1 AAA
35721756 TGCCATCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAATAAAAATCAAAC
Found at i:35725537 original size:14 final size:14
Alignment explanation
Indices: 35725518--35725557 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
35725508 TTGTTTGGCA
35725518 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
35725532 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
35725546 GGAAAATGTTTT
1 GTAAAATGTTTT
35725558 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:35725566 original size:20 final size:20
Alignment explanation
Indices: 35725541--35725600 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
35725531 CGTAAAATGA
35725541 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGTTTTACT
35725561 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGTTTTACT
* *
35725581 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGTTTTACT
35725601 GGAAAATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGTTTTACT
Found at i:35725671 original size:32 final size:31
Alignment explanation
Indices: 35725593--35725677 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 31
35725583 TCTGTAAAAT
* *
35725593 GATTTACTGGAAAATATTTTCTGGTGTTTGGTA
1 GATTT-CT-GAAAATATTTTCTGCTGTTTGGCA
* * *
35725626 AATCTGTGTAAAATATTTTCTGCTGTTTGGCA
1 GATTTCTG-AAAATATTTTCTGCTGTTTGGCA
35725658 GATTTCCTGAAAATATTTTC
1 GATTT-CTGAAAATATTTTC
35725678 CGGAAAAGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.02
32 36 0.86
33 5 0.12
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (31 bp):
GATTTCTGAAAATATTTTCTGCTGTTTGGCA
Found at i:35725729 original size:14 final size:14
Alignment explanation
Indices: 35725710--35725737 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35725700 ATTTTACATA
35725710 TATTAATATATATT
1 TATTAATATATATT
35725724 TATTAATATATATT
1 TATTAATATATATT
35725738 AATAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:35726043 original size:71 final size:72
Alignment explanation
Indices: 35725927--35726069 Score: 252
Period size: 71 Copynumber: 2.0 Consensus size: 72
35725917 ATAATAATAT
*
35725927 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGT-CTAGTACATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTACATAATATTACA
35725991 CCACATA
66 CCACATA
* *
35725998 TATCCAAATACATAATTAATGGTACACCACATAGTAAGAACATTGTCCAAGTGCATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTACATAATATTACA
35726063 CCACATA
66 CCACATA
35726070 AATGTATCAA
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 45 0.66
72 23 0.34
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.27
Consensus pattern (72 bp):
TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTACATAATATTACA
CCACATA
Found at i:35727058 original size:35 final size:36
Alignment explanation
Indices: 35727012--35727080 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
35727002 ATTCAACCAT
35727012 TTCAATATCCAACAAGCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
35727047 TTCAATATCCAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAGCTTAAAACATAATCAATA
35727081 TCTAACAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAAGCTTAAAACATAATCAATAAA
Found at i:35727078 original size:27 final size:28
Alignment explanation
Indices: 35727048--35727123 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 28
35727038 AATAATAAAT
* *
35727048 TCAATATCCAACAAGCTTAAAACATA-A
1 TCAATATCCAACAAACTCAAAACATATA
* *
35727075 TCAATATCTAACAAACTCAAGACATATA
1 TCAATATCCAACAAACTCAAAACATATA
*
35727103 TCAAAATCCAACAAACT-AAAA
1 TCAATATCCAACAAACTCAAAA
35727124 TTTCAATATC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.54, C:0.22, G:0.03, T:0.21
Consensus pattern (28 bp):
TCAATATCCAACAAACTCAAAACATATA
Found at i:35728630 original size:15 final size:16
Alignment explanation
Indices: 35728610--35728642 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
35728600 AGTACCACTT
35728610 AAAATGAAAGCA-TGA
1 AAAATGAAAGCATTGA
35728625 AAAATGAAAGCATTGA
1 AAAATGAAAGCATTGA
35728641 AA
1 AA
35728643 GTACCACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (16 bp):
AAAATGAAAGCATTGA
Found at i:35731230 original size:28 final size:27
Alignment explanation
Indices: 35731198--35731265 Score: 97
Period size: 25 Copynumber: 2.6 Consensus size: 27
35731188 AAGCTTTGAG
35731198 GAATGGAAAATGTCTACTGCTTAGA-AGA
1 GAATGGAAAATGTCT-CTGCTTAGAGA-A
35731226 GAATGGAAAATG--TCTGCTTAGAGAA
1 GAATGGAAAATGTCTCTGCTTAGAGAA
35731251 GAATGGAAAATGTCT
1 GAATGGAAAATGTCT
35731266 TACCAATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
25 22 0.59
26 2 0.05
27 1 0.03
28 12 0.32
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.25
Consensus pattern (27 bp):
GAATGGAAAATGTCTCTGCTTAGAGAA
Found at i:35735825 original size:25 final size:25
Alignment explanation
Indices: 35735772--35735825 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
35735762 TAAAACTCTT
*
35735772 TTAAAAGAAAACTCAAGACAAATTC
1 TTAAAAGAAAACTCAAGACAAATTA
* *
35735797 TTAAAA-AAAACTCAAAGAGAACTTA
1 TTAAAAGAAAACTC-AAGACAAATTA
35735822 TTAA
1 TTAA
35735826 CTCAAAAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.22
Consensus pattern (25 bp):
TTAAAAGAAAACTCAAGACAAATTA
Found at i:35738675 original size:3 final size:3
Alignment explanation
Indices: 35738669--35738703 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
35738659 TATTGACTTT
* *
35738669 ATA ATA ATA ATA ATA ATA ATA AGA ATA AGA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
35738704 CCTATGAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:35739355 original size:15 final size:15
Alignment explanation
Indices: 35739335--35739366 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35739325 ATGAATATTC
*
35739335 TAAAATTTATTAAAT
1 TAAAATTAATTAAAT
35739350 TAAAATTAATTAAAT
1 TAAAATTAATTAAAT
35739365 TA
1 TA
35739367 TATCCCACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAATTAATTAAAT
Found at i:35741136 original size:6 final size:6
Alignment explanation
Indices: 35741119--35741148 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
35741109 TTAAGTGGAT
35741119 TAAAAC TAAAAAC TAAAAC TAAAAC TAAAA
1 TAAAAC T-AAAAC TAAAAC TAAAAC TAAAA
35741149 TCACCGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAC
Found at i:35742045 original size:46 final size:46
Alignment explanation
Indices: 35741989--35742082 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
35741979 ATGAATTCTT
35741989 ATGAAATTTGCTGTGCCATATCCTCTTTGCGTTCCTCAAATGGCAG
1 ATGAAATTTGCTGTGCCATATCCTCTTTGCGTTCCTCAAATGGCAG
35742035 ATGAAATTTGCTGTGCCATATCCTCTTTGCGTTCCTCAAATGGCAG
1 ATGAAATTTGCTGTGCCATATCCTCTTTGCGTTCCTCAAATGGCAG
35742081 AT
1 AT
35742083 TGTGATTTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (46 bp):
ATGAAATTTGCTGTGCCATATCCTCTTTGCGTTCCTCAAATGGCAG
Found at i:35746267 original size:76 final size:76
Alignment explanation
Indices: 35746115--35746266 Score: 279
Period size: 76 Copynumber: 2.0 Consensus size: 76
35746105 GCAAAACCTC
*
35746115 AGTTTCAAATGCTGGACTCCAAACTGAGTATAGGGAGAAAGGGGGGCCAGTGAGTGTTAAAAAAA
1 AGTTTCAAATGCTGGACTCCAAACTGAGTATAGGGAGAAAGGGCGGCCAGTGAGTGTTAAAAAAA
*
35746180 GGGAAAAAAAA
66 GGAAAAAAAAA
35746191 AGTTTCAAATGCTGGACTCCAAACTGAGTATAGGGAGAAAGGGCGGCCAGTGAGTGTT-AAAAAA
1 AGTTTCAAATGCTGGACTCCAAACTGAGTATAGGGAGAAAGGGCGGCCAGTGAGTGTTAAAAAAA
35746255 GGAAAAAAAAA
66 GGAAAAAAAAA
35746266 A
1 A
35746267 AAAAGAAACA
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 17 0.23
76 57 0.77
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (76 bp):
AGTTTCAAATGCTGGACTCCAAACTGAGTATAGGGAGAAAGGGCGGCCAGTGAGTGTTAAAAAAA
GGAAAAAAAAA
Found at i:35759184 original size:21 final size:21
Alignment explanation
Indices: 35759158--35759198 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35759148 ATCTGCTCAA
* *
35759158 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
35759179 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
35759199 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:35763827 original size:17 final size:19
Alignment explanation
Indices: 35763805--35763848 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
35763795 GTTAATATAA
35763805 TTTTTAA-AATTTTAAA-T-
1 TTTTTAATAA-TTTAAAGTG
35763822 TTTTTAATAATTTAAAGTG
1 TTTTTAATAATTTAAAGTG
35763841 TTTTTAAT
1 TTTTTAAT
35763849 TAGGATGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 13 0.54
18 3 0.12
19 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTAATAATTTAAAGTG
Found at i:35769292 original size:36 final size:35
Alignment explanation
Indices: 35769217--35769294 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 35
35769207 AAGTTTTGTT
* ** ***
35769217 AAAATAATTTAGGGTTAGGTTTTTAGGGTTTTGTT
1 AAAATAATTTAGGGTTAGGATTTTAGGAATTTAAA
*
35769252 AAAATAATTTAGGGTTTTGGATTTTAGGAATTTAAA
1 AAAATAATTTAGGG-TTAGGATTTTAGGAATTTAAA
35769288 AAAATAA
1 AAAATAA
35769295 ATCAAGATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
35 14 0.40
36 21 0.60
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (35 bp):
AAAATAATTTAGGGTTAGGATTTTAGGAATTTAAA
Found at i:35769384 original size:34 final size:33
Alignment explanation
Indices: 35769312--35769387 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 33
35769302 TTTAGTGTTA
35769312 TTTTTT-AAAAATTAATTAAATTAGGGTTTAAG
1 TTTTTTAAAAAATTAATTAAATTAGGGTTTAAG
*
35769344 TATTTTAAATAAATTAATTAAATTAGGGTTT-AG
1 TTTTTTAAA-AAATTAATTAAATTAGGGTTTAAG
*
35769377 TTTTTTTAAAA
1 TTTTTTAAAAA
35769388 TAATATTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
32 7 0.18
33 11 0.28
34 21 0.54
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (33 bp):
TTTTTTAAAAAATTAATTAAATTAGGGTTTAAG
Found at i:35769591 original size:126 final size:126
Alignment explanation
Indices: 35769449--35769717 Score: 425
Period size: 126 Copynumber: 2.1 Consensus size: 126
35769439 ATTTTGTTTT
* * * *
35769449 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAATAC-TGTTCTTAACAAATAGTATGAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGT-TTCTAAACAAATAGTATCAAA
* * *
35769513 AACGCTTCAAGCAGGATGCATTGTCAGCAAAATT-ATTGAAAAAAGCTCCCATGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTGA-TGAAAAAAGCTCCCATGTCGACACTC
* *
35769575 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTATCAAAA
35769640 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCATGTCGACACTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCATGTCGACACTC
35769701 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
35769718 ATGTTTGGCT
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
126 129 0.98
127 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTATCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCATGTCGACACTC
Found at i:35772034 original size:27 final size:26
Alignment explanation
Indices: 35772004--35772129 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
35771994 AAATTGTACA
35772004 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
35772031 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
35772058 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
* *
35772085 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
35772113 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
35772130 TGATTGTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 59 0.70
28 23 0.27
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:35772068 original size:54 final size:54
Alignment explanation
Indices: 35772003--35772129 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 54
35771993 TAAATTGTAC
* **
35772003 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAAT-GAA-TATG-
1 AGCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCG-AATCGAACTATGT
* *
35772056 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATGT
1 A-GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
35772112 AGCACTAAGTGTGCGATT
1 AGCACTAAGTGTGCGATT
35772130 TGATTGTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
53 3 0.05
54 39 0.61
55 21 0.33
56 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAATCGAACTATGT
Found at i:35779946 original size:27 final size:27
Alignment explanation
Indices: 35779915--35780092 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
35779905 TAAATTGTAC
35779915 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35779942 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
35779968 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35779996 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35780024 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35780051 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35780078 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35780093 GACTCAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35780029 original size:82 final size:81
Alignment explanation
Indices: 35779916--35780071 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35779906 AAATTGTACA
* *
35779916 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35779980 TGCGAATTGACCATGTG
65 TGCGAATTGACCATGTG
** *
35779997 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35780062 TGCGAGTTGA
65 TGCGAATTGA
35780072 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGTG
Found at i:35780083 original size:82 final size:81
Alignment explanation
Indices: 35779915--35780092 Score: 232
Period size: 82 Copynumber: 2.2 Consensus size: 81
35779905 TAAATTGTAC
* *
35779915 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
*
35779980 TGCGAATTGACCATGT
66 TGCGAATTGACCATAT
* ** *
35779996 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* **
35780060 TGTGCGAGTTGATTATAT
64 TGTGCGAATTGACCATAT
*
35780078 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35780093 GACTCAATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 16 0.19
82 67 0.81
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATAT
Found at i:35783101 original size:48 final size:46
Alignment explanation
Indices: 35782940--35783101 Score: 172
Period size: 46 Copynumber: 3.5 Consensus size: 46
35782930 TCATTTGTGT
* *
35782940 GCTAGTGTAAGACATGTCTGGGACATG-ATCAGCCA--CAGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATTGAG-ACGAGA
* *
35782985 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGGCGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGAGA
* *
35783031 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGAGATAC-A-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCAT--TGAG--ACGAGA
*
35783079 GCTAGTGTAAGACCTGTCTGGGA
1 GCTAGTGTAAGACATGTCTGGGA
35783102 TTTGGTTGAG
Statistics
Matches: 101, Mismatches: 9, Indels: 11
0.83 0.07 0.09
Matches are distributed among these distances:
45 28 0.28
46 42 0.42
47 2 0.02
48 27 0.27
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGAGA
Found at i:35783669 original size:20 final size:21
Alignment explanation
Indices: 35783630--35783669 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35783620 CACGGCATGA
35783630 CCACACGGGCATGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
*
35783651 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCATGTTGCCCT
35783670 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:35788115 original size:30 final size:29
Alignment explanation
Indices: 35788043--35788124 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 29
35788033 GCTCACGAGC
*
35788043 TAAACCTTAGCTCAACTTCAGCTTAGGAG
1 TAAACCTTAGCTCAACTTTAGCTTAGGAG
* *
35788072 TATAATCTCAGCTCAACTTTAGCTTAAGG-G
1 TA-AACCTTAGCTCAACTTTAGCTT-AGGAG
* *
35788102 TTAAAGCTTAGCTC-ATTTTAGCT
1 -TAAACCTTAGCTCAACTTTAGCT
35788125 CAAACCCGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 10 0.23
30 29 0.66
31 5 0.11
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (29 bp):
TAAACCTTAGCTCAACTTTAGCTTAGGAG
Found at i:35790379 original size:27 final size:25
Alignment explanation
Indices: 35790344--35790447 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 25
35790334 CAAATTAATG
*
35790344 AAATACCCCTAGTTGTAAAATTACC
1 AAATACCCCCAGTTGTAAAATTACC
*
35790369 AAAGTACCCCCAGTTTATAAAATTACCC
1 AAA-TACCCCCAG-TTGTAAAATTA-CC
* * *
35790397 AAATATCCTCGATTTGTAAAATTACC
1 AAATA-CCCCCAGTTGTAAAATTACC
* *
35790423 GAAATACCCTCAGTTTGCAAAATTA
1 -AAATACCCCCAG-TTGTAAAATTA
35790448 TTAAAATACC
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
25 3 0.05
26 13 0.21
27 37 0.60
28 9 0.15
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (25 bp):
AAATACCCCCAGTTGTAAAATTACC
Found at i:35790431 original size:54 final size:54
Alignment explanation
Indices: 35790356--35790485 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
35790346 ATACCCCTAG
* * *
35790356 TTGTAAAATTACC-AAAGTACCCCCAGTTTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCGAAA-TACCCCCAGTTTACAAAATTACCAAAATACCCTCGAT
* * **
35790410 TTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATTAAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCCCCAGTTTACAAAATTACCAAAATACCCTCGAT
* **
35790464 TTCTAAAATTATTGAAATACCC
1 TTGTAAAATTACCGAAATACCC
35790486 TCGACTTGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 62 0.95
55 3 0.05
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.32
Consensus pattern (54 bp):
TTGTAAAATTACCGAAATACCCCCAGTTTACAAAATTACCAAAATACCCTCGAT
Found at i:35790454 original size:27 final size:27
Alignment explanation
Indices: 35790397--35790566 Score: 123
Period size: 27 Copynumber: 6.3 Consensus size: 27
35790387 AAAATTACCC
* * ***
35790397 AAATATCCTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTCTAAAATTATTA
35790424 AAATACCCTC-AGTTTGC-AAAATTATTA
1 AAATACCCTCGA-TTT-CTAAAATTATTA
*
35790451 AAATACCCTCGATTTCTAAAATTATTG
1 AAATACCCTCGATTTCTAAAATTATTA
* * *
35790478 AAATACCCTCGACTTGTAAAATTATCA
1 AAATACCCTCGATTTCTAAAATTATTA
* * * **
35790505 AAGTACCCCCGATTTAC-AGAATTATCG
1 AAATACCCTCGATTT-CTAAAATTATTA
***
35790532 TTTTACCCTCGATTTAC-AAAATTATTA
1 AAATACCCTCGATTT-CTAAAATTATTA
35790559 AAATACCC
1 AAATACCC
35790567 CTGTAGGGTA
Statistics
Matches: 112, Mismatches: 26, Indels: 10
0.76 0.18 0.07
Matches are distributed among these distances:
26 2 0.02
27 109 0.97
28 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATACCCTCGATTTCTAAAATTATTA
Found at i:35790486 original size:54 final size:54
Alignment explanation
Indices: 35790397--35790566 Score: 182
Period size: 54 Copynumber: 3.1 Consensus size: 54
35790387 AAAATTACCC
* * *
35790397 AAATATCCTCGATTTGTAAAATTACCGAAATACCCTC-AGTTTGCAAAATTATTA
1 AAATACCCTCGATTTCTAAAATTATCGAAATACCCTCGA-TTTGCAAAATTATTA
* * * *
35790451 AAATACCCTCGATTTCTAAAATTATTGAAATACCCTCGACTTGTAAAATTATCA
1 AAATACCCTCGATTTCTAAAATTATCGAAATACCCTCGATTTGCAAAATTATTA
* * * *** *
35790505 AAGTACCCCCGATTTAC-AGAATTATCGTTTTACCCTCGATTTACAAAATTATTA
1 AAATACCCTCGATTT-CTAAAATTATCGAAATACCCTCGATTTGCAAAATTATTA
35790559 AAATACCC
1 AAATACCC
35790567 CTGTAGGGTA
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
54 93 0.98
55 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (54 bp):
AAATACCCTCGATTTCTAAAATTATCGAAATACCCTCGATTTGCAAAATTATTA
Found at i:35790528 original size:81 final size:81
Alignment explanation
Indices: 35790397--35790566 Score: 184
Period size: 81 Copynumber: 2.1 Consensus size: 81
35790387 AAAATTACCC
* * * * *
35790397 AAATATCCTCGATTTGTAAAATTACCGAAATACCCTCAGTTTGCAAAATTATTAAAATACCCTCG
1 AAATACCCTCGACTTGTAAAATTACCGAAATACCCCCAGTTTACAAAATTATCAAAATACCCTCG
*
35790462 ATTT-CTAAAATTATTG
66 ATTTAC-AAAATTATTA
* * ****
35790478 AAATACCCTCGACTTGTAAAATTATC-AAAGTACCCCC-GATTTACAGAATTATCGTTTTACCCT
1 AAATACCCTCGACTTGTAAAATTACCGAAA-TACCCCCAG-TTTACAAAATTATCAAAATACCCT
35790541 CGATTTACAAAATTATTA
64 CGATTTACAAAATTATTA
35790559 AAATACCC
1 AAATACCC
35790567 CTGTAGGGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
80 4 0.05
81 69 0.93
82 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (81 bp):
AAATACCCTCGACTTGTAAAATTACCGAAATACCCCCAGTTTACAAAATTATCAAAATACCCTCG
ATTTACAAAATTATTA
Found at i:35790581 original size:27 final size:27
Alignment explanation
Indices: 35790559--35791070 Score: 637
Period size: 27 Copynumber: 19.0 Consensus size: 27
35790549 AAAATTATTA
*
35790559 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
35790586 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
35790613 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
** *
35790640 AAATACCGTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
35790667 AAATACCCCTATAGGATAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
35790694 AAATACCCCTATAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
35790721 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
35790748 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
35790775 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
35790802 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
35790829 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
35790856 AAATACCCTTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
35790883 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
35790910 AAATACCCTTGTAGGGTAGAAATATCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * **
35790937 AAATACCCCTATAAGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
35790964 AAATACCCCTGTAGGATAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
35790991 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
35791018 AAATGCCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * * *
35791045 AGATACCCTTATGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
35791071 ATTTTGCCCC
Statistics
Matches: 417, Mismatches: 68, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 417 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:35791526 original size:22 final size:22
Alignment explanation
Indices: 35791493--35791557 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
35791483 TTAAAGCCTT
* *
35791493 CTGATTATGGCTTTGCGCCAAC
1 CTGAATATGGCTCTGCGCCAAC
*
35791515 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCTCTGCGCCAAC
* *
35791537 CTGATTATGGCTGTGCGCCAA
1 CTGAATATGGCTCTGCGCCAA
35791558 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.29
Consensus pattern (22 bp):
CTGAATATGGCTCTGCGCCAAC
Found at i:35791752 original size:26 final size:26
Alignment explanation
Indices: 35791716--35791795 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 26
35791706 ATTCTGTTAA
* *
35791716 GTGGCTTTGCCACATTATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
35791742 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
35791769 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
35791795 G
1 G
35791796 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 25 0.51
27 24 0.49
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:35791776 original size:27 final size:26
Alignment explanation
Indices: 35791723--35791795 Score: 110
Period size: 27 Copynumber: 2.8 Consensus size: 26
35791713 TAAGTGGCTT
* *
35791723 TGCCACATTATCTGTTCTGGTGGCTC
1 TGCCACAATATCTGTTCTGGTGACTC
35791749 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
35791776 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
35791796 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 19 0.44
27 24 0.56
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:35793997 original size:24 final size:24
Alignment explanation
Indices: 35793970--35794061 Score: 139
Period size: 24 Copynumber: 3.8 Consensus size: 24
35793960 TGGACATTCC
*
35793970 AATCCCCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
*
35793994 AATCTGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* *
35794018 AATTCGCACACATAGTGCCATTCA
1 AATCCGCACACATAGTGCCATACA
*
35794042 AATTCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
35794062 AAATCATTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.36, C:0.32, G:0.12, T:0.21
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:35794007 original size:48 final size:48
Alignment explanation
Indices: 35793928--35794058 Score: 131
Period size: 48 Copynumber: 2.7 Consensus size: 48
35793918 TGTTAACCTG
* ** * * * *
35793928 CACACATAGTGCCTTAGTAATTCACATACATA-TGGACATTCCAATCCC
1 CACACATAGTGCCATACAAATTCGCACACATAGT-GACATACAAATCCC
* * *
35793976 CACACATAGTGCCATACAAA-TCTGCACACATAGTGCCATACAAATTCG
1 CACACATAGTGCCATACAAATTC-GCACACATAGTGACATACAAATCCC
*
35794024 CACACATAGTGCCATTCAAATTCGCACACATAGTG
1 CACACATAGTGCCATACAAATTCGCACACATAGTG
35794059 CCAAAATCAT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.03
48 64 0.93
49 3 0.04
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (48 bp):
CACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAATCCC
Found at i:35794031 original size:72 final size:72
Alignment explanation
Indices: 35793925--35794061 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 72
35793915 CCATGTTAAC
* ** * *
35793925 CTGCACACATAGTGCCTTAGTAATTCACATACATA-TGGACATTCCAATCCCCACACATAGTGCC
1 CTGCACACATAGTGCCATACAAATTCACACACATAGT-GACATTCAAATCCCCACACATAGTGCC
35793989 ATACAAAT
65 ATACAAAT
* * * *
35793997 CTGCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CTGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCCCACACATAGTGCCA
35794062 AAATCATTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 54 0.98
73 1 0.02
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.23
Consensus pattern (72 bp):
CTGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCCCACACATAGTGCCA
TACAAAT
Found at i:35795169 original size:17 final size:17
Alignment explanation
Indices: 35795147--35795180 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35795137 CCCCACTTAA
*
35795147 TATATTATAACTTATTT
1 TATATTATAACATATTT
35795164 TATATTATAACATATTT
1 TATATTATAACATATTT
35795181 CAATTATATA
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:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:35798907 original size:18 final size:18
Alignment explanation
Indices: 35798886--35798920 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35798876 AAACATTATT
35798886 AGAACTAGAATCAAAATG
1 AGAACTAGAATCAAAATG
*
35798904 AGAATTAGAATCAAAAT
1 AGAACTAGAATCAAAAT
35798921 CAGGTGACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (18 bp):
AGAACTAGAATCAAAATG
Found at i:35798937 original size:6 final size:6
Alignment explanation
Indices: 35798892--35798970 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
35798882 TATTAGAACT
* * * * *
35798892 AGAATC AAAATG AGAATT AGAATC AAAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
35798941 AGTATC AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
35798971 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
5 3 0.05
6 45 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:35798967 original size:25 final size:25
Alignment explanation
Indices: 35798904--35798970 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
35798894 AATCAAAATG
* * *
35798904 AGAATTAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
35798929 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
35798954 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
35798971 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:35799131 original size:27 final size:26
Alignment explanation
Indices: 35799087--35799137 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
35799077 TAACATGGCT
*
35799087 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATAATGTGACAGAGTC
* *
35799113 ACCAGATATAGATAATGTGGCAGAG
1 ACCAGA-ACAGATAATGTGACAGAG
35799138 CCACTTAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGACAGAGTC
Found at i:35799328 original size:22 final size:22
Alignment explanation
Indices: 35799300--35799364 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
35799290 GCAAATATGT
*
35799300 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
35799322 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
35799344 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
35799365 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:35799782 original size:27 final size:27
Alignment explanation
Indices: 35799752--35800237 Score: 549
Period size: 27 Copynumber: 18.0 Consensus size: 27
35799742 GGGGAAAAAT
* * *
35799752 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
35799779 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35799806 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
35799833 AGTAATTCTATCATATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35799860 AGTAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
35799887 GATATTTGTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
35799914 GATATTTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
35799941 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35799968 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35799995 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
35800022 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
35800049 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
35800076 GGTATTTATACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
35800103 GATATTTCTACCCTACAAGGGTATTTG
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35800130 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35800157 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
35800184 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
35800211 GGCATTTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
35800238 AATAATTTTA
Statistics
Matches: 397, Mismatches: 62, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 397 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:35800259 original size:27 final size:26
Alignment explanation
Indices: 35800229--35800406 Score: 126
Period size: 27 Copynumber: 6.6 Consensus size: 26
35800219 TATCCTATAG
* *
35800229 GGGTATTTCAATAATTTTATAAATCGA
1 GGGTATTT-AGTAATTTTACAAATCGA
** * * **
35800256 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGT-ATTTAGTAATTTTACAAATCGA
* *
35800283 GGATACTTT-GATAATTTTACAAGTCGA
1 GGGTA-TTTAG-TAATTTTACAAATCGA
*
35800310 GGGTATTTTAGTAATTTTACAAATTGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* *
35800337 GGGTATTTTAGTAATTTTACAAACCGG
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * *
35800364 GGGTACTTTGGTAATTTTACAACT-GG
1 GGGTA-TTTAGTAATTTTACAAATCGA
35800390 GGGTATTTTAGTAATTT
1 GGGTA-TTTAGTAATTT
35800407 GGTAAACGAA
Statistics
Matches: 121, Mismatches: 26, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
26 19 0.16
27 99 0.82
28 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATCGA
Found at i:35800403 original size:26 final size:27
Alignment explanation
Indices: 35800294--35800406 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
35800284 GATACTTTGA
*
35800294 TAATTTTAC-AAGTCGAGGGTATTTTAG
1 TAATTTTACAAACT-GAGGGTATTTTAG
*
35800321 TAATTTTACAAATTGAGGGTATTTTAG
1 TAATTTTACAAACTGAGGGTATTTTAG
* * * *
35800348 TAATTTTACAAACCGGGGGTACTTTGG
1 TAATTTTACAAACTGAGGGTATTTTAG
*
35800375 TAATTTTAC-AACTGGGGGTATTTTAG
1 TAATTTTACAAACTGAGGGTATTTTAG
35800401 TAATTT
1 TAATTT
35800407 GGTAAACGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.26
27 53 0.70
28 3 0.04
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAACTGAGGGTATTTTAG
Found at i:35804457 original size:13 final size:13
Alignment explanation
Indices: 35804439--35804472 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
35804429 AGCACAGGGT
35804439 GTGTGCCTTGGCC
1 GTGTGCCTTGGCC
35804452 GTGTGCCTTGGCC
1 GTGTGCCTTGGCC
35804465 GTGTGCCT
1 GTGTGCCT
35804473 CAAAATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.38, T:0.32
Consensus pattern (13 bp):
GTGTGCCTTGGCC
Found at i:35808859 original size:45 final size:44
Alignment explanation
Indices: 35808793--35808878 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 44
35808783 TATTGTACGG
** * *
35808793 TACTATTCTGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCTGGCCTTCAAGCCTAACAGGCGA-AATGCCGGTGAGA
35808838 TACTATTC-GCGCCTTCAAGCCTAACAGGCGAAATGCCGGTG
1 TACTATTCTG-GCCTTCAAGCCTAACAGGCGAAATGCCGGTG
35808879 GATGAATTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 11 0.31
45 25 0.69
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (44 bp):
TACTATTCTGGCCTTCAAGCCTAACAGGCGAAATGCCGGTGAGA
Found at i:35816794 original size:45 final size:45
Alignment explanation
Indices: 35816730--35816948 Score: 302
Period size: 45 Copynumber: 4.9 Consensus size: 45
35816720 TATTGTACGG
* *
35816730 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
35816775 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
35816820 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
35816865 TACTATTCGGGTCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
35816910 TGA-TA-TCGAG-CTTCGAGCCTAGTAGGCGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTG
35816949 GATGAATTCA
Statistics
Matches: 165, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
42 10 0.06
43 18 0.11
44 4 0.02
45 132 0.80
46 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:35820662 original size:26 final size:26
Alignment explanation
Indices: 35820614--35820667 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
35820604 AATCTTATAT
* ** *
35820614 CTGTAGGCTAGCATTACTGAAATGCC
1 CTGTAGGCTAGAATTACCAAAATACC
*
35820640 CTGTAGGGTAGAATTACCAAAATACC
1 CTGTAGGCTAGAATTACCAAAATACC
35820666 CT
1 CT
35820668 TGGTTTATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.26
Consensus pattern (26 bp):
CTGTAGGCTAGAATTACCAAAATACC
Found at i:35820685 original size:27 final size:27
Alignment explanation
Indices: 35820651--35820846 Score: 182
Period size: 27 Copynumber: 7.3 Consensus size: 27
35820641 TGTAGGGTAG
* *
35820651 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
35820678 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
35820705 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
35820732 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCT-TGATTTGTAA
** * **
35820759 AATTACTGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * * *
35820786 AATTACTGAAATACCCTCGACTTCTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
35820813 AATTACCAAAGTACCCTCGATTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
35820840 AATTACC
1 AATTACC
35820847 GTTTTACCCT
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.01
27 141 0.96
28 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:35820854 original size:27 final size:27
Alignment explanation
Indices: 35820797--35820986 Score: 218
Period size: 27 Copynumber: 7.0 Consensus size: 27
35820787 ATTACTGAAA
* * ***
35820797 TACCCTCGACTTCTAAAATTACCAAAG
1 TACCCTCGATTTATAAAATTACCATTT
*
35820824 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCATTT
* * * **
35820851 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCATTT
**
35820878 TACCCTCGATTTACCAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * * * *
35820905 TACACTCAATTCATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTT
35820932 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
35820959 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
35820986 T
1 T
35820987 GCCCCTAGGG
Statistics
Matches: 136, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCATTT
Found at i:35821554 original size:27 final size:26
Alignment explanation
Indices: 35821524--35821587 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
35821514 ATTCTGTTAA
*
35821524 GTGGCTTTGCATC-ATTATCTGATTCTG
1 GTGGCTTTGCA-CAAATATCTG-TTCTG
*
35821551 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTG-CACAAATATCTGTTCTG
*
35821578 GAGGCTTTGC
1 GTGGCTTTGC
35821588 CTCAACTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 1 0.03
27 21 0.68
28 9 0.29
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (26 bp):
GTGGCTTTGCACAAATATCTGTTCTG
Found at i:35824800 original size:56 final size:56
Alignment explanation
Indices: 35824713--35824832 Score: 168
Period size: 56 Copynumber: 2.1 Consensus size: 56
35824703 TTACATGTAA
* * * *
35824713 TCACATGTCAATGCCACTGTCCCAGATAGGGTCTTACTCGCACATATATATCAGAG
1 TCACATATCAATGCCACTGTCCCAGACAGGGTCTTACTCACACACATATATCAGAG
* * * *
35824769 TCACATATCGATGCCACTGTCCTAGACAGGGTCTTACTCATACACATATATCGGAG
1 TCACATATCAATGCCACTGTCCCAGACAGGGTCTTACTCACACACATATATCAGAG
35824825 TCACATAT
1 TCACATAT
35824833 TGATACCAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (56 bp):
TCACATATCAATGCCACTGTCCCAGACAGGGTCTTACTCACACACATATATCAGAG
Found at i:35827196 original size:52 final size:51
Alignment explanation
Indices: 35827067--35827198 Score: 194
Period size: 50 Copynumber: 2.6 Consensus size: 51
35827057 ATGTCTTTTG
* * *
35827067 CATTTAATAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* *
35827118 CA-TAAATTATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCAT
*
35827169 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
35827199 ATTTTTTTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
50 33 0.46
51 14 0.20
52 24 0.34
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:35838695 original size:47 final size:47
Alignment explanation
Indices: 35838634--35838755 Score: 192
Period size: 47 Copynumber: 2.6 Consensus size: 47
35838624 GCATTGGCAC
*
35838634 TAAGACAAGGATACCATGTAACACCATGTTTGGAACAT-GACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAG-CATTTGG
*
35838681 TAAGACAAGTATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
* *
35838728 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
35838756 CCAAGGCATG
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
47 68 0.99
48 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATAGCATTTGG
Found at i:35838798 original size:54 final size:53
Alignment explanation
Indices: 35838734--35838913 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 53
35838724 TTGGTAAGAT
*
35838734 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGTC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAG-C
* * * *
35838788 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAA-G-C
* * *
35838844 AAGG-T-CCTATGTAAGACCATGCCAAGGCATGCCATTGGTGAGTTC-ATAAAGC
1 AAGGATATC-ATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTAT-AAGC
*
35838896 AAGGATACCATGTAAGAC
1 AAGGATATCATGTAAGAC
35838914 TATGTCTGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 4 0.04
53 13 0.12
54 47 0.44
55 38 0.36
56 5 0.05
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (53 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGC
Found at i:35850389 original size:22 final size:22
Alignment explanation
Indices: 35850361--35850405 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
35850351 GTTTTGGTAC
35850361 AGGTAAGTTCGTATAAGGATTA
1 AGGTAAGTTCGTATAAGGATTA
35850383 AGGTAAGTTCGTATAAGGATTA
1 AGGTAAGTTCGTATAAGGATTA
35850405 A
1 A
35850406 CTTGTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (22 bp):
AGGTAAGTTCGTATAAGGATTA
Found at i:35856720 original size:35 final size:36
Alignment explanation
Indices: 35856628--35856726 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 36
35856618 AGTTATTGAT
* *
35856628 GTTCTGATTTA-CATGTTAAACATGTTAATATTCTGA
1 GTTCTGA-TTAGCATGTTAAGCATGCTAATATTCTGA
* * *
35856664 TGTTCCGATTCGCGTGTTAAGCATGCT-ATATTTCTGA
1 -GTTCTGATTAGCATGTTAAGCATGCTAATA-TTCTGA
35856701 -TTCTGATTAGCATGTTAAGCATGCTA
1 GTTCTGATTAGCATGTTAAGCATGCTA
35856727 CTGTGATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
35 22 0.43
36 5 0.10
37 24 0.47
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (36 bp):
GTTCTGATTAGCATGTTAAGCATGCTAATATTCTGA
Found at i:35878486 original size:40 final size:40
Alignment explanation
Indices: 35878456--35878663 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
35878446 GGACTAAGAT
* * * *
35878456 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
35878496 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
35878536 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * *
35878576 CCGAAGGCATTCGTGCGAGTTGTTAAATCTGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
35878616 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
35878655 CCGAAGGCA
1 CCGAAGGCA
35878664 CTTGAACGAG
Statistics
Matches: 155, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 31 0.20
40 124 0.80
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:35878540 original size:80 final size:80
Alignment explanation
Indices: 35878403--35878663 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
35878393 TTGAATGCTG
* * * * * **
35878403 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
35878466 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
35878483 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
35878548 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * * *
35878563 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCTGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
35878627 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
35878642 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
35878664 CTTGAACGAG
Statistics
Matches: 156, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 34 0.22
80 116 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:35878617 original size:120 final size:120
Alignment explanation
Indices: 35878403--35878663 Score: 312
Period size: 120 Copynumber: 2.2 Consensus size: 120
35878393 TTGAATGCTG
* * *
35878403 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
35878467 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
35878523 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * *
35878586 TCGTGCGAGTTGTTAAATCTGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
35878642 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
35878664 CTTGAACGAG
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
119 33 0.28
120 80 0.67
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:35895693 original size:14 final size:14
Alignment explanation
Indices: 35895657--35895686 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35895647 CTTTATGTTT
*
35895657 TATAAATATAATAA
1 TATAATTATAATAA
35895671 TATAATTATAATAA
1 TATAATTATAATAA
35895685 TA
1 TA
35895687 ACATTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAATTATAATAA
Found at i:35900111 original size:17 final size:17
Alignment explanation
Indices: 35900086--35900119 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35900076 ATAATAAGCA
* *
35900086 AAGTTTAATATTTAAAT
1 AAGTATAATATATAAAT
35900103 AAGTATAATATATAAAT
1 AAGTATAATATATAAAT
35900120 TCTACTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
AAGTATAATATATAAAT
Found at i:35901010 original size:41 final size:41
Alignment explanation
Indices: 35900956--35901159 Score: 291
Period size: 41 Copynumber: 5.0 Consensus size: 41
35900946 TTAATTAAAA
* * *
35900956 CAGATTCAACGGCACTTAGCCTGCTAAGCTTAAAGTCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
*
35900998 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
35901039 CAGTTCACCGGCACTTAGCCTGCTAGGCTTAAAGCTTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
** *
35901080 CAGATCGTCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* * *
35901121 CAGTTCACCGGCACTTAGCTTGCTAGGCTTTAAGCCTGA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGA
35901160 ATTGATTCAC
Statistics
Matches: 144, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 140 0.97
42 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:35901102 original size:82 final size:83
Alignment explanation
Indices: 35900960--35901159 Score: 325
Period size: 82 Copynumber: 2.4 Consensus size: 83
35900950 TTAAAACAGA
* *
35900960 TTCAACGGCACTTAGCCTGCTAAGCTTAAAG-TCTGATTCAGATCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCTCTGATTCAGATCACCGGCACTTAGCCTGCTAG
35901024 GCTTATAGCCTGATTCAG
66 GCTTATAGCCTGATTCAG
**
35901042 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCT-TGATTCAGATCGTCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCTCTGATTCAGATCACCGGCACTTAGCCTGCTAG
35901106 GCTTATAGCCTGATTCAG
66 GCTTATAGCCTGATTCAG
* *
35901124 TTCACCGGCACTTAGCTTGCTAGGCTTTAAGC-CTGA
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCTCTGA
35901160 ATTGATTCAC
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
82 109 0.99
83 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (83 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCTCTGATTCAGATCACCGGCACTTAGCCTGCTAG
GCTTATAGCCTGATTCAG
Found at i:35901169 original size:41 final size:40
Alignment explanation
Indices: 35900958--35901189 Score: 222
Period size: 41 Copynumber: 5.7 Consensus size: 40
35900948 AATTAAAACA
* * * *
35900958 GATTCAACGGCACTTAGCCTGCTAAGCTTAAAGTCTGATT
1 GATTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTGATT
35900998 CAGA-TCACCGGCACTTAGCCTGCTAGGC-TTATAGCCTGATT
1 --GATTCACCGGCACTTAGCCTGCTAGGCTTTA-AGCCTGATT
* * *
35901039 CAGTTCACCGGCACTTAGCCTGCTAGGCTTAAAGCTTGATT
1 GA-TTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTGATT
**
35901080 CAGA-TCGTCGGCACTTAGCCTGCTAGGC-TTATAGCCTGATT
1 --GATTCACCGGCACTTAGCCTGCTAGGCTTTA-AGCCTGATT
* *
35901121 CAGTTCACCGGCACTTAGCTTGCTAGGCTTTAAGCCTGAATT
1 GA-TTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTG-ATT
* *
35901163 GATTCACTGGCAATATA-CCTGCTAGGC
1 GATTCACCGGCACT-TAGCCTGCTAGGC
35901190 GCTGAGCCTG
Statistics
Matches: 158, Mismatches: 20, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.01
40 4 0.03
41 138 0.87
42 13 0.08
43 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GATTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTGATT
Found at i:35901184 original size:82 final size:81
Alignment explanation
Indices: 35900960--35901189 Score: 304
Period size: 82 Copynumber: 2.8 Consensus size: 81
35900950 TTAAAACAGA
* * * *
35900960 TTCAACGGCACTTAGCCTGCTAAGCTTAAAGTCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT-AGATCACTGGCACTTAGCCTGCTAGG
35901025 CTTATAGCCTGATTCAG
65 CTTATAGCCTGATTCAG
* *
35901042 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCTTGATTCAGATC-GTCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT-AGATCACT-GGCACTTAGCCTGCTAG
35901106 GCTTATAGCCTGATTCAG
64 GCTTATAGCCTGATTCAG
* * *
35901124 TTCACCGGCACTTAGCTTGCTAGGCTTTAAGCCTGAATT-GATTCACTGGCAATATA-CCTGCTA
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTAGA-TCACTGGCACT-TAGCCTGCTA
35901187 GGC
63 GGC
35901190 GCTGAGCCTG
Statistics
Matches: 132, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
81 2 0.02
82 124 0.94
83 6 0.05
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.29
Consensus pattern (81 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTAGATCACTGGCACTTAGCCTGCTAGGC
TTATAGCCTGATTCAG
Found at i:35901184 original size:123 final size:123
Alignment explanation
Indices: 35900965--35901189 Score: 330
Period size: 123 Copynumber: 1.8 Consensus size: 123
35900955 ACAGATTCAA
*
35900965 CGGCACTTAGCCTGCTAAGCTTAAAGTCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAT
1 CGGCACTTAGCCTGCTAAGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAT
*
35901030 AGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTAAAGCTTGATTCAGATCGT
66 AGCCTGATTCAGTTCACCGGCAATTAGCCTGCTAGGCTTAAAGCTTGATTCAGATCGT
* * * *
35901088 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCTTGCTAGGCTT-T
1 CGGCACTTAGCCTGCTAAGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAT
* *
35901152 AAGCCTGAATTGA-TTCACTGGCAATATA-CCTGCTAGGC
66 -AGCCTG-ATTCAGTTCACCGGCAAT-TAGCCTGCTAGGC
35901190 GCTGAGCCTG
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
122 1 0.01
123 84 0.92
124 6 0.07
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (123 bp):
CGGCACTTAGCCTGCTAAGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAT
AGCCTGATTCAGTTCACCGGCAATTAGCCTGCTAGGCTTAAAGCTTGATTCAGATCGT
Found at i:35903557 original size:19 final size:19
Alignment explanation
Indices: 35903535--35903617 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 19
35903525 GTGTGGGTTT
* *
35903535 ATGCACCTCGTGTGCCAAG
1 ATGCACTTCATGTGCCAAG
* *
35903554 ATGCTCTTCATGTGCCAGG
1 ATGCACTTCATGTGCCAAG
* * *
35903573 ATGCGCTTCAAGTGCCAGG
1 ATGCACTTCATGTGCCAAG
* * *
35903592 ATGCGCTTCGTGTGCCAAT
1 ATGCACTTCATGTGCCAAG
35903611 ATGCACT
1 ATGCACT
35903618 ATGTGTGTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.27
Consensus pattern (19 bp):
ATGCACTTCATGTGCCAAG
Found at i:35904084 original size:24 final size:24
Alignment explanation
Indices: 35904057--35904106 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
35904047 ACTATTTAAT
*
35904057 AATATCAAATAATCAAATATTCTC
1 AATATCAAATAATCAAAGATTCTC
*
35904081 AATATCAAATAATCGAAGATTCTC
1 AATATCAAATAATCAAAGATTCTC
35904105 AA
1 AA
35904107 CACTCCTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (24 bp):
AATATCAAATAATCAAAGATTCTC
Found at i:35908646 original size:8 final size:9
Alignment explanation
Indices: 35908625--35908649 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35908615 GTTTTTGAAA
35908625 AAAAATCCC
1 AAAAATCCC
35908634 AAAAATCCC
1 AAAAATCCC
35908643 AAAAATC
1 AAAAATC
35908650 GGATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATCCC
Found at i:35915835 original size:22 final size:22
Alignment explanation
Indices: 35915801--35915855 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
35915791 TTAATAAATG
35915801 TTTTTATA-A-TTCTCT-AATTT
1 TTTTTATATATTTCT-TGAATTT
35915821 TTTTTATATATTTCTTGAATTT
1 TTTTTATATATTTCTTGAATTT
* *
35915843 TATTTATTTATTT
1 TTTTTATATATTT
35915856 ATAAATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 8 0.27
21 2 0.07
22 20 0.67
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTATATATTTCTTGAATTT
Found at i:35916322 original size:3 final size:3
Alignment explanation
Indices: 35916314--35916345 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
35916304 ATTTTTAAGC
35916314 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35916346 TTAATTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:35916374 original size:24 final size:24
Alignment explanation
Indices: 35916347--35916393 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35916337 ATTATTATTT
*
35916347 TAAT-TAATATTTTTAATTGATAAA
1 TAATATAATA-TTTTAATTAATAAA
*
35916371 TAATATATTATTTTAATTAATAA
1 TAATATAATATTTTAATTAATAA
35916394 CTCTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATATAATATTTTAATTAATAAA
Found at i:35916392 original size:20 final size:19
Alignment explanation
Indices: 35916319--35916393 Score: 59
Period size: 18 Copynumber: 4.1 Consensus size: 19
35916309 TAAGCTTATT
*
35916319 ATTATTATTATT-ATT-ATT
1 ATTATTATT-TTAATTAATA
35916337 ATTATTATTTTAATTAAT-
1 ATTATTATTTTAATTAATA
* * * *
35916355 ATTTTTA-ATTGATAAATA
1 ATTATTATTTTAATTAATA
35916373 ATATATTATTTTAATTAATA
1 AT-TATTATTTTAATTAATA
35916393 A
1 A
35916394 CTCTTTTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
17 9 0.20
18 20 0.45
19 6 0.14
20 9 0.20
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
ATTATTATTTTAATTAATA
Found at i:35916525 original size:20 final size:18
Alignment explanation
Indices: 35916500--35916536 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
35916490 ACTCCTTTAT
35916500 TTATATAAATAAAATAATAA
1 TTATAT-AATAAAA-AATAA
35916520 TTATATAATAAAAAATA
1 TTATATAATAAAAAATA
35916537 TTTTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTATATAATAAAAAATAA
Found at i:35916545 original size:20 final size:20
Alignment explanation
Indices: 35916497--35916544 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
35916487 ATAACTCCTT
35916497 TATTTATATAAATAAAATAA
1 TATTTATATAAATAAAATAA
*
35916517 TAATTATAT-AATAAAA-AA
1 TATTTATATAAATAAAATAA
*
35916535 TATTTTTATA
1 TATTTATATA
35916545 TTTATCATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.38
19 7 0.29
20 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTTATATAAATAAAATAA
Found at i:35916568 original size:89 final size:95
Alignment explanation
Indices: 35916385--35916561 Score: 242
Period size: 89 Copynumber: 1.9 Consensus size: 95
35916375 ATATTATTTT
* *
35916385 AATTAATAACTCTTTTATTTATAAAATAAAATAATAAATATGTAATTATATAATAATAGAAATAT
1 AATTAATAACTCCTTTATTTAT--AATAAAATAATAAATATATAATTATATAATAATAGAAATAT
35916450 TATATATATATCATTATGTTAAAAGTATTTGA
64 TATATATATATCATTATGTTAAAAGTATTTGA
35916482 AATTAATAACTCCTTTATTTAT-AT-AAAT-A-AAATA-ATAATTATATAATAA-A-AAATATTT
1 AATTAATAACTCCTTTATTTATAATAAAATAATAAATATATAATTATATAATAATAGAAATA-TT
* *
35916540 TTATATTTATCATTATGTTAAA
65 ATATATATATCATTATGTTAAA
35916562 TATATTTTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
88 5 0.07
89 23 0.31
90 14 0.19
91 5 0.07
92 1 0.01
93 4 0.05
94 2 0.03
97 21 0.28
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (95 bp):
AATTAATAACTCCTTTATTTATAATAAAATAATAAATATATAATTATATAATAATAGAAATATTA
TATATATATCATTATGTTAAAAGTATTTGA
Found at i:35916751 original size:26 final size:26
Alignment explanation
Indices: 35916722--35916771 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
35916712 TCATTATTAC
*
35916722 TTTTATATGTAAAATATTTCAAATAT
1 TTTTATATGTAAAACATTTCAAATAT
*
35916748 TTTTATATGTGAAACATTTCAAAT
1 TTTTATATGTAAAACATTTCAAAT
35916772 GCACATACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (26 bp):
TTTTATATGTAAAACATTTCAAATAT
Found at i:35916967 original size:13 final size:13
Alignment explanation
Indices: 35916949--35916973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35916939 TAATATATTT
35916949 ATTAATTAAAAAC
1 ATTAATTAAAAAC
35916962 ATTAATTAAAAA
1 ATTAATTAAAAA
35916974 TAAAAAACTT
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:35921409 original size:19 final size:19
Alignment explanation
Indices: 35921382--35921430 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
35921372 TGAAAAAAAC
* *
35921382 AACAATAAAATAGCAACAA
1 AACAGTAAAACAGCAACAA
*
35921401 AACAGTAAAAACAGCAAGAA
1 AACAGT-AAAACAGCAACAA
*
35921421 AATAGTAAAA
1 AACAGTAAAA
35921431 AAATAATAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.67, C:0.12, G:0.10, T:0.10
Consensus pattern (19 bp):
AACAGTAAAACAGCAACAA
Found at i:35921416 original size:20 final size:20
Alignment explanation
Indices: 35921388--35921431 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
35921378 AAACAACAAT
*
35921388 AAAATAGCAACAAAACAGTA
1 AAAACAGCAACAAAACAGTA
* *
35921408 AAAACAGCAAGAAAATAGTA
1 AAAACAGCAACAAAACAGTA
35921428 AAAA
1 AAAA
35921432 AATAATAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.09
Consensus pattern (20 bp):
AAAACAGCAACAAAACAGTA
Found at i:35922288 original size:19 final size:19
Alignment explanation
Indices: 35922260--35922296 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35922250 CAATTAAGTT
* *
35922260 AAATTTAAATTGTTTTTTA
1 AAATTAAAATAGTTTTTTA
35922279 AAATTAAAATAGTTTTTT
1 AAATTAAAATAGTTTTTT
35922297 CATTCATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
AAATTAAAATAGTTTTTTA
Found at i:35927452 original size:42 final size:40
Alignment explanation
Indices: 35927393--35927530 Score: 137
Period size: 42 Copynumber: 3.5 Consensus size: 40
35927383 ACCCCTTGGG
* *
35927393 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTT-AAAT-AGGT
* *
35927435 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGAATAGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAATAGGT
*
35927468 GGAATCAGCACTTAGCATCCCCCTTTCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCC-TTCACATTT-AAATA-GGT
35927511 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
35927531 ACCAATGAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
33 17 0.22
34 5 0.06
35 2 0.03
36 1 0.01
37 2 0.03
38 2 0.03
39 2 0.03
40 1 0.01
41 7 0.09
42 20 0.26
43 19 0.24
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAATAGGT
Found at i:35927477 original size:33 final size:33
Alignment explanation
Indices: 35927435--35927563 Score: 105
Period size: 33 Copynumber: 3.6 Consensus size: 33
35927425 CAGATGCGGT
35927435 GGAATCAGCACTTAGCAACCACCAATGAATAGG
1 GGAATCAGCACTTAGCAACCACCAATGAATAGG
* * *
35927468 GGAATCAGCACTTAGCATCCCCCTTTCACATTTAAAATATGG
1 GGAATCAGCACTTAGCA-ACCAC---CA-A--T-GAATA-GG
*
35927510 TGGAATCAGCACTTAGCAACCACCAATGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATAGG
* **
35927544 GAAATCAGCACACAGCAACC
1 GGAATCAGCACTTAGCAACC
35927564 CCTTTATATG
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
33 34 0.45
34 5 0.07
35 3 0.04
36 1 0.01
37 2 0.03
38 2 0.03
39 2 0.03
40 1 0.01
41 4 0.05
42 5 0.07
43 17 0.22
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATAGG
Found at i:35927483 original size:75 final size:76
Alignment explanation
Indices: 35927391--35927565 Score: 262
Period size: 76 Copynumber: 2.3 Consensus size: 76
35927381 CAACCCCTTG
* * *
35927391 GGGGAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
35927455 ACCAATGAATA
66 ACCAATGAATA
* *
35927466 GGGGAATCAGCACTTAGCATCCCCCTTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
*
35927531 ACCAATGAATC
66 ACCAATGAATA
* **
35927542 GGGAAATCAGCACACAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
35927566 TTTATATGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
75 24 0.27
76 65 0.73
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (76 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATA
Found at i:35928914 original size:36 final size:36
Alignment explanation
Indices: 35928867--35928948 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
35928857 ATGGTCTGAC
* *
35928867 TCTTCTTCCTCAACCGCATTTTCTTCCTCACCTGCA
1 TCTTCTTCCTCAACCGCATCTTCTTCCTCACCTACA
*
35928903 TCTTCTTCCTCAACTGCATCTTCTTCCTCACCTACA
1 TCTTCTTCCTCAACCGCATCTTCTTCCTCACCTACA
*
35928939 ACTTCTTCCT
1 TCTTCTTCCT
35928949 TGGTCACATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.15, C:0.41, G:0.04, T:0.40
Consensus pattern (36 bp):
TCTTCTTCCTCAACCGCATCTTCTTCCTCACCTACA
Found at i:35928943 original size:18 final size:18
Alignment explanation
Indices: 35928867--35928948 Score: 112
Period size: 18 Copynumber: 4.6 Consensus size: 18
35928857 ATGGTCTGAC
35928867 TCTTCTTCCTCAACC-GCA
1 TCTTCTTCCTC-ACCTGCA
*
35928885 TTTTCTTCCTCACCTGCA
1 TCTTCTTCCTCACCTGCA
*
35928903 TCTTCTTCCTCAACTGCA
1 TCTTCTTCCTCACCTGCA
*
35928921 TCTTCTTCCTCACCTACA
1 TCTTCTTCCTCACCTGCA
*
35928939 ACTTCTTCCT
1 TCTTCTTCCT
35928949 TGGTCACATC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
17 3 0.05
18 54 0.95
ACGTcount: A:0.15, C:0.41, G:0.04, T:0.40
Consensus pattern (18 bp):
TCTTCTTCCTCACCTGCA
Found at i:35931581 original size:25 final size:25
Alignment explanation
Indices: 35931547--35931598 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
35931537 CTAATTTTTT
* *
35931547 TTAAAAAAATGACTTATA-AGACTAA
1 TTAAAAAAATAACATATATA-ACTAA
35931572 TTAAAAAAATAACATATATAACTAA
1 TTAAAAAAATAACATATATAACTAA
35931597 TT
1 TT
35931599 TAGCCTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.31
Consensus pattern (25 bp):
TTAAAAAAATAACATATATAACTAA
Found at i:35933113 original size:24 final size:24
Alignment explanation
Indices: 35933098--35933149 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
35933088 AATCAAAGTC
35933098 AAATATATTACGCTAATAAATGCT
1 AAATATATTACGCTAATAAATGCT
** * *
35933122 AAATATATTATACTCATAAATACT
1 AAATATATTACGCTAATAAATGCT
35933146 AAAT
1 AAAT
35933150 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTACGCTAATAAATGCT
Found at i:35935857 original size:22 final size:22
Alignment explanation
Indices: 35935826--35935870 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
35935816 TTTGTACTTA
*
35935826 TGGATTGAAGAAATAAGTGAAG
1 TGGATCGAAGAAATAAGTGAAG
*
35935848 TGGATCGAAGAAATGAGTGAAG
1 TGGATCGAAGAAATAAGTGAAG
35935870 T
1 T
35935871 AGTAACTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.33, T:0.22
Consensus pattern (22 bp):
TGGATCGAAGAAATAAGTGAAG
Found at i:35938269 original size:25 final size:26
Alignment explanation
Indices: 35938248--35938297 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
35938238 CAAAAAAACT
* *
35938248 AAAATCTAATCTAAAAA-GAAAAGAG
1 AAAACCTAAACTAAAAATGAAAAGAG
35938273 AAAACCTAAACTAAAAATGAAAAGA
1 AAAACCTAAACTAAAAATGAAAAGA
35938298 ATAGAAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (26 bp):
AAAACCTAAACTAAAAATGAAAAGAG
Found at i:35941402 original size:21 final size:21
Alignment explanation
Indices: 35941378--35941430 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 21
35941368 AAATATAATG
*
35941378 TATTATATATTTTTTAAAATT
1 TATTATATATTTTTTAAAATA
*
35941399 TATTA-A-ATTTATTAAAATA
1 TATTATATATTTTTTAAAATA
*
35941418 T-TTATGTATTTTT
1 TATTATATATTTTT
35941431 AGTTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 3 0.12
19 12 0.46
20 6 0.23
21 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTATATATTTTTTAAAATA
Found at i:35941931 original size:6 final size:6
Alignment explanation
Indices: 35941920--35941947 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
35941910 CACTGATCTT
35941920 CCCTTC CCCTTC CCCTTC CCCTTC CCCT
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCT
35941948 ATCCTTGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCTTC
Found at i:35944540 original size:22 final size:24
Alignment explanation
Indices: 35944490--35944540 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
35944480 TTGCAATGCT
35944490 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
35944515 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
35944536 TTTAT
1 TTTAT
35944541 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:35944749 original size:34 final size:35
Alignment explanation
Indices: 35944696--35944762 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
35944686 CAAACACCAG
* *
35944696 AAAATATTTTTCAGCAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGCAAATCATTTTACAGAAAAGT
*
35944731 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGCAAATCATTTTACAGAAAA
35944763 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGCAAATCATTTTACAGAAAAGT
Found at i:35944754 original size:14 final size:14
Alignment explanation
Indices: 35944731--35944770 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
35944721 ACAGAAAAGT
*
35944731 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
35944745 AAATCATTTTACGG
1 AAAACATTTTACAG
35944759 AAAACATTTTAC
1 AAAACATTTTAC
35944771 TGACAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:35953506 original size:41 final size:41
Alignment explanation
Indices: 35953456--35953598 Score: 205
Period size: 41 Copynumber: 3.5 Consensus size: 41
35953446 TGATTCAGAA
* *
35953456 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
*
35953497 CACCAGCATTAAGCCTGCTAGATGTAAAGTCTGAATTATTT
1 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
** * *
35953538 CACTGGCACTAAGCTTGCTAGACGTAAAGTCTGAATTATTT
1 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
* *
35953579 CACTAGCATTAAGTCTGCTA
1 CACCAGCATTAAGCCTGCTA
35953599 AGCACAGAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (41 bp):
CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
Found at i:35954228 original size:2 final size:2
Alignment explanation
Indices: 35954221--35954245 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35954211 CTAGTGTATG
35954221 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
35954246 AATTCCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35956690 original size:75 final size:75
Alignment explanation
Indices: 35956551--35956755 Score: 275
Period size: 75 Copynumber: 2.7 Consensus size: 75
35956541 AAAGAAAAGG
* * * * * * *
35956551 ATTCATGGCATTGCCTTCGATAGAATATCCATTGAATTGGCAGATCGAGGTACATGAAATATGAC
1 ATTCATGACGTTGCCTTCGATGGAATATCCATTGAACTGGCAGATCGTGGTACATAAAACATGAC
*
35956616 TCTATACTGA
66 TCTATAATGA
* ** *
35956626 ATTTATGGTGTTGCCTTCGATGGAATATCCATTGAACTGGTAGATCGTGGTACATAAAACATGAC
1 ATTCATGACGTTGCCTTCGATGGAATATCCATTGAACTGGCAGATCGTGGTACATAAAACATGAC
35956691 TCTATAATGA
66 TCTATAATGA
* * *
35956701 ATTCATGACGTTGCCTTCGATGCAAAATGCATTGAACTGGCAGATCGTGGTACAT
1 ATTCATGACGTTGCCTTCGATGGAATATCCATTGAACTGGCAGATCGTGGTACAT
35956756 GAATAATGGT
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 113 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (75 bp):
ATTCATGACGTTGCCTTCGATGGAATATCCATTGAACTGGCAGATCGTGGTACATAAAACATGAC
TCTATAATGA
Found at i:35977840 original size:76 final size:73
Alignment explanation
Indices: 35977702--35977866 Score: 177
Period size: 76 Copynumber: 2.2 Consensus size: 73
35977692 CTCATGCTTA
* * * *
35977702 GGAGCATTAATTTTTTGGATGAATAATTTAAGCTCATGCTTAGGAGCGATACAATATTTTAAGCT
1 GGAGCATTAATTTTTTGGATGAATAATTTAAGATCATGCTTAGGAACAATACAATAATTTAAGCT
35977767 CGTGTTTG
66 CGTGTTTG
* * * ***
35977775 GGAGCATTATTTTGTTTTGGATGAATAATTTTATGATCATGTTTAGGAACAATGTGATAATTTAA
1 GGAGCATTA-ATT-TTTTGGATGAATAA-TTTAAGATCATGCTTAGGAACAATACAATAATTTAA
* * *
35977840 GCTTGTGCTTA
63 GCTCGTGTTTG
*
35977851 AGAGCATTAATTTTTT
1 GGAGCATTAATTTTTT
35977867 TATTTGCTTC
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
73 9 0.12
74 6 0.08
75 16 0.22
76 43 0.58
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (73 bp):
GGAGCATTAATTTTTTGGATGAATAATTTAAGATCATGCTTAGGAACAATACAATAATTTAAGCT
CGTGTTTG
Found at i:35986808 original size:120 final size:120
Alignment explanation
Indices: 35986590--35986827 Score: 413
Period size: 120 Copynumber: 2.0 Consensus size: 120
35986580 CCCCTGCAGC
* *
35986590 TTTGGAATTTTTCAATGCTTTCTTAAAAATTCTCTGAGTTCCTGATTTAGTCTCGACTTGTTTCT
1 TTTGAAATTTTTCAATGCTTTCTGAAAAATTCTCTGAGTTCCTGATTTAGTCTCGACTTGTTTCT
*
35986655 AACATGTATTTAGGGCCTCGAGGTCTCGTATAAGGGACAATATGTATGATTTTGA
66 AACATGTATTTAGGGCCTCGAGGGCTCGTATAAGGGACAATATGTATGATTTTGA
*
35986710 TTTGAAATTTTTCAATGCTTTCTGAAAAATTCTCTGAGTTCTTGATTTAGTCTCGACTTGTTTCT
1 TTTGAAATTTTTCAATGCTTTCTGAAAAATTCTCTGAGTTCCTGATTTAGTCTCGACTTGTTTCT
* * *
35986775 AACCTGTATTTAGGGCCTTGAGGGCTTGTATAAGGGACAATATGTATGATTTT
66 AACATGTATTTAGGGCCTCGAGGGCTCGTATAAGGGACAATATGTATGATTTT
35986828 AATTGGTTTT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 111 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.42
Consensus pattern (120 bp):
TTTGAAATTTTTCAATGCTTTCTGAAAAATTCTCTGAGTTCCTGATTTAGTCTCGACTTGTTTCT
AACATGTATTTAGGGCCTCGAGGGCTCGTATAAGGGACAATATGTATGATTTTGA
Found at i:35993396 original size:8 final size:9
Alignment explanation
Indices: 35993373--35993399 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
35993363 TTTTTTAACT
35993373 TTAAAAATA
1 TTAAAAATA
35993382 TTAAAAATA
1 TTAAAAATA
35993391 TTAAAAATA
1 TTAAAAATA
35993400 GCTAGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:35994276 original size:10 final size:10
Alignment explanation
Indices: 35994261--35994287 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
35994251 TTAAGTTTAG
35994261 TGTGTTTAAA
1 TGTGTTTAAA
35994271 TGTGTTTAAA
1 TGTGTTTAAA
35994281 TGTGTTT
1 TGTGTTT
35994288 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (10 bp):
TGTGTTTAAA
Found at i:35996023 original size:12 final size:12
Alignment explanation
Indices: 35996008--35996032 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35995998 GATCCCTATG
35996008 AAGAAAGTGATC
1 AAGAAAGTGATC
35996020 AAGAAAGTGATC
1 AAGAAAGTGATC
35996032 A
1 A
35996033 TTCATCTGCC
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:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (12 bp):
AAGAAAGTGATC
Found at i:36002111 original size:24 final size:25
Alignment explanation
Indices: 36002083--36002138 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
36002073 TTAATATTGT
36002083 TTTCTCTCATCCCATAATCTT-TCTA
1 TTTCTCTCA-CCCATAATCTTCTCTA
*
36002108 -TTCTCTCACCCTTAATCTTCTCTA
1 TTTCTCTCACCCATAATCTTCTCTA
36002132 TTTCTCT
1 TTTCTCT
36002139 TATTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 10 0.36
24 12 0.43
25 6 0.21
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTCTCTCACCCATAATCTTCTCTA
Found at i:36003407 original size:13 final size:13
Alignment explanation
Indices: 36003384--36003415 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
36003374 AGGCAAGGCT
36003384 ACTGTTCGTTGATC
1 ACTG-TCGTTGATC
36003398 ACTGTCGTTGATC
1 ACTGTCGTTGATC
36003411 ACTGT
1 ACTGT
36003416 AGTCGTGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (13 bp):
ACTGTCGTTGATC
Found at i:36006922 original size:35 final size:35
Alignment explanation
Indices: 36006876--36006947 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
36006866 GTTATGGTCG
*
36006876 AATCCAGAAGTGTTATAAAGAAGGGTTTCGAAACT
1 AATCCAGAAGTGTTACAAAGAAGGGTTTCGAAACT
*
36006911 AATCCGGAAGTGTTACAAAGAAGGGTTTCGAAACT
1 AATCCAGAAGTGTTACAAAGAAGGGTTTCGAAACT
36006946 AA
1 AA
36006948 CTTTACTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (35 bp):
AATCCAGAAGTGTTACAAAGAAGGGTTTCGAAACT
Done.