Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 287 of 316
Found at i:95181409 original size:55 final size:53
Alignment explanation
Indices: 95181290--95181411 Score: 165
Period size: 57 Copynumber: 2.2 Consensus size: 53
95181280 TAATAAAATT
*
95181290 ATTAT-TAAATATAATTTAATAAAAATAAATAATTTAATCATATTTTAACATA
1 ATTATATAAATATAATTTAATAAAAATAAATAATTTAATCATATTTCAACATA
* *
95181342 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATCATATTTCAATATA
1 ATTA-TA-TAAATATAATTTAAT-AAA-AATAAATAATTTAATCATATTTCAACATA
*
95181399 TTTATATAAATAT
1 ATTATATAAATAT
95181412 TTATTTTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
52 4 0.07
53 1 0.02
55 22 0.36
56 5 0.08
57 29 0.48
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (53 bp):
ATTATATAAATATAATTTAATAAAAATAAATAATTTAATCATATTTCAACATA
Found at i:95184784 original size:42 final size:42
Alignment explanation
Indices: 95184727--95184878 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
95184717 AATGTTGAAT
* * * *
95184727 AGAAGCTTATGAGAGCTAAACAGAAACCCATAAGGGTTGAAC
1 AGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTAAAC
* * *
95184769 -GAAAACTCATAAGAGCTGAACAGAAACCCTTAAGAGTTAAAC
1 AG-AAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTAAAC
* * * * * *
95184811 AGAAGCTCAAAAGTGCTGAACAGAAACTCATATGAGTTTAAC
1 AGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTAAAC
*
95184853 AGAAGCTCATAAGAGCTAAACGGAAA
1 AGAAGCTCATAAGAGCTAAACAGAAA
95184879 GTAAACACGA
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 88 0.98
43 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
AGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTAAAC
Found at i:95184840 original size:21 final size:21
Alignment explanation
Indices: 95184738--95184878 Score: 113
Period size: 21 Copynumber: 6.7 Consensus size: 21
95184728 GAAGCTTATG
* *
95184738 AGAGCTAAACAGAAACCCATA
1 AGAGCTGAACAGAAACTCATA
* *
95184759 AGGGTTGAAC-GAAAACTCATA
1 AGAGCTGAACAG-AAACTCATA
* *
95184780 AGAGCTGAACAGAAACCCTTA
1 AGAGCTGAACAGAAACTCATA
* * * *
95184801 AGAGTTAAACAGAAGCTCAAA
1 AGAGCTGAACAGAAACTCATA
*
95184822 AGTGCTGAACAGAAACTCATA
1 AGAGCTGAACAGAAACTCATA
* * * *
95184843 TGAGTTTAACAGAAGCTCATA
1 AGAGCTGAACAGAAACTCATA
* *
95184864 AGAGCTAAACGGAAA
1 AGAGCTGAACAGAAA
95184879 GTAAACACGA
Statistics
Matches: 89, Mismatches: 29, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
20 1 0.01
21 87 0.98
22 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (21 bp):
AGAGCTGAACAGAAACTCATA
Found at i:95184866 original size:63 final size:63
Alignment explanation
Indices: 95184722--95184878 Score: 154
Period size: 63 Copynumber: 2.5 Consensus size: 63
95184712 TCCCAAATGT
* * * * *
95184722 TGAATAGAAGCTTATGAGAGCTAAACAGAAACCCATAAGGGTTGAACGAAAACTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGCTAAACAGAAACCCAAAAGGGCTGAACGAAAACTCATAAGAGC
* * * * * * * * *
95184785 TGAACAGAAACCCTTAAGAGTTAAACAGAAGCTCAAAAGTGCTGAAC-AGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACAGAAACCCAAAAGGGCTGAACGA-AAACTCATAAGAGC
* *
95184848 TTAACAGAAGCTCATAAGAGCTAAACGGAAA
1 TGAACAGAAGCTCATAAGAGCTAAACAGAAA
95184879 GTAAACACGA
Statistics
Matches: 72, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
62 1 0.01
63 71 0.99
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (63 bp):
TGAACAGAAGCTCATAAGAGCTAAACAGAAACCCAAAAGGGCTGAACGAAAACTCATAAGAGC
Found at i:95187950 original size:2 final size:2
Alignment explanation
Indices: 95187943--95187985 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
95187933 ATAAACAATA
95187943 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
95187985 A
1 A
95187986 TTAGTAGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:95188224 original size:58 final size:58
Alignment explanation
Indices: 95188130--95188259 Score: 145
Period size: 58 Copynumber: 2.2 Consensus size: 58
95188120 CAACTCTCAC
* ** * * * *
95188130 ATTGGTGCCTAAACTTTTTTTGTCCTTGTTAGTCCCTAAGCTTTA-TATTTATTCCCAT
1 ATTGGTGCCTAAACATTTTTTAACCTAGTTAGTCCCTAAACTTGACAATTT-TTCCCAT
* * * *
95188188 ATTGGGGCCTAATCATTTTTTAACCTAGTTATTCCCTAAACTTGACAATTTTTCCTAT
1 ATTGGTGCCTAAACATTTTTTAACCTAGTTAGTCCCTAAACTTGACAATTTTTCCCAT
95188246 ATTGGTGCCTAAAC
1 ATTGGTGCCTAAAC
95188260 TTTAGGCTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
58 54 0.93
59 4 0.07
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (58 bp):
ATTGGTGCCTAAACATTTTTTAACCTAGTTAGTCCCTAAACTTGACAATTTTTCCCAT
Found at i:95200101 original size:67 final size:68
Alignment explanation
Indices: 95199971--95200211 Score: 240
Period size: 69 Copynumber: 3.5 Consensus size: 68
95199961 TCCTATATGC
* * * * * * *
95199971 TGTCATAGTCGAATTATGGTCTTACACATTATAGACTCATGTTTAACATACTTGCGAACTCTCTA
1 TGTCATAGTCGAGTTATGGTCTTACACATTATA-ACCCATATTTAATATCCTAGCGGACTCTCTA
95200036 -TGT
65 TTGT
* * *
95200039 TGTCATAGTCGAGCTATGGT-TTACACATTATGAACCCATACTTAATGTCCTAGCGGACTCTCTA
1 TGTCATAGTCGAGTTATGGTCTTACACATTAT-AACCCATATTTAATATCCTAGCGGACTCTCTA
95200103 TTAGT
65 TT-GT
* * * * *
95200108 TGTCATAGACGAGTTATGGTTTTACACACTAT-TCCTCATATTTAATATCCTGGCGGACTCTCTA
1 TGTCATAGTCGAGTTATGGTCTTACACATTATAACC-CATATTTAATATCCTAGCGGACTCTCTA
95200172 TTGAT
65 TTG-T
* *
95200177 TATCATAG-CTGAGGTATGGTCTTACACATTA-AACC
1 TGTCATAGTC-GAGTTATGGTCTTACACATTATAACC
95200212 TTCTTTGAGG
Statistics
Matches: 143, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
67 34 0.24
68 24 0.17
69 75 0.52
70 10 0.07
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (68 bp):
TGTCATAGTCGAGTTATGGTCTTACACATTATAACCCATATTTAATATCCTAGCGGACTCTCTAT
TGT
Found at i:95204186 original size:10 final size:10
Alignment explanation
Indices: 95204171--95204195 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
95204161 TATGGATGAC
95204171 AAAAAAGAAA
1 AAAAAAGAAA
95204181 AAAAAAGAAA
1 AAAAAAGAAA
95204191 AAAAA
1 AAAAA
95204196 TTGGAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:95207736 original size:18 final size:18
Alignment explanation
Indices: 95207699--95207737 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
95207689 TTGGAAATCA
*
95207699 AAATAATTAAAAGACGAT
1 AAATAATTAAAAGACAAT
95207717 AAATAATTAAATAGA-AAT
1 AAATAATTAAA-AGACAAT
95207735 AAA
1 AAA
95207738 AATCATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (18 bp):
AAATAATTAAAAGACAAT
Found at i:95210414 original size:20 final size:20
Alignment explanation
Indices: 95210378--95210415 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95210368 CTACACCTTG
*
95210378 GAAAAATTTTGATATTTTGC
1 GAAAAATTTTGAGATTTTGC
95210398 GAAAAATTCTT-AGATTTT
1 GAAAAATT-TTGAGATTTT
95210416 CTAATTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (20 bp):
GAAAAATTTTGAGATTTTGC
Found at i:95212349 original size:27 final size:27
Alignment explanation
Indices: 95212314--95212588 Score: 237
Period size: 27 Copynumber: 10.1 Consensus size: 27
95212304 GCCGAAATGG
95212314 TGACCGAAATA-CCCTCATAGGGTAAAA
1 TGACCGAAATACCCCT-ATAGGGTAAAA
* **
95212341 TGACCGAAATACCCCCATAATGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* * * *
95212368 TGACCAAAATACCCCTTGTAGGATTAAA
1 TGACCGAAATACCCC-TATAGGGTAAAA
* * *
95212396 TGACCAAAATGCCCCTATAAGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* * *
95212423 TGAACGAAATACCCCAATATGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* * * *
95212450 TGACCAAAATACCCCCATAGGATGAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
*
95212477 TGACCGAAATACCCCTATAAGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* * * * * *
95212504 TAACTGTAATACCCCTGTAGAGTAAAG
1 TGACCGAAATACCCCTATAGGGTAAAA
* * *
95212531 TGACTGTAATACCCCTGTAGGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
* * * * *
95212558 TGACTGTAATACCCTTGTAAGGTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAA
95212585 TGAC
1 TGAC
95212589 TGATTTGCCC
Statistics
Matches: 203, Mismatches: 43, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
27 180 0.89
28 23 0.11
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (27 bp):
TGACCGAAATACCCCTATAGGGTAAAA
Found at i:95212451 original size:82 final size:81
Alignment explanation
Indices: 95212314--95212518 Score: 263
Period size: 82 Copynumber: 2.5 Consensus size: 81
95212304 GCCGAAATGG
* * * *
95212314 TGACCGAAATA-CCCTCATAGGGTAAAATGACCGAAATACCCCCATAATGTAAAATGACCAAAAT
1 TGACCAAAATACCCCT-ATAAGGTAAAATGAACGAAATACCCCAATAATGTAAAATGACCAAAAT
** *
95212378 ACCCCTTGTAGGATTAAA
65 ACCCC-CATAGGATGAAA
*
95212396 TGACCAAAATGCCCCTATAAGGTAAAATGAACGAAATACCCCAAT-ATGGTAAAATGACCAAAAT
1 TGACCAAAATACCCCTATAAGGTAAAATGAACGAAATACCCCAATAAT-GTAAAATGACCAAAAT
95212460 ACCCCCATAGGATGAAA
65 ACCCCCATAGGATGAAA
* *
95212477 TGACCGAAATACCCCTATAAGGTAAAAT-AACTGTAATACCCC
1 TGACCAAAATACCCCTATAAGGTAAAATGAAC-GAAATACCCC
95212519 TGTAGAGTAA
Statistics
Matches: 109, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
80 3 0.03
81 46 0.42
82 56 0.51
83 4 0.04
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (81 bp):
TGACCAAAATACCCCTATAAGGTAAAATGAACGAAATACCCCAATAATGTAAAATGACCAAAATA
CCCCCATAGGATGAAA
Found at i:95212529 original size:81 final size:81
Alignment explanation
Indices: 95212314--95212591 Score: 276
Period size: 81 Copynumber: 3.4 Consensus size: 81
95212304 GCCGAAATGG
* * * *
95212314 TGACCGAAATA-CCCTCATAGGGTAAAATGACCGAAATACCCCCATA-ATGTAAAATGACCAAAA
1 TGACCGAAATACCCCT-ATAAGGTAAAATAACTGAAATACCCCAATAGA-GTAAAATGACCAAAA
*
95212377 TACCCCTTGTAGGATTAAA
64 TACCCC-TGTAGGATAAAA
* *
95212396 TGACCAAAATGCCCCTATAAGGTAAAATGAAC-GAAATACCCCAATATG-GTAAAATGACCAAAA
1 TGACCGAAATACCCCTATAAGGTAAAAT-AACTGAAATACCCCAATA-GAGTAAAATGACCAAAA
** *
95212459 TACCCCCATAGGATGAAA
64 TACCCCTGTAGGATAAAA
* ** * ***
95212477 TGACCGAAATACCCCTATAAGGTAAAATAACTGTAATACCCCTGTAGAGTAAAGTGACTGTAATA
1 TGACCGAAATACCCCTATAAGGTAAAATAACTGAAATACCCCAATAGAGTAAAATGACCAAAATA
*
95212542 CCCCTGTAGGGTAAAA
66 CCCCTGTAGGATAAAA
* * * * *
95212558 TGACTGTAATACCCTTGTAAGGTAAAATGACTGA
1 TGACCGAAATACCCCTATAAGGTAAAATAACTGA
95212592 TTTGCCCTAC
Statistics
Matches: 163, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
80 4 0.02
81 99 0.61
82 54 0.33
83 6 0.04
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.22
Consensus pattern (81 bp):
TGACCGAAATACCCCTATAAGGTAAAATAACTGAAATACCCCAATAGAGTAAAATGACCAAAATA
CCCCTGTAGGATAAAA
Found at i:95212770 original size:17 final size:17
Alignment explanation
Indices: 95212748--95212783 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
95212738 GCAAGGGTCG
*
95212748 CCCAAGACGACTGTGGA
1 CCCAAGACAACTGTGGA
95212765 CCCAAGACAACTGTGGA
1 CCCAAGACAACTGTGGA
95212782 CC
1 CC
95212784 ACGGGTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (17 bp):
CCCAAGACAACTGTGGA
Found at i:95221493 original size:45 final size:45
Alignment explanation
Indices: 95221442--95221533 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
95221432 TTCAGATTGA
*
95221442 GGCAAATGGATTTGCAGAAGGTATTTGGATCTTATAGAATAAATC
1 GGCAAATGGATTTGCAGAAGGTATTTGGATATTATAGAATAAATC
* * *
95221487 GGCAAATGGATTTGCAGAAGGTATTTGGTTATTATGGAATGAATC
1 GGCAAATGGATTTGCAGAAGGTATTTGGATATTATAGAATAAATC
95221532 GG
1 GG
95221534 TTATGGTGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.32
Consensus pattern (45 bp):
GGCAAATGGATTTGCAGAAGGTATTTGGATATTATAGAATAAATC
Found at i:95221801 original size:52 final size:52
Alignment explanation
Indices: 95221745--95221852 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
95221735 TGAAGGGTTC
95221745 AAATAGAATTGGTAGAGCACCAATTCCTCGTATTGGTTGTAAATGGTTTCAA
1 AAATAGAATTGGTAGAGCACCAATTCCTCGTATTGGTTGTAAATGGTTTCAA
95221797 AAATAGAATTGGTAGAGCACCAATTCCTCGTATTGGTTGTAAATGGTTTCAA
1 AAATAGAATTGGTAGAGCACCAATTCCTCGTATTGGTTGTAAATGGTTTCAA
95221849 AAAT
1 AAAT
95221853 TCATGTTTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.32
Consensus pattern (52 bp):
AAATAGAATTGGTAGAGCACCAATTCCTCGTATTGGTTGTAAATGGTTTCAA
Found at i:95232812 original size:22 final size:23
Alignment explanation
Indices: 95232787--95232829 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
95232777 GATTTAGGCA
* *
95232787 CTATGTTTTTCTTT-CATTAATG
1 CTATGCTTCTCTTTGCATTAATG
95232809 CTATGCTTCTCTTTGCATTAA
1 CTATGCTTCTCTTTGCATTAA
95232830 CTATTGGTTT
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:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (23 bp):
CTATGCTTCTCTTTGCATTAATG
Found at i:95234711 original size:20 final size:20
Alignment explanation
Indices: 95234688--95234737 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
95234678 AAATCCAAAT
*
95234688 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGAA
* *
95234708 TAAAATCCTGAAATTCAGAA
1 TAAAATACTAAAATTCAGAA
95234728 TAAGAATACT
1 TAA-AATACT
95234738 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGAA
Found at i:95252840 original size:14 final size:14
Alignment explanation
Indices: 95252823--95252866 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
95252813 CTTTAAACCC
95252823 TAGACTCTAAATAT
1 TAGACTCTAAATAT
* * *
95252837 TAGACTATAAACAC
1 TAGACTCTAAATAT
*
95252851 TAAACTCTAAATAT
1 TAGACTCTAAATAT
95252865 TA
1 TA
95252867 AATTTTGAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.32
Consensus pattern (14 bp):
TAGACTCTAAATAT
Found at i:95253082 original size:28 final size:28
Alignment explanation
Indices: 95253051--95253123 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
95253041 AAATTAATAT
95253051 ATAATAAAATTATATTATATTTTCTAAA
1 ATAATAAAATTATATTATATTTTCTAAA
* *
95253079 ATAATAAATTTATAATTTTATTTTCTAAA
1 ATAATAAAATTAT-ATTATATTTTCTAAA
*
95253108 AAATATAAAATTATAT
1 ATA-ATAAAATTATAT
95253124 ATTTTTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 12 0.31
29 18 0.46
30 9 0.23
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (28 bp):
ATAATAAAATTATATTATATTTTCTAAA
Found at i:95257027 original size:11 final size:11
Alignment explanation
Indices: 95257013--95257047 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
95257003 TTGAAAATAA
*
95257013 TAAATTAATTT
1 TAAAATAATTT
95257024 TAAAATAATTT
1 TAAAATAATTT
95257035 TAAAATAATTT
1 TAAAATAATTT
95257046 TA
1 TA
95257048 TTATAGATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAAATAATTT
Found at i:95260706 original size:31 final size:30
Alignment explanation
Indices: 95260642--95260707 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
95260632 TAACATCTAT
*
95260642 ATTTTTATAATTTTTAAAGAATTAAATTAA
1 ATTTTTATAATTTTTAAAGAATAAAATTAA
95260672 ATTTTTATAATCTTTT-AAGAGATAAAA-TATA
1 ATTTTTATAAT-TTTTAAAGA-ATAAAATTA-A
95260703 ATTTT
1 ATTTT
95260708 GTCTTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAAGAATAAAATTAA
Found at i:95261216 original size:23 final size:23
Alignment explanation
Indices: 95261172--95261220 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
95261162 AACACGTCAG
*
95261172 TATATGATTTATTTTGCCAAATA
1 TATATGATTTATTTTGCAAAATA
*
95261195 TATATGCTTTATTTT-CTAAAATA
1 TATATGATTTATTTTGC-AAAATA
95261218 TAT
1 TAT
95261221 TTATATGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (23 bp):
TATATGATTTATTTTGCAAAATA
Found at i:95275455 original size:46 final size:46
Alignment explanation
Indices: 95275357--95275447 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
95275347 AACCCACCCC
* *
95275357 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATGCGCAACCA
* *
95275403 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATGCGCAACCA
95275447 T
1 T
95275448 CCTAGTGACA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 9 0.22
45 2 0.05
46 30 0.73
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATGCGCAACCA
Found at i:95280439 original size:68 final size:67
Alignment explanation
Indices: 95280365--95280516 Score: 184
Period size: 67 Copynumber: 2.3 Consensus size: 67
95280355 CATCATGTGT
* * * *
95280365 ACAAGAGAACTACGAGACATTATGATGTAGCTAGGTCGCATGAGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCGCATGAGTGATACCAGTGAGGGACACCA
95280428 TGTAG
63 TGTAG
* * *
95280433 ACAAGAGAGCTACGAG-ATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAGGGACACCATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGAGTGATACCA-GTGAGGGACACCATG
95280497 TAG
65 TAG
95280500 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
95280517 TAAACTGGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
64 24 0.33
65 3 0.04
66 3 0.04
67 28 0.38
68 15 0.21
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGAGTGATACCAGTGAGGGACACCATGT
AG
Found at i:95283371 original size:28 final size:28
Alignment explanation
Indices: 95283339--95283395 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
95283329 GCAAATTGTT
95283339 TTAGTGAATCAAATGTGTAGGAGATGTC
1 TTAGTGAATCAAATGTGTAGGAGATGTC
*
95283367 TTAGTGAATCAAGTGTGTAGGAGATGTC
1 TTAGTGAATCAAATGTGTAGGAGATGTC
95283395 T
1 T
95283396 ATTAATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (28 bp):
TTAGTGAATCAAATGTGTAGGAGATGTC
Found at i:95286924 original size:13 final size:13
Alignment explanation
Indices: 95286908--95286935 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95286898 AATACTTAAG
95286908 TATAATATAATAA
1 TATAATATAATAA
95286921 TATAATATAATAA
1 TATAATATAATAA
95286934 TA
1 TA
95286936 CATAAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:95286971 original size:20 final size:20
Alignment explanation
Indices: 95286939--95286976 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95286929 AATAATACAT
95286939 AAAGTAAATAAAAGAAAGTA
1 AAAGTAAATAAAAGAAAGTA
95286959 AAAG-AAATAAAAAGAAAG
1 AAAGTAAAT-AAAAGAAAG
95286977 AAAGAACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAGTAAATAAAAGAAAGTA
Found at i:95287009 original size:27 final size:25
Alignment explanation
Indices: 95286949--95287032 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 25
95286939 AAAGTAAATA
* *
95286949 AAAGAAAGTAAAAG-AAATAAAAAG
1 AAAGAAAGAAAAAGTAAAGAAAAAG
95286973 AAAGAAAGAACAGAGAAGTGAAACGAAAAAG
1 AAAGAAAG-A-A-A-AAGT-AAA-GAAAAAG
*
95287004 AGAGAAAGAAAAAGTAAAGAAAAAG
1 AAAGAAAGAAAAAGTAAAGAAAAAG
95287029 AAAG
1 AAAG
95287033 GGGAAATTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
24 8 0.16
25 10 0.20
26 4 0.08
27 5 0.10
28 4 0.08
29 1 0.02
30 4 0.08
31 13 0.27
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (25 bp):
AAAGAAAGAAAAAGTAAAGAAAAAG
Found at i:95287032 original size:10 final size:10
Alignment explanation
Indices: 95286948--95287032 Score: 55
Period size: 10 Copynumber: 7.9 Consensus size: 10
95286938 TAAAGTAAAT
*
95286948 AAAAGAAAGT
1 AAAAGAAAGA
*
95286958 AAAAGAAATA
1 AAAAGAAAGA
95286968 AAAAGAAAGAA
1 AAAAGAAAG-A
*
95286979 AGAACAGAGAAGTG
1 A-AA-AGA-AAG-A
*
95286993 AAACGAAA-A
1 AAAAGAAAGA
*
95287002 AGAGAGAAAGA
1 A-AAAGAAAGA
95287013 AAAAGTAAAGA
1 AAAAG-AAAGA
95287024 AAAAGAAAG
1 AAAAGAAAG
95287033 GGGAAATTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
9 1 0.02
10 28 0.48
11 16 0.28
12 4 0.07
13 5 0.09
14 4 0.07
ACGTcount: A:0.71, C:0.02, G:0.22, T:0.05
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:95289156 original size:19 final size:19
Alignment explanation
Indices: 95289129--95289165 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
95289119 TCGAACTCGT
*
95289129 TGAGTTGAGTCCGAGTTCG
1 TGAGATGAGTCCGAGTTCG
95289148 TGAGATGAGTCCGAGTTC
1 TGAGATGAGTCCGAGTTC
95289166 ACTTATGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (19 bp):
TGAGATGAGTCCGAGTTCG
Found at i:95289193 original size:65 final size:66
Alignment explanation
Indices: 95289072--95289211 Score: 219
Period size: 65 Copynumber: 2.1 Consensus size: 66
95289062 TATTTGGGCA
* * * **
95289072 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTGA
1 TCCGAGTTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
95289137 G
66 G
*
95289138 TCCGAGTTCG-TGAGATGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGA
1 TCCGAGTTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
95289202 G
66 G
95289203 TCCGAGTTC
1 TCCGAGTTC
95289212 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
65 59 0.87
66 9 0.13
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (66 bp):
TCCGAGTTCGTTGAGATGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
G
Found at i:95290791 original size:28 final size:28
Alignment explanation
Indices: 95290756--95290812 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
95290746 TTGTATAAGT
95290756 ATGTGTGCATCTGTTGTGAGTGTGACAA
1 ATGTGTGCATCTGTTGTGAGTGTGACAA
95290784 ATGTGTGCATCTGTTGTGAGTGTGACAA
1 ATGTGTGCATCTGTTGTGAGTGTGACAA
95290812 A
1 A
95290813 ATGGCTTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.35
Consensus pattern (28 bp):
ATGTGTGCATCTGTTGTGAGTGTGACAA
Found at i:95290912 original size:19 final size:19
Alignment explanation
Indices: 95290866--95290915 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
95290856 CGGGTTCGGG
*
95290866 ACACGGGCATGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
95290885 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
95290904 ACACGGGCGTGT
1 ACACGGGCGTGT
95290916 GCTCTATACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (19 bp):
ACACGGGCGTGTCCCTAGC
Found at i:95294286 original size:77 final size:75
Alignment explanation
Indices: 95294139--95294339 Score: 246
Period size: 77 Copynumber: 2.7 Consensus size: 75
95294129 TTAATAAAAA
* *
95294139 AATTAAAGCCCTACCTTTTTTTTGCACTCAATTGCCAAAAT--ATATAAAAAACCCTCAAACTTT
1 AATT-AAGCCCCACATTTTTTTTGCACTCAATTGCCAAAATGCATA-AAAAAACCCTCAAACTTT
** *
95294202 TTTAAAAAATGC
64 TAAAAAAAAAGC
*
95294214 AATTAAGCCCCACTTTTTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAAACCCTCAAACTTT
1 AATTAAGCCCCAC--ATTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAAACCCTCAAACTTT
*
95294279 TAAAAAAAAAGT
64 TAAAAAAAAAGC
* ** *
95294291 AATTAAGCTCCACATTTTTTTT-CACTCAATTATCAAAATGCATTAAAAA
1 AATTAAGCCCCACATTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAA
95294340 GACCATTTGA
Statistics
Matches: 111, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
74 32 0.29
75 12 0.11
76 26 0.23
77 38 0.34
78 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.33
Consensus pattern (75 bp):
AATTAAGCCCCACATTTTTTTTGCACTCAATTGCCAAAATGCATAAAAAAACCCTCAAACTTTTA
AAAAAAAAGC
Found at i:95294512 original size:37 final size:37
Alignment explanation
Indices: 95294425--95294542 Score: 98
Period size: 37 Copynumber: 3.1 Consensus size: 37
95294415 GACATGTGAC
*
95294425 AAAAAAATAATAAAAAATAAAAATAAATAAAAATTAT
1 AAAAAAATTATAAAAAATAAAAATAAATAAAAATTAT
* ** * *
95294462 -TAAATTTTAATAAAAAATTAAAAAT-GATAAAAATTGT
1 AAAAAAATT-ATAAAAAA-TAAAAATAAATAAAAATTAT
*
95294499 AAAAAAATTATAAAATATATAGAAATATAGA-AAAAATTAT
1 AAAAAAATTATAAAA-A-ATA-AAA-ATAAATAAAAATTAT
95294539 AAAA
1 AAAA
95294543 TTTTATAAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
36 4 0.06
37 24 0.38
38 15 0.24
39 4 0.06
40 14 0.22
41 2 0.03
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (37 bp):
AAAAAAATTATAAAAAATAAAAATAAATAAAAATTAT
Found at i:95294524 original size:29 final size:28
Alignment explanation
Indices: 95294473--95294568 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 28
95294463 AAATTTTAAT
95294473 AAAAAATTA-AAAATGATA-AAAATTGTA
1 AAAAAATTATAAAAT-ATATAAAATTGTA
*
95294500 AAAAAATTATAAAATATATAGAAA-TATA
1 AAAAAATTATAAAATATATA-AAATTGTA
* *
95294528 GAAAAAATTATAAAATTTTATAAAGTTGTA
1 -AAAAAATTATAAAA-TATATAAAATTGTA
*
95294558 AAAGAA-TATAA
1 AAAAAATTATAA
95294569 GAAAGTAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
27 12 0.21
28 14 0.24
29 24 0.41
30 8 0.14
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (28 bp):
AAAAAATTATAAAATATATAAAATTGTA
Found at i:95294769 original size:13 final size:13
Alignment explanation
Indices: 95294751--95294777 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95294741 GTAGTTGACT
95294751 TTAATGGTTAAAG
1 TTAATGGTTAAAG
95294764 TTAATGGTTAAAG
1 TTAATGGTTAAAG
95294777 T
1 T
95294778 GTCTTTTTTA
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:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TTAATGGTTAAAG
Found at i:95294805 original size:18 final size:17
Alignment explanation
Indices: 95294782--95294842 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
95294772 TAAAGTGTCT
95294782 TTTTTATGTATTTTATAA
1 TTTTTAT-TATTTTATAA
* *
95294800 TTTTTATAAAATTTTACAA
1 TTTTTAT--TATTTTATAA
* *
95294819 TTTTATATTTTTTTCTAA
1 TTTT-TATTATTTTATAA
95294837 TTTTTA
1 TTTTTA
95294843 ATAAATTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 2 0.06
18 17 0.50
19 12 0.35
20 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTATTATTTTATAA
Found at i:95296382 original size:30 final size:30
Alignment explanation
Indices: 95296348--95296410 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
95296338 ATTTATTTTA
95296348 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
95296378 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
95296408 TTG
1 TTG
95296411 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:95302115 original size:21 final size:21
Alignment explanation
Indices: 95302083--95302138 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
95302073 TGTTTTTCCA
95302083 AATT-TTAAATTTTAT-ATTT
1 AATTATTAAATTTTATAATTT
*
95302102 AATTATTAATATTTTTTAATTT
1 AATTATTAA-ATTTTATAATTT
*
95302124 -ATTAATAACATTTTA
1 AATTATTAA-ATTTTA
95302139 AAGTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 18 0.60
22 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTATTAAATTTTATAATTT
Found at i:95302123 original size:22 final size:22
Alignment explanation
Indices: 95302092--95302137 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
95302082 AAATTTTAAA
* *
95302092 TTTTATATTTAATTATTAATATT
1 TTTTATATTT-ATTAATAACATT
95302115 TTTTA-ATTTATTAATAACATT
1 TTTTATATTTATTAATAACATT
95302136 TT
1 TT
95302138 AAAGTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 4 0.19
23 5 0.24
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTATATTTATTAATAACATT
Found at i:95324417 original size:24 final size:24
Alignment explanation
Indices: 95324390--95324441 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
95324380 TTCGTAGGTC
* *
95324390 AAATAAATCATGCTAATAAATGCT
1 AAATAAATCATACTAATAAATACT
* *
95324414 AAATATATTATACTAATAAATACT
1 AAATAAATCATACTAATAAATACT
95324438 AAAT
1 AAAT
95324442 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):
AAATAAATCATACTAATAAATACT
Found at i:95328632 original size:19 final size:17
Alignment explanation
Indices: 95328598--95328631 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
95328588 ATTTTTTGAC
95328598 ATTTTTAAATATATATA
1 ATTTTTAAATATATATA
95328615 ATTTATTAAATA-ATATA
1 ATTT-TTAAATATATATA
95328632 TTAGTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTTAAATATATATA
Found at i:95328639 original size:19 final size:18
Alignment explanation
Indices: 95328602--95328640 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
95328592 TTTGACATTT
*
95328602 TTAAATATATATAATTTA
1 TTAAATATATATAAGTTA
*
95328620 TTAAATAATATATTAGTTA
1 TTAAAT-ATATATAAGTTA
95328639 TT
1 TT
95328641 TAAGTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTAAATATATATAAGTTA
Found at i:95337205 original size:20 final size:18
Alignment explanation
Indices: 95337169--95337209 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
95337159 AAAAAATATT
*
95337169 TTTAAAAATTAAGAATTA
1 TTTAAAAATTAAAAATTA
95337187 TTTAAAAAGTATAAAAATTA
1 TTTAAAAA-T-TAAAAATTA
95337207 TTT
1 TTT
95337210 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TTTAAAAATTAAAAATTA
Found at i:95338193 original size:19 final size:19
Alignment explanation
Indices: 95338157--95338194 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
95338147 AATTTTATAT
*
95338157 TTTTTAAAAATTTATAAAA
1 TTTTTAAAAAATTATAAAA
*
95338176 TTTTTAAAAAATTCTAAAA
1 TTTTTAAAAAATTATAAAA
95338195 AAATATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTTAAAAAATTATAAAA
Found at i:95341496 original size:95 final size:94
Alignment explanation
Indices: 95341370--95341562 Score: 325
Period size: 95 Copynumber: 2.1 Consensus size: 94
95341360 AAGACATAAC
95341370 TAATAAGTAAAACTCCAGAAGAGATTCAGGTACTTGAAACTAAAGATTAAAATAGTGAAAATAAG
1 TAATAAGTAAAACTCCAGAAGAGATTCAGGTACTTGAAACTAAAGATTAAAA-AGTGAAAATAAG
95341435 ATATCTCGATAAGTTACGCCAATTCGAGAA
65 ATATCTCGATAAGTTACGCCAATTCGAGAA
* * *
95341465 TAATAAGTAAAACTTCAGAAGAGATTTAGGTACTTGAAACTAGAGATTAAAAAGTGAAAATAAGA
1 TAATAAGTAAAACTCCAGAAGAGATTCAGGTACTTGAAACTAAAGATTAAAAAGTGAAAATAAGA
* *
95341530 TATCTCGATAAGTTATGTCAATTCGAGAA
66 TATCTCGATAAGTTACGCCAATTCGAGAA
95341559 -AATA
1 TAATA
95341563 TGGAACCGAA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 4 0.04
94 40 0.43
95 49 0.53
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (94 bp):
TAATAAGTAAAACTCCAGAAGAGATTCAGGTACTTGAAACTAAAGATTAAAAAGTGAAAATAAGA
TATCTCGATAAGTTACGCCAATTCGAGAA
Found at i:95345749 original size:3 final size:3
Alignment explanation
Indices: 95345743--95345798 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
95345733 ATCTAAGATT
* **
95345743 TTA TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
95345787 TTA TTA TTA TTA
1 TTA TTA TTA TTA
95345799 ATTTTAAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:95346702 original size:3 final size:3
Alignment explanation
Indices: 95346696--95346726 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
95346686 TAATAATTTA
95346696 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
95346727 TTTGTAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:95349122 original size:5 final size:5
Alignment explanation
Indices: 95349112--95349198 Score: 51
Period size: 5 Copynumber: 17.8 Consensus size: 5
95349102 TTGGTTTATT
* *
95349112 TATAA TAT-A -ATAA TATAA TATAA T-TAA TATAA TTTACAA TATAA TAAAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA --TATAA TATAA TATAA
* * *
95349161 TAATAA AATAA TAAAA TACT-T TATAA T-TAA -ATAA TATA
1 T-ATAA TATAA TATAA TA-TAA TATAA TATAA TATAA TATA
95349199 TTTATATATA
Statistics
Matches: 62, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
3 2 0.03
4 13 0.21
5 40 0.65
6 3 0.05
7 4 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:95349153 original size:34 final size:33
Alignment explanation
Indices: 95349109--95349173 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
95349099 TTTTTGGTTT
* * *
95349109 ATTTATAATATAATAATATAATATAATTAATATA
1 ATTTACAATATAATAAAATAATA-AAATAATATA
95349143 ATTTACAATATAATAAAATAATAAAATAATA
1 ATTTACAATATAATAAAATAATAAAATAATA
95349174 AAATACTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (33 bp):
ATTTACAATATAATAAAATAATAAAATAATATA
Found at i:95349175 original size:8 final size:8
Alignment explanation
Indices: 95349152--95349178 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
95349142 AATTTACAAT
95349152 ATAATAAA
1 ATAATAAA
95349160 ATAATAAA
1 ATAATAAA
95349168 ATAATAAA
1 ATAATAAA
95349176 ATA
1 ATA
95349179 CTTTATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
ATAATAAA
Found at i:95352658 original size:24 final size:22
Alignment explanation
Indices: 95352619--95352662 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
95352609 GCACATTATT
*
95352619 TTTTTGTTCTTTTTCTTCTTGG
1 TTTTTGTTCTTGTTCTTCTTGG
95352641 TTTTTGTTCTCATGTTCTTCTT
1 TTTTTGTTCT--TGTTCTTCTT
95352663 TTTGCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.02, C:0.16, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTTTGTTCTTGTTCTTCTTGG
Found at i:95368865 original size:137 final size:138
Alignment explanation
Indices: 95368618--95368885 Score: 335
Period size: 137 Copynumber: 1.9 Consensus size: 138
95368608 TATAGTCGTA
* * * ** *
95368618 GCTCACACGAGCTAACGGTCGGAATGTAAGCTACACGATGCTGTGCATACAAGCTGTTGAGTATC
1 GCTCACACAAGCTAACGGTCGGAATGTAAGCTACACGATGCCGTGCACACAAGCTGACGAATATC
*** * * * *
95368683 TGTAACTAATGCTGAACCTCAGTCATCAGTAGGACATTCAGGACCAGCACCCAAAACATGGTAAC
66 CACAACAAATGCTGAAACTCAGCCATCAGTAGGACATTCAAGACCAGCACCCAAAACATGGTAAC
95368748 CTAGGTCT
131 CTAGGTCT
* *
95368756 GCTCACACAAGCTGACGGTCGGAATGT-AGCTACACGATGCCGCT-CACACAAGCTGACGAATCT
1 GCTCACACAAGCTAACGGTCGGAATGTAAGCTACACGATGCCG-TGCACACAAGCTGACGAATAT
* * *
95368819 CCACAACAAATGC-GAGAACTCAGCCATCGGTGGGACATTCAAGACCAGCACCCGAAACATGGTA
65 CCACAACAAATGCTGA-AACTCAGCCATCAGTAGGACATTCAAGACCAGCACCCAAAACATGGTA
95368883 ACC
129 ACC
95368886 CTAATGACAT
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
136 2 0.02
137 82 0.75
138 26 0.24
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (138 bp):
GCTCACACAAGCTAACGGTCGGAATGTAAGCTACACGATGCCGTGCACACAAGCTGACGAATATC
CACAACAAATGCTGAAACTCAGCCATCAGTAGGACATTCAAGACCAGCACCCAAAACATGGTAAC
CTAGGTCT
Found at i:95370980 original size:66 final size:66
Alignment explanation
Indices: 95370869--95371001 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
95370859 CTACCAATCT
*
95370869 AATGCCTTTTTTCGGCTCGATACTAACTTGACATCAAATGTAGTAGCTATTTTGGTATATTTCCA
1 AATGCCTTTTTTCGGCTCGATACTAACTTGACATCAAATGAAGTAGCTATTTTGGTATATTTCCA
95370934 C
66 C
*
95370935 AATGCCTTTTTTCGGTTCGATACTAACTTGACATCAAATGAAGTAGCTATTTTGGTATATTTCCA
1 AATGCCTTTTTTCGGCTCGATACTAACTTGACATCAAATGAAGTAGCTATTTTGGTATATTTCCA
95371000 C
66 C
95371001 A
1 A
95371002 CTAAAGGAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (66 bp):
AATGCCTTTTTTCGGCTCGATACTAACTTGACATCAAATGAAGTAGCTATTTTGGTATATTTCCA
C
Found at i:95371265 original size:17 final size:18
Alignment explanation
Indices: 95371243--95371276 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
95371233 TTCCCAAGCT
*
95371243 ACTAAAGCATG-ACACAG
1 ACTAAAGAATGCACACAG
95371260 ACTAAAGAATGCACACA
1 ACTAAAGAATGCACACA
95371277 ATCATTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.24, G:0.15, T:0.12
Consensus pattern (18 bp):
ACTAAAGAATGCACACAG
Found at i:95373019 original size:19 final size:19
Alignment explanation
Indices: 95372997--95373033 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
95372987 CGAGATTTTG
95372997 AGTAAAAACGTGGTTTCAA
1 AGTAAAAACGTGGTTTCAA
*
95373016 AGTAAAAATGTGGTTTCA
1 AGTAAAAACGTGGTTTCA
95373034 GAGTGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (19 bp):
AGTAAAAACGTGGTTTCAA
Found at i:95377125 original size:39 final size:39
Alignment explanation
Indices: 95377081--95377290 Score: 375
Period size: 39 Copynumber: 5.4 Consensus size: 39
95377071 CGAACTTCAA
95377081 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCAT
1 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCAT
* * * *
95377120 CTCCGGATATGTTCCCAGCATATAGCCTGCGGACTTCAT
1 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCAT
95377159 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCAT
1 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCAT
95377198 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCAT
1 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCAT
*
95377237 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCCCAT
1 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCAT
95377276 GTCCGGATATATTTC
1 GTCCGGATATATTTC
95377291 AAATACCATG
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 162 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (39 bp):
GTCCGGATATATTTCCAGCATATAGCCTGCGGACCTCAT
Found at i:95388481 original size:22 final size:22
Alignment explanation
Indices: 95388433--95388497 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
95388423 CGCTCTAACT
* *
95388433 ATTAGCATGTCAGTGCTCTT-TG
1 ATTAGCATATTAGTGCT-TTCTG
*
95388455 TTTAGCATATTAGTGCTTTCTG
1 ATTAGCATATTAGTGCTTTCTG
*
95388477 ATTAG--TCATTAGTGTTTTCTG
1 ATTAGCAT-ATTAGTGCTTTCTG
95388498 TTTGCTTGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 15 0.42
22 20 0.56
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.48
Consensus pattern (22 bp):
ATTAGCATATTAGTGCTTTCTG
Found at i:95391077 original size:14 final size:15
Alignment explanation
Indices: 95391050--95391078 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95391040 AATTTTATGA
95391050 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
95391065 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
95391079 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:95391271 original size:50 final size:51
Alignment explanation
Indices: 95391194--95391322 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
95391184 GACCATGGCA
*
95391194 ACAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
95391245 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
95391295 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
95391323 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:95391336 original size:31 final size:31
Alignment explanation
Indices: 95391298--95391468 Score: 191
Period size: 31 Copynumber: 5.8 Consensus size: 31
95391288 ACAAATGACA
*
95391298 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
95391329 AGTGAAAAGTGGTAGCTT--G------GATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* **
95391352 AGTAAAAAGCAGTAG-TTCCGGCTACCTGAT-
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
95391382 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
95391413 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
95391444 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
95391469 AAGTGACAAG
Statistics
Matches: 118, Mismatches: 11, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
22 2 0.02
23 16 0.14
25 1 0.01
29 1 0.01
30 24 0.20
31 74 0.63
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:95391605 original size:46 final size:47
Alignment explanation
Indices: 95391489--95391610 Score: 156
Period size: 47 Copynumber: 2.6 Consensus size: 47
95391479 TGACAAGTGA
* * *
95391489 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
* * *
95391536 TATAAGACCATATCTGGGATATGGAATCAGTGAGATATGTGATTC-G
1 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
* * *
95391582 TGTAAGACCATAGCTGGGCTATGGCATCA
1 TATAAGACCATATCTGGGATATGGCATCA
95391611 TTATGTGAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 26 0.40
47 39 0.60
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (47 bp):
TATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACTG
Found at i:95393297 original size:17 final size:17
Alignment explanation
Indices: 95393275--95393315 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
95393265 TGGAACAAAG
*
95393275 AGAGAAAGA-AAAGGGAA
1 AGAGAAAGAGAAA-GAAA
95393292 AGAGAAAGAGAAAGAAA
1 AGAGAAAGAGAAAGAAA
95393309 AGAGAAA
1 AGAGAAA
95393316 TTAGGGTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AGAGAAAGAGAAAGAAA
Found at i:95393298 original size:6 final size:6
Alignment explanation
Indices: 95393275--95393315 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
95393265 TGGAACAAAG
*
95393275 AGAGAA AGA-AA AGGGAA AGAGAA AGAGAA AGA-AA AGAGAA A
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA A
95393316 TTAGGGTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 9 0.29
6 22 0.71
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:95393510 original size:21 final size:20
Alignment explanation
Indices: 95393468--95393510 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
95393458 TCATATTGAA
* *
95393468 TAAATTGATGAATTAGAGGT
1 TAAATTGATGAATTACAAGT
*
95393488 TAAATTGATAGAATTTCAAGT
1 TAAATTGAT-GAATTACAAGT
95393509 TA
1 TA
95393511 GAAGTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (20 bp):
TAAATTGATGAATTACAAGT
Found at i:95394886 original size:13 final size:13
Alignment explanation
Indices: 95394868--95394893 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95394858 AAGCCACCCT
95394868 ACACGGGCATGTC
1 ACACGGGCATGTC
95394881 ACACGGGCATGTC
1 ACACGGGCATGTC
95394894 CCTGTCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGGGCATGTC
Found at i:95408954 original size:19 final size:19
Alignment explanation
Indices: 95408930--95408996 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
95408920 ATTTTTGAAG
95408930 ACTTTTATTTATTATTTTT
1 ACTTTTATTTATTATTTTT
* * * *
95408949 ACTTTTTTTTTTTACTTCT
1 ACTTTTATTTATTATTTTT
*
95408968 A-TCTTTATTTA-TCTTTTT
1 ACT-TTTATTTATTATTTTT
95408986 ACTTTTTATTT
1 AC-TTTTATTT
95408997 TTTTAGTACT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
18 6 0.17
19 29 0.81
20 1 0.03
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.73
Consensus pattern (19 bp):
ACTTTTATTTATTATTTTT
Found at i:95410649 original size:2 final size:2
Alignment explanation
Indices: 95410642--95410667 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95410632 GAGACTAGTC
95410642 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
95410668 GTCATGATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95418703 original size:22 final size:22
Alignment explanation
Indices: 95418677--95418722 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
95418667 AAGATATCTT
95418677 TAATGAAAAGAAAGAAAGTATA
1 TAATGAAAAGAAAGAAAGTATA
95418699 TAATGAAAAGAAAGAAAGTATA
1 TAATGAAAAGAAAGAAAGTATA
95418721 TA
1 TA
95418723 GGTGAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (22 bp):
TAATGAAAAGAAAGAAAGTATA
Found at i:95426139 original size:21 final size:21
Alignment explanation
Indices: 95426113--95426166 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
95426103 TAGCAGCAGT
*
95426113 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
95426134 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
95426155 AGTGAGATTAGA
1 GGTGAGATTAGA
95426167 AACAATGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.35, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:95429437 original size:17 final size:18
Alignment explanation
Indices: 95429396--95429438 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
95429386 TGTATTTACT
95429396 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
95429414 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
95429431 TATTATAT
1 TATTATAT
95429439 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:95429449 original size:18 final size:17
Alignment explanation
Indices: 95429426--95429462 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
95429416 ATATAAAGTA
*
95429426 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
95429444 AATTATAATATATTAAT
1 AATTATAATATATTAAT
95429461 AA
1 AA
95429463 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:95430420 original size:6 final size:6
Alignment explanation
Indices: 95430409--95430434 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
95430399 CCTAAATATG
95430409 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
95430435 CCTACGGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:95438129 original size:5 final size:5
Alignment explanation
Indices: 95438121--95438197 Score: 131
Period size: 5 Copynumber: 15.8 Consensus size: 5
95438111 TATAAAGTAA
95438121 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
*
95438171 ATTAT ATTAT A-TA- ATTAT AATAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
95438198 ATAAAATAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
3 1 0.01
4 4 0.06
5 63 0.93
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:95438131 original size:17 final size:18
Alignment explanation
Indices: 95438090--95438132 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
95438080 TGTATTTACT
95438090 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
95438108 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
95438125 TATTATAT
1 TATTATAT
95438133 TATATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:95439168 original size:6 final size:6
Alignment explanation
Indices: 95439157--95439182 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
95439147 CCTAAATATG
95439157 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
95439183 CCTACGGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:95444413 original size:32 final size:34
Alignment explanation
Indices: 95444377--95444441 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
95444367 TAACAGTGGT
*
95444377 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
95444409 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
95444442 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:95446320 original size:26 final size:26
Alignment explanation
Indices: 95446289--95446396 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
95446279 TGAAATGCCC
*
95446289 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
95446315 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
95446341 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
95446367 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95446393 ATCA
1 ATCA
95446397 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:95454076 original size:26 final size:26
Alignment explanation
Indices: 95454045--95454152 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
95454035 TGAAATGCCC
*
95454045 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
95454071 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
95454097 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
95454123 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95454149 ATCA
1 ATCA
95454153 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:95456914 original size:20 final size:21
Alignment explanation
Indices: 95456891--95456939 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
95456881 ACATTTGAGA
*
95456891 TTTATTTTTTTTA-TTTTAAT
1 TTTATTTTATTTATTTTTAAT
*
95456911 TTTA-ATTATTTATTTTTAAT
1 TTTATTTTATTTATTTTTAAT
*
95456931 ATTATTTTA
1 TTTATTTTA
95456940 AGGTGAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.26
20 14 0.61
21 3 0.13
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTATTTTATTTATTTTTAAT
Found at i:95456937 original size:12 final size:14
Alignment explanation
Indices: 95456890--95456938 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
95456880 CACATTTGAG
*
95456890 ATTTATTTTT-TTT
1 ATTTATTTTTAATT
*
95456903 ATTTTAATTTTAATT
1 A-TTTATTTTTAATT
95456918 ATTTATTTTTAA-T
1 ATTTATTTTTAATT
95456931 A-TTATTTT
1 ATTTATTTT
95456939 AAGGTGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 18 0.58
15 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTATTTTTAATT
Found at i:95456937 original size:25 final size:24
Alignment explanation
Indices: 95456892--95456940 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
95456882 CATTTGAGAT
*
95456892 TTATTTTTTTTATTTTAATTTTAA
1 TTATTTTTTTTATATTAATTTTAA
95456916 TTATTTATTTTTAATATT-ATTTTAA
1 TTATTT-TTTTT-ATATTAATTTTAA
95456941 GGTGAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 12 0.55
26 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (24 bp):
TTATTTTTTTTATATTAATTTTAA
Found at i:95462857 original size:5 final size:5
Alignment explanation
Indices: 95462847--95462878 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
95462837 AAGAGACAAA
95462847 ATAGT ATAGT ATAG- -TAGT ATAGT ATAGT ATAG
1 ATAGT ATAGT ATAGT ATAGT ATAGT ATAGT ATAG
95462879 GGTAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
3 3 0.12
5 22 0.88
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (5 bp):
ATAGT
Found at i:95462864 original size:13 final size:13
Alignment explanation
Indices: 95462848--95462875 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95462838 AGAGACAAAA
95462848 TAGTATAGTATAG
1 TAGTATAGTATAG
95462861 TAGTATAGTATAG
1 TAGTATAGTATAG
95462874 TA
1 TA
95462876 TAGGGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
TAGTATAGTATAG
Found at i:95465199 original size:25 final size:25
Alignment explanation
Indices: 95465170--95465218 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
95465160 TTAGGCTTTC
95465170 AATTTTTCACCATAAATGTTTCATT
1 AATTTTTCACCATAAATGTTTCATT
*
95465195 AATTTTTCACTATAAATGTTTCAT
1 AATTTTTCACCATAAATGTTTCAT
95465219 CTCTTAAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (25 bp):
AATTTTTCACCATAAATGTTTCATT
Found at i:95471686 original size:23 final size:22
Alignment explanation
Indices: 95471660--95471702 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
95471650 TAGATTAAGG
95471660 GTAATTTTTTTAATAATTTTTTT
1 GTAATTTTTTTAAT-ATTTTTTT
*
95471683 GTAATTTTTTTTATATTTTT
1 GTAATTTTTTTAATATTTTT
95471703 ATAGTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
GTAATTTTTTTAATATTTTTTT
Found at i:95471693 original size:11 final size:11
Alignment explanation
Indices: 95471660--95471702 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
95471650 TAGATTAAGG
95471660 GTAATTTTTTT
1 GTAATTTTTTT
*
95471671 AATAATTTTTTT
1 -GTAATTTTTTT
95471683 GTAATTTTTTT
1 GTAATTTTTTT
95471694 -TATATTTTT
1 GTA-ATTTTT
95471703 ATAGTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 10 0.36
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (11 bp):
GTAATTTTTTT
Found at i:95471745 original size:10 final size:8
Alignment explanation
Indices: 95471722--95471824 Score: 55
Period size: 8 Copynumber: 11.4 Consensus size: 8
95471712 AAATAGGGTT
95471722 TTTTATAA
1 TTTTATAA
95471730 TTTTATAA
1 TTTTATAA
*
95471738 TATGTTATAT
1 T-T-TTATAA
95471748 TTTTCATAA
1 TTTT-ATAA
95471757 TTTTATGTATA
1 TTTTA--TA-A
95471768 CTTTCTATAA
1 -TTT-TATAA
95471778 TTTTCTATTAA
1 -TTT-TA-TAA
*
95471789 TTTT-TATT
1 TTTTATA-A
95471797 TTTATATAA
1 TTT-TATAA
*
95471806 TTTTACAA
1 TTTTATAA
95471814 TTTTATAA
1 TTTTATAA
95471822 TTT
1 TTT
95471825 GTTTAAATAT
Statistics
Matches: 76, Mismatches: 7, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
7 2 0.03
8 29 0.38
9 14 0.18
10 20 0.26
11 6 0.08
12 3 0.04
13 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (8 bp):
TTTTATAA
Found at i:95471806 original size:17 final size:17
Alignment explanation
Indices: 95471777--95471809 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
95471767 ACTTTCTATA
95471777 ATTTTCTATTAATTTTT
1 ATTTTCTATTAATTTTT
95471794 ATTTT-TATATAATTTT
1 ATTTTCTAT-TAATTTT
95471810 ACAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTCTATTAATTTTT
Found at i:95480834 original size:5 final size:5
Alignment explanation
Indices: 95480826--95480854 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
95480816 AATATATTAT
95480826 ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATAT
95480855 TGTATTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:95483549 original size:28 final size:26
Alignment explanation
Indices: 95483517--95483580 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
95483507 AATTACTATA
* *
95483517 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCGTT
* *
95483545 CTACCCCTAGGTGCAAAATTACCGTT
1 ATACCCCTAGATGCAAAATTACCGTT
95483571 ATACCCCTAG
1 ATACCCCTAG
95483581 GGTTAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.71
27 1 0.03
28 8 0.26
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCGTT
Found at i:95483725 original size:27 final size:26
Alignment explanation
Indices: 95483685--95483789 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 26
95483675 AGGAAGCGTC
*
95483685 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTTTGCCACAA-TATCTGAT
*
95483712 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTTTGCCACA-ATATCTGAT
*
95483739 CTGCTGGCTTTGCCACAATATCTGTAT
1 CTGGTGGCTTTGCCACAATATCTG-AT
* * * *
95483766 CTAGTGACTTCGTCACAATATCTG
1 CTGGTGGCTTTGCCACAATATCTG
95483790 GTAGTCTCGC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.10
27 59 0.88
28 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTTTGCCACAATATCTGAT
Found at i:95487575 original size:5 final size:5
Alignment explanation
Indices: 95487555--95487589 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
95487545 TTTTATTTAA
95487555 ATTAT A-TAT A-TAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
95487590 AATTGATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.28
5 21 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:95487610 original size:3 final size:3
Alignment explanation
Indices: 95487567--95487645 Score: 53
Period size: 3 Copynumber: 27.7 Consensus size: 3
95487557 TATATATATA
* *
95487567 TAT TA- TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* **
95487609 TAAT TGT TAT GGT T-T TA- TAT TAT TAT TAT TAT TAT TA
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
95487646 AATAAATTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
2 12 0.20
3 41 0.69
4 6 0.10
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:95487974 original size:38 final size:37
Alignment explanation
Indices: 95487881--95487974 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 37
95487871 TGTAATGATA
* *
95487881 ATATTTATACAATTATAATATT-TTATTTAAATTAGTAG
1 ATATTTAT-TAATTA-AATATTATTATTAAAATTAGTAG
95487919 ATATTTATT-ATT---TATTATTATTAAAATTAAG-AG
1 ATATTTATTAATTAAATATTATTATTAAAATT-AGTAG
95487952 ATATTTATTAATTAAATAATTAT
1 ATATTTATTAATTAAAT-ATTAT
95487975 AAAATAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
32 4 0.09
33 21 0.45
34 5 0.11
36 3 0.06
37 1 0.02
38 13 0.28
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTTATTAATTAAATATTATTATTAAAATTAGTAG
Found at i:95488155 original size:22 final size:20
Alignment explanation
Indices: 95488120--95488169 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
95488110 AATATAATAT
95488120 AAATAAAATAAAATAAAAAG
1 AAATAAAATAAAATAAAAAG
*
95488140 AAATAAAGCATAAAATAAATAG
1 AAATAAA--ATAAAATAAAAAG
*
95488162 AAACAAAA
1 AAATAAAA
95488170 CAAACAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
22 18 0.69
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAG
Found at i:95489346 original size:45 final size:45
Alignment explanation
Indices: 95489243--95489346 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
95489233 CTACTGTTAT
*
95489243 TGTTACCGTTACTGTTACCAATTCGACACTTTGTGTGTCGAATAC
1 TGTTACTGTTACTGTTACCAATTCGACACTTTGTGTGTCGAATAC
* *
95489288 TGTTA-TCGCTACTGTTA-CAGATTC-AGCACTTTGTGTGTTGAATAC
1 TGTTACT-GTTACTGTTACCA-ATTCGA-CACTTTGTGTGTCGAATAC
95489333 TGTTACTGTTACTG
1 TGTTACTGTTACTG
95489347 CTACTGCTAC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
44 3 0.06
45 47 0.92
46 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (45 bp):
TGTTACTGTTACTGTTACCAATTCGACACTTTGTGTGTCGAATAC
Found at i:95489361 original size:18 final size:18
Alignment explanation
Indices: 95489330--95489364 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95489320 GTGTGTTGAA
* *
95489330 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
95489348 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
95489365 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:95489801 original size:20 final size:20
Alignment explanation
Indices: 95489776--95489819 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
95489766 TCAGCAAACT
95489776 TTTTGGTGATGTATATTTTC
1 TTTTGGTGATGTATATTTTC
95489796 TTTTGGTGATGTATATTTTC
1 TTTTGGTGATGTATATTTTC
95489816 TTTT
1 TTTT
95489820 AGTAATGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.14, C:0.05, G:0.18, T:0.64
Consensus pattern (20 bp):
TTTTGGTGATGTATATTTTC
Found at i:95489827 original size:20 final size:20
Alignment explanation
Indices: 95489784--95489827 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
95489774 CTTTTTGGTG
* *
95489784 ATGTATATTTTCTTTTGGTG
1 ATGTATATTTTCTTTTAGTA
95489804 ATGTATATTTTCTTTTAGTA
1 ATGTATATTTTCTTTTAGTA
95489824 ATGT
1 ATGT
95489828 GGCATGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.05, G:0.16, T:0.59
Consensus pattern (20 bp):
ATGTATATTTTCTTTTAGTA
Found at i:95497155 original size:19 final size:19
Alignment explanation
Indices: 95497131--95497168 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
95497121 AATTGATAGA
95497131 TAATTAATGT-AAATTAAAC
1 TAATTAAT-TAAAATTAAAC
95497150 TAATTAATTAAAATTAAAC
1 TAATTAATTAAAATTAAAC
95497169 AATACTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (19 bp):
TAATTAATTAAAATTAAAC
Found at i:95502098 original size:18 final size:18
Alignment explanation
Indices: 95502075--95502114 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
95502065 TATAATTTTA
*
95502075 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
95502093 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
95502111 AAAA
1 AAAA
95502115 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:95505883 original size:23 final size:22
Alignment explanation
Indices: 95505853--95505940 Score: 63
Period size: 23 Copynumber: 3.9 Consensus size: 22
95505843 TGATGAACAC
95505853 TAAGCTCTAATAAGCTGAAACGG
1 TAAGCTCT-ATAAGCTGAAACGG
* *
95505876 TAAGCTCTATCGAGCT-AAACAG
1 TAAGCTCTAT-AAGCTGAAACGG
* *
95505898 TAAGCTC-ATACGAGCTAAAATGG
1 TAAGCTCTATA--AGCTGAAACGG
* *
95505921 TAAGCTTTAATGAGCTGAAA
1 TAAGCTCT-ATAAGCTGAAA
95505941 ATCATAAGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
21 2 0.04
22 18 0.35
23 29 0.57
25 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (22 bp):
TAAGCTCTATAAGCTGAAACGG
Found at i:95505900 original size:22 final size:22
Alignment explanation
Indices: 95505848--95505916 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
95505838 TAAGCTGATG
* *
95505848 AACACTAAGCTCTAAT-AAGCTGA
1 AACAGTAAGCTCT-ATCGAGCT-A
*
95505871 AACGGTAAGCTCTATCGAGCTA
1 AACAGTAAGCTCTATCGAGCTA
95505893 AACAGTAAGCTC-ATACGAGCTA
1 AACAGTAAGCTCTAT-CGAGCTA
95505915 AA
1 AA
95505917 ATGGTAAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 2 0.05
22 23 0.57
23 15 0.38
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (22 bp):
AACAGTAAGCTCTATCGAGCTA
Found at i:95505923 original size:45 final size:46
Alignment explanation
Indices: 95505865--95505960 Score: 108
Period size: 45 Copynumber: 2.1 Consensus size: 46
95505855 AGCTCTAATA
*
95505865 AGCTGAAACGGTAAGCTCT-ATCGAGCT-AAA-CAGTAAGCTCATACG
1 AGCTAAAACGGTAAGCTCTAAT-GAGCTAAAATCA-TAAGCTCATACG
* * *
95505910 AGCTAAAATGGTAAGCTTTAATGAGCTGAAAATCATAAGCTCTTACG
1 AGCTAAAACGGTAAGCTCTAATGAGCT-AAAATCATAAGCTCATACG
95505957 AGCT
1 AGCT
95505961 GATATATCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
45 21 0.49
46 2 0.05
47 18 0.42
48 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (46 bp):
AGCTAAAACGGTAAGCTCTAATGAGCTAAAATCATAAGCTCATACG
Found at i:95505977 original size:26 final size:25
Alignment explanation
Indices: 95505875--95505987 Score: 89
Period size: 24 Copynumber: 4.7 Consensus size: 25
95505865 AGCTGAAACG
95505875 GTAAGCTC-TATCGAGCT--AAA-CA
1 GTAAGCTCATA-CGAGCTGAAAATCA
*
95505897 GTAAGCTCATACGAGCT-AAAAT-G
1 GTAAGCTCATACGAGCTGAAAATCA
* *
95505920 GTAAGCT-TTAATGAGCTGAAAATCA
1 GTAAGCTCAT-ACGAGCTGAAAATCA
* *
95505945 -TAAGCTCTTACGAGCTGATATATCA
1 GTAAGCTCATACGAGCTGA-AAATCA
*
95505970 GTAAGCTCAAACGAGCTG
1 GTAAGCTCATACGAGCTG
95505988 TAGTGAGTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
22 15 0.20
23 18 0.24
24 19 0.26
25 7 0.09
26 15 0.20
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAAAATCA
Found at i:95507123 original size:6 final size:6
Alignment explanation
Indices: 95507112--95507137 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
95507102 TAAAAAATTA
95507112 ATTTGC ATTTGC ATTTGC ATTTGC AT
1 ATTTGC ATTTGC ATTTGC ATTTGC AT
95507138 CATGAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTTGC
Found at i:95507205 original size:18 final size:19
Alignment explanation
Indices: 95507182--95507217 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
95507172 ATGTCCCTTA
95507182 TATTATGCT-TAAATTTAC
1 TATTATGCTATAAATTTAC
95507200 TATTATGCTATAAATTTA
1 TATTATGCTATAAATTTA
95507218 TGCTTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (19 bp):
TATTATGCTATAAATTTAC
Found at i:95515127 original size:27 final size:26
Alignment explanation
Indices: 95515097--95515155 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
95515087 ATGGTGTCGA
95515097 AAAAATTGAAT-TTGAATAGTATTTAAT
1 AAAAATT-AATATTG-ATAGTATTTAAT
* * *
95515124 AAAAAATATTATTGATATTATTTAAT
1 AAAAATTAATATTGATAGTATTTAAT
95515150 AAAAAT
1 AAAAAT
95515156 ACATTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (26 bp):
AAAAATTAATATTGATAGTATTTAAT
Found at i:95517068 original size:24 final size:24
Alignment explanation
Indices: 95517040--95517091 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
95517030 TTAGCAAGTC
* *
95517040 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
95517064 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
95517088 AAAT
1 AAAT
95517092 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:95517925 original size:7 final size:7
Alignment explanation
Indices: 95517913--95517940 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
95517903 AATGATACCA
95517913 TTTTTAT
1 TTTTTAT
95517920 TTTTTAT
1 TTTTTAT
95517927 TTTTTAT
1 TTTTTAT
95517934 TTTTTAT
1 TTTTTAT
95517941 AGCAATCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:95521069 original size:29 final size:30
Alignment explanation
Indices: 95521027--95521085 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
95521017 GAATTAGATC
* * *
95521027 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATATATAAAATTACACA
*
95521057 AAATC-AAAGTTCATATATACAATTACACA
1 AAATCAAAAGTTCATATATAAAATTACACA
95521086 TTAAACTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATATATAAAATTACACA
Found at i:95521460 original size:26 final size:26
Alignment explanation
Indices: 95521409--95521463 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
95521399 CTAGTTTGAC
*
95521409 AATGCTTTTGAAAAGTGCTGTGGAAA
1 AATGCTTTTGAAAAGTACTGTGGAAA
* *
95521435 AATGCTTTT-AAGAAGTACTTTTGAAA
1 AATGCTTTTGAA-AAGTACTGTGGAAA
95521461 AAT
1 AAT
95521464 TTGATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTACTGTGGAAA
Found at i:95521741 original size:33 final size:35
Alignment explanation
Indices: 95521646--95521742 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
95521636 TTAATATTTT
*
95521646 AATATATAAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
95521681 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
95521714 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
95521743 ATATAACTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:95521757 original size:33 final size:30
Alignment explanation
Indices: 95521681--95521761 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 30
95521671 ATTTTTAAGC
95521681 AATA-AATATT-AATTATTTATAAAATTTA
1 AATATAATATTAAATTATTTATAAAATTTA
* * *
95521709 ATTAGAATATATAAATTATATTTTAAATATTTA
1 AATATAATAT-TAAATTAT-TTATAAA-ATTTA
95521742 AATATAACTATTAAA-TATTT
1 AATATAA-TATTAAATTATTT
95521762 GTAATTAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 3 0.07
29 5 0.12
30 1 0.02
31 8 0.19
32 9 0.21
33 14 0.33
34 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAAATTTA
Found at i:95526492 original size:21 final size:21
Alignment explanation
Indices: 95526467--95526527 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
95526457 TTGATATGAT
95526467 AATTTTTATAATTTTTTTATG
1 AATTTTTATAATTTTTTTATG
*
95526488 AA-TTTTAT-ATTTCTTTA--
1 AATTTTTATAATTTTTTTATG
* *
95526505 CATTTATTATAATTTTCTTATG
1 AATTT-TTATAATTTTTTTATG
95526527 A
1 A
95526528 CTTTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 9
0.68 0.11 0.20
Matches are distributed among these distances:
17 1 0.03
18 2 0.07
19 12 0.40
20 13 0.43
21 2 0.07
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
AATTTTTATAATTTTTTTATG
Found at i:95530017 original size:19 final size:19
Alignment explanation
Indices: 95529993--95530030 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
95529983 TCACCCATCT
*
95529993 AAATTAAGCTTGAAAAGAA
1 AAATTAAACTTGAAAAGAA
95530012 AAATTAAACTTGAAAAGAA
1 AAATTAAACTTGAAAAGAA
95530031 CAAAGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.21
Consensus pattern (19 bp):
AAATTAAACTTGAAAAGAA
Found at i:95531170 original size:12 final size:13
Alignment explanation
Indices: 95531147--95531175 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
95531137 CAAAAAAAAA
95531147 AAAGAGAGAAAGC
1 AAAGAGAGAAAGC
95531160 AAAGA-AGAAAGC
1 AAAGAGAGAAAGC
95531172 AAAG
1 AAAG
95531176 CAAAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.66, C:0.07, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAGAGAGAAAGC
Done.