Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 32 of 117
Found at i:4839996 original size:60 final size:59
Alignment explanation
Indices: 4839864--4840179 Score: 304
Period size: 60 Copynumber: 5.3 Consensus size: 59
4839854 CCTTACAAAG
* * * *
4839864 AATTGATATTTTTAAC-TTTTCTCAAAAAAATATTTTTTGAAATTTTTATTTTTAAAAA
1 AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAAATTTTTATTTTTAAAAA
*
4839922 AATTGATACTTTCAA-TTTTTCCTCAAAAATATTTTTTTTGAAGTTTTTATTTTTAAGAAA
1 AATTGATACTTTCAACTTTTT-CTCAAAAATATTTTTTTTGAAATTTTTATTTTTAA-AAA
* * * * *
4839982 AATTGATACCTTCAACTTTTTCTAAAAAATATATATTTTTT-AAAATTTCATTTTCAAATAA
1 AATTGATACTTTCAACTTTTTCTCAAAAATAT-T-TTTTTTGAAATTTTTATTTTTAAA-AA
** * * *
4840043 AATTGATACTTTCAAC-TTTTCTTTAAAATATTTTTTTTTGAAAATTTGATTTTCAAAGAA
1 AATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTTTGAAATTTTTATTTTTAAA-AA
* * * * *
4840103 AATTGATACTTTCAACTTTTT-T-TAAAATATATATTTTTAAAATTTTTGTTTTTGAGAAA
1 AATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTTTGAAATTTTTATTTTT-AAAAA
* *
4840162 AATTAATTCTTT-AACTTT
1 AATTGATACTTTCAACTTT
4840180 CCTTGAAATT
Statistics
Matches: 221, Mismatches: 25, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
58 24 0.11
59 73 0.33
60 78 0.35
61 40 0.18
62 6 0.03
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.51
Consensus pattern (59 bp):
AATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAAATTTTTATTTTTAAAAA
Found at i:4840046 original size:121 final size:120
Alignment explanation
Indices: 4839880--4840147 Score: 334
Period size: 121 Copynumber: 2.3 Consensus size: 120
4839870 TATTTTTAAC
* * * * *
4839880 TTTTCTCAAAAAA-ATAT-TTTTTGAAATTTTTATTTTTAAAAAAATTGATACTTTCAATTTTTC
1 TTTTCT-AAAAAATATATATTTTTTAAAATTTCATTTTCAAAAAAATTGATACTTTCAACTTTT-
** * *
4839943 CTCAAAAATA-TTTTTTTTGAAGTTTTTATTTT-TAAGAAAAATTGATACCTTCAACT
64 CTCAAAAATATTTTTTTTTGAAAATTTGATTTTCAAAG-AAAATTGATACCTTCAACT
4839999 TTTTCTAAAAAATATATATTTTTTAAAATTTCATTTTCAAATAAAATTGATACTTTCAACTTTTC
1 TTTTCTAAAAAATATATATTTTTTAAAATTTCATTTTCAAA-AAAATTGATACTTTCAACTTTTC
** *
4840064 TTTAAAATATTTTTTTTTGAAAATTTGATTTTCAAAGAAAATTGATACTTTCAACT
65 TCAAAAATATTTTTTTTTGAAAATTTGATTTTCAAAGAAAATTGATACCTTCAACT
*
4840120 TTTT-T-TAAAATATATA-TTTTTAAAATTT
1 TTTTCTAAAAAATATATATTTTTTAAAATTT
4840148 TTGTTTTTGA
Statistics
Matches: 131, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
118 18 0.14
119 20 0.15
120 28 0.21
121 62 0.47
122 3 0.02
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.50
Consensus pattern (120 bp):
TTTTCTAAAAAATATATATTTTTTAAAATTTCATTTTCAAAAAAATTGATACTTTCAACTTTTCT
CAAAAATATTTTTTTTTGAAAATTTGATTTTCAAAGAAAATTGATACCTTCAACT
Found at i:4840925 original size:18 final size:19
Alignment explanation
Indices: 4840889--4840932 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4840879 TTCCTTTCAC
*
4840889 TTTTATGTTTCTGACTTCT
1 TTTTTTGTTTCTGACTTCT
*
4840908 TTTTTTGTTTTTGA-TTCT
1 TTTTTTGTTTCTGACTTCT
*
4840926 CTTTTTG
1 TTTTTTG
4840933 ACAGGAGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.07, C:0.11, G:0.11, T:0.70
Consensus pattern (19 bp):
TTTTTTGTTTCTGACTTCT
Found at i:4841765 original size:4 final size:4
Alignment explanation
Indices: 4841758--4841790 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
4841748 AGATAAACCA
4841758 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
4841791 TTTTTCTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:4842231 original size:30 final size:30
Alignment explanation
Indices: 4842172--4842231 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4842162 TAGATGATAC
* *
4842172 GAATGAATATAATTGGTAAATGGATTATAT
1 GAATGAATATAATTGGTAAATGCAGTATAT
*
4842202 GAATGTATATAATTGGTAAATGCAGTATAT
1 GAATGAATATAATTGGTAAATGCAGTATAT
4842232 AGCAATTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.37
Consensus pattern (30 bp):
GAATGAATATAATTGGTAAATGCAGTATAT
Found at i:4851549 original size:2 final size:2
Alignment explanation
Indices: 4851544--4851574 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4851534 ATATTGTGTG
4851544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4851575 TGTTAGGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4852666 original size:52 final size:50
Alignment explanation
Indices: 4852530--4852678 Score: 137
Period size: 52 Copynumber: 2.9 Consensus size: 50
4852520 AAGACTTGCA
*
4852530 AAAGAAGAATTCTAAGACAA-AGAAGATTCTTAATAGACAAGTTTGACTTCT
1 AAAGAAGAATTCTAAGA-AAGA-AATATTCTTAATAGACAAGTTTGACTTCT
* * *
4852581 AAGAGAA-AATTTTTTAA-AAA-AAAGGTATGCTTAATAGACAAGTTT-ATCTTGT
1 AA-AGAAGAA--TTCTAAGAAAGAAA--TATTCTTAATAGACAAGTTTGA-CTTCT
4852633 AGAAGAAGAATTCTAAGAAGAGAAATATTCTTAATAGACAAGTTTG
1 A-AAGAAGAATTCTAAGAA-AGAAATATTCTTAATAGACAAGTTTG
4852679 TATGACTATA
Statistics
Matches: 80, Mismatches: 6, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
50 2 0.03
51 13 0.16
52 53 0.66
53 9 0.11
54 3 0.04
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.30
Consensus pattern (50 bp):
AAAGAAGAATTCTAAGAAAGAAATATTCTTAATAGACAAGTTTGACTTCT
Found at i:4858781 original size:3 final size:3
Alignment explanation
Indices: 4858773--4858812 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
4858763 ACACATCTTC
4858773 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4858813 TTAAATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4861069 original size:73 final size:74
Alignment explanation
Indices: 4860926--4861073 Score: 280
Period size: 73 Copynumber: 2.0 Consensus size: 74
4860916 CTATGCCATA
*
4860926 CAATGGACCCTGTCCGTTGACCAATAGTATAGTACTTAGGTATTTAGGTAAACTAACAATAATCC
1 CAATGGACCCTGTCCATTGACCAATAGTATAGTACTTAGGTATTTAGGTAAACTAACAATAATCC
4860991 CTTCCCAAT
66 CTTCCCAAT
4861000 CAATGGACCCTGTCCATTGACCAATAGTATAGTAC-TAGGTATTTAGGTAAACTAACAATAATCC
1 CAATGGACCCTGTCCATTGACCAATAGTATAGTACTTAGGTATTTAGGTAAACTAACAATAATCC
4861064 CTTCCCAAT
66 CTTCCCAAT
4861073 C
1 C
4861074 CTAATCTTCG
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 39 0.53
74 34 0.47
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (74 bp):
CAATGGACCCTGTCCATTGACCAATAGTATAGTACTTAGGTATTTAGGTAAACTAACAATAATCC
CTTCCCAAT
Found at i:4875630 original size:25 final size:25
Alignment explanation
Indices: 4875602--4875649 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
4875592 TAGGCTTGGT
4875602 TTTGCTGTGAAAATTAGTGGCTGGC
1 TTTGCTGTGAAAATTAGTGGCTGGC
*
4875627 TTTGTTGTGAAAATTAGTGGCTG
1 TTTGCTGTGAAAATTAGTGGCTG
4875650 AAATTAGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.08, G:0.31, T:0.40
Consensus pattern (25 bp):
TTTGCTGTGAAAATTAGTGGCTGGC
Found at i:4886089 original size:49 final size:50
Alignment explanation
Indices: 4886011--4886164 Score: 208
Period size: 49 Copynumber: 3.1 Consensus size: 50
4886001 TTAAAACCCC
4886011 ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAACTTTTCTTTAAAAAT
1 ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAACTTTTCTTTAAAAAT
* *
4886061 ATTTTTTTTTATTTAA-AAAAATTGATACTTTCAACTTTT-TCTT-AAAAT
1 ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAACTTTTCT-TTAAAAAT
* * * * *
4886109 -CTTTTTTTTATTTAAGGAAAACTAATACTTTTAACTTTTCCTTAAAAAT
1 ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAACTTTTCTTTAAAAAT
4886158 ATTTTTT
1 ATTTTTT
4886165 CTGAAATACA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
47 14 0.16
48 27 0.30
49 28 0.31
50 21 0.23
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (50 bp):
ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAACTTTTCTTTAAAAAT
Found at i:4886108 original size:48 final size:50
Alignment explanation
Indices: 4886011--4886164 Score: 208
Period size: 48 Copynumber: 3.1 Consensus size: 50
4886001 TTAAAACCCC
4886011 ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAAC-TTTTCTTTAAAAAT
1 ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAACTTTTTC-TTAAAAAT
* *
4886061 ATTTTTTTTTATTTAA-AAAAATTGATACTTTCAACTTTTTCTT-AAAAT
1 ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAACTTTTTCTTAAAAAT
* * * * *
4886109 -CTTTTTTTTATTTAAGGAAAACTAATACTTTTAACTTTTCCTTAAAAAT
1 ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAACTTTTTCTTAAAAAT
4886158 ATTTTTT
1 ATTTTTT
4886165 CTGAAATACA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
47 14 0.15
48 27 0.30
49 24 0.26
50 26 0.29
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (50 bp):
ATTTTTTTTTATTTAAGAAAAATTAATACTTTAAACTTTTTCTTAAAAAT
Found at i:4886437 original size:61 final size:60
Alignment explanation
Indices: 4886368--4886656 Score: 260
Period size: 63 Copynumber: 4.7 Consensus size: 60
4886358 TATTTGCAAG
* * *
4886368 AAAAATTAATACTTTCGACTTTTTTTCAAAAAAATATTTTTTTTGAAAATTTTATCTTAAA
1 AAAAATTAATACTTTCAACTTTTCTTCAAAAAAATATTTTTTTT-AAAATTTTATTTTAAA
* * * *
4886429 AAAAATTAATACTTTCAACTTTTATT-AAAAAGATATATTTTTTAAAATTTTTATTTTTTAA
1 AAAAATTAATACTTTCAACTTTTCTTCAAAAAAATATTTTTTTTAAAA-TTTTA-TTTTAAA
* * * * * *
4886490 GAAAATTGATATTTTCAACTTTTCATCAAAAAAATATATTTTTTTAAATATTTATTTTTTAAG
1 AAAAATTAATACTTTCAACTTTTCTTCAAAAAAATAT-TTTTTTTAAA-ATTT-TATTTTAAA
* * * **
4886553 AAAAATTGATACTTTCAACTTTTCCTCAAAAAATTATTTTTTTTGAAGTTTTTATTTTTTTTAAA
1 AAAAATTAATACTTTCAACTTTTCTTCAAAAAAATATTTTTTTT-AAAATTTTA----TTTTAAA
* * * *
4886618 GAAAATTGATACTTTTAACTTTTCCTC--AAAAATATTTTT
1 AAAAATTAATACTTTCAACTTTTCTTCAAAAAAATATTTTT
4886657 AAAATTTTTT
Statistics
Matches: 190, Mismatches: 27, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
59 4 0.02
60 20 0.11
61 51 0.27
62 19 0.10
63 63 0.33
64 2 0.01
65 31 0.16
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (60 bp):
AAAAATTAATACTTTCAACTTTTCTTCAAAAAAATATTTTTTTTAAAATTTTATTTTAAA
Found at i:4888328 original size:86 final size:85
Alignment explanation
Indices: 4888159--4888555 Score: 338
Period size: 86 Copynumber: 4.7 Consensus size: 85
4888149 AGCGAGAGTT
* * * * * * * * *
4888159 TAAAAACTAAATGACCTGGATCGAATTGAAGTCTGAAATGAATAACTTGGACTAAGTCAAATAAG
1 TAAAAACAAAATGACTTGGATCGAACTAAAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAAA
* ** *
4888224 GATTTGGTATAGGATAAAATT
66 GATCTGACATA-GATAAAATC
* * * * * *
4888245 TGAAAATAAAATGACTTGGATCAAACTGAAGTCTAAAATAAATAACTTAGACTAAGTCAAAGAAA
1 TAAAAACAAAATGACTTGGATCGAACTAAAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAAA
4888310 GATCTGACATAGATTAAAATC
66 GATCTGACATAGA-TAAAATC
* * * * *
4888331 TAAAAACAAAATTACTTAGATCGAATTTAAGTCT---A-AAATAACTTAGACTAAGCCAAAG-AA
1 TAAAAACAAAATGACTTGGATCGAACTAAAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAAA
* *
4888391 GAATTTGACATAGACCAAAATC
66 G-ATCTGACATAGA-TAAAATC
* * * * * * * *
4888413 TAAAAAAAAAATGACCTGAATTGAACCAAAGTTTAAAATGAATAATTTGGACTAAGCCAAAGAAA
1 TAAAAACAAAATGACTTGGATCGAACTAAAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAAA
*
4888478 GATCT-ATCATAGAAAGAAATC
66 GATCTGA-CATAGATA-AAATC
* * * * *
4888499 CAAAAACAAAATGACTTGAATTGAACCAAAGTCTCAAATAAATAACTTGGACTAAGC
1 TAAAAACAAAATGACTTGGATCGAACTAAAGTCTAAAATAAATAACTTGGACTAAGC
4888556 TAAAAAAATC
Statistics
Matches: 254, Mismatches: 48, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
81 3 0.01
82 63 0.25
83 1 0.00
85 5 0.02
86 179 0.70
87 3 0.01
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (85 bp):
TAAAAACAAAATGACTTGGATCGAACTAAAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAAA
GATCTGACATAGATAAAATC
Found at i:4888450 original size:82 final size:81
Alignment explanation
Indices: 4888284--4888539 Score: 248
Period size: 82 Copynumber: 3.1 Consensus size: 81
4888274 AGTCTAAAAT
* * * *
4888284 AAATAACTTAGACTAAGTCAAAGAAAGATCTGACATAGATTAAAATCTAAAAACAAAATTA-CTT
1 AAATAACTTAGACTAAGCCAAAGAAAGATCTGACATAGA-AAAAATCTAAAAACAAAATGACCTG
* ***
4888348 AGATCGAATTTAAGTCTA
65 A-ATTGAACCAAAGTCTA
* * *
4888366 AAATAACTTAGACTAAGCCAAAG-AAGAATTTGACATAGACCAAAATCTAAAAAAAAAATGACCT
1 AAATAACTTAGACTAAGCCAAAGAAAG-ATCTGACATAGA-AAAAATCTAAAAACAAAATGACCT
*
4888430 GAATTGAACCAAAGTTTAAA
64 GAATTGAACCAAAGTCT--A
* * *
4888450 ATGAATAATTTGGACTAAGCCAAAGAAAGATCT-ATCATAGAAAGAAATCCAAAAACAAAATGAC
1 A--AATAACTTAGACTAAGCCAAAGAAAGATCTGA-CATAGAAA-AAATCTAAAAACAAAATGAC
* *
4888514 TTGAATTGAACCAAAGTCTC
62 CTGAATTGAACCAAAGTCTA
4888534 AAATAA
1 AAATAA
4888540 ATAACTTGGA
Statistics
Matches: 144, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
81 3 0.02
82 66 0.46
83 3 0.02
84 3 0.02
85 2 0.01
86 64 0.44
87 3 0.02
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.23
Consensus pattern (81 bp):
AAATAACTTAGACTAAGCCAAAGAAAGATCTGACATAGAAAAAATCTAAAAACAAAATGACCTGA
ATTGAACCAAAGTCTA
Found at i:4888612 original size:84 final size:84
Alignment explanation
Indices: 4888187--4888614 Score: 250
Period size: 86 Copynumber: 5.0 Consensus size: 84
4888177 GATCGAATTG
* * * * * * * * * ** *
4888187 AAGTCTGAAATGAATAACTTGGACTAAGTCAAATAAGGATTTGGTATAGGATAAAATTTGAAAAT
1 AAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAA-AATCTAGCATAGGACAAAATTCAAAAAA
* ** **
4888252 AAAATGACTTGGATCAAACTG
65 AAAATGAC-TGAATTGAACCA
* * *
4888273 AAGTCTAAAATAAATAACTTAGACTAAGTCAAAGAAAGATCT-GACATA-GATTAAAA-TCTAAA
1 AAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAAA-ATCTAG-CATAGGA-CAAAATTC-AAA
* * * * ***
4888335 AACAAAATTACTTAGATCGAATTT
62 AAAAAAATGACTGA-ATTGAACCA
* *
4888359 AAGTCT---A-AAATAACTTAGACTAAGCCAAAGAAGAAT-TTGACATA-GACCAAAA-TCTAAA
1 AAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAA-AATCTAG-CATAGGA-CAAAATTC-AAA
4888417 AAAAAAATGACCTGAATTGAACCA
62 AAAAAAATGA-CTGAATTGAACCA
* * * * * *
4888441 AAGTTTAAAATGAATAATTTGGACTAAGCCAAAGAAAGATCTATCATA-GAAAGAAATCCAAAAA
1 AAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAAA-ATCTAGCATAGGACA-AAATTCAAAAA
*
4888505 CAAAATGACTTGAATTGAACCA
64 AAAAATGAC-TGAATTGAACCA
* * * *
4888527 AAGTCTCAAATAAATAACTTGGACTAAGCTAAA-AAAATCTAGCATAGGTCAAAATTCAAAAATA
1 AAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAAAATCTAGCATAGGACAAAATTCAAAAAAA
* *
4888591 AAATAAGCTGGATTGAACCA
66 AAATGA-CTGAATTGAACCA
4888611 AAGT
1 AAGT
4888615 ATGAGAGTAA
Statistics
Matches: 276, Mismatches: 47, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
81 1 0.00
82 62 0.22
83 5 0.02
84 40 0.14
85 15 0.05
86 151 0.55
87 2 0.01
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (84 bp):
AAGTCTAAAATAAATAACTTGGACTAAGCCAAAGAAAATCTAGCATAGGACAAAATTCAAAAAAA
AAATGACTGAATTGAACCA
Found at i:4900313 original size:48 final size:48
Alignment explanation
Indices: 4900210--4900344 Score: 171
Period size: 48 Copynumber: 2.8 Consensus size: 48
4900200 ATTTTCTATT
* * * * * *
4900210 AAAAATTAATACTTTCAAATTCTCCTTAAAACCCTTTTTTTTATTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTTAAAA-ACATTTTTTTATTTAAA
* * * *
4900259 AAAAATTGATATTTTTAACTTTTCTTTAAAAATATTTTTTTATTTAAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAACATTTTTTTATTTAAA
4900307 AAAAATTGATACTTTCAACTTTTCCTTAAAAACATTTT
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAACATTTT
4900345 AAAAATATAT
Statistics
Matches: 72, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
48 47 0.65
49 25 0.35
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (48 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAAACATTTTTTTATTTAAA
Found at i:4900490 original size:15 final size:15
Alignment explanation
Indices: 4900453--4900495 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
4900443 TACTTTCAAC
*
4900453 TTTTTTTTAAAAACG
1 TTTTTTTTAAAAACA
*
4900468 TTTCTTTTTAAATACA
1 TTT-TTTTTAAAAACA
4900484 -TTTTTTTAAAAA
1 TTTTTTTTAAAAA
4900496 TTTTATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.38
15 5 0.21
16 10 0.42
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (15 bp):
TTTTTTTTAAAAACA
Found at i:4900549 original size:60 final size:59
Alignment explanation
Indices: 4900485--4900881 Score: 271
Period size: 60 Copynumber: 6.7 Consensus size: 59
4900475 TTAAATACAT
* * **
4900485 TTTTTTAAAAATTTTATTTTCTAATG-AAAATTGATACTTTAAACTTTTTCTTAAATGTA
1 TTTTTTAAAAATTTTATTTTCTAA-GAAAAATTGATATTTTCAACTTTTTCTTAAAAATA
** * * * *
4900544 GTTTTTT-TTAATTTTTTATTTCTAAGAAAATTTTATATTTTCAA-TTTTTCCCTAAAAAAATA
1 -TTTTTTAAAAATTTTAT-TTTCTAAGAAAAATTGATATTTTCAACTTTTT--CT-TAAAAATA
* * * * *
4900606 TTTTTTGAAATTTTTATTTT-TAAGAAAAATTAATACTTTCGAC-TTTTCTTCAAAAAAATA
1 TTTTTTAAAAATTTTATTTTCTAAGAAAAATTGATATTTTCAACTTTTTCTT---AAAAATA
* * * *
4900666 TTTTTTTGAAAATTTTATCTTC-AAG-GAAA--GATATTTTCAACTTTTTCTTAAAAAGA
1 -TTTTTTAAAAATTTTATTTTCTAAGAAAAATTGATATTTTCAACTTTTTCTTAAAAATA
* * * *
4900722 TTTTTTTAAAAATTTTATTTTTTGAGAAAAATTGATATTTTTAACTTTTTCTCCAAAAATTA
1 -TTTTTTAAAAATTTTATTTTCTAAGAAAAATTGATATTTTCAACTTTTTCT-TAAAAA-TA
* *** * *
4900784 TTTTTTAAAAATTTTTATTTTTTAAGAAAAATTGATGCATTCAAC-TTTTCCTCAAAATCA
1 TTTTTTAAAAA-TTTTATTTTCTAAGAAAAATTGATATTTTCAACTTTTTCTTAAAAAT-A
* *
4900844 -TTTTTAAAATTTTTTACTTTT-T-AGGAAAATTGATATTT
1 TTTTTTAAAA-ATTTTA-TTTTCTAAGAAAAATTGATATTT
4900882 CAATCCTTCC
Statistics
Matches: 267, Mismatches: 47, Indels: 48
0.74 0.13 0.13
Matches are distributed among these distances:
56 25 0.09
57 2 0.01
58 26 0.10
59 36 0.13
60 85 0.32
61 53 0.20
62 40 0.15
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.51
Consensus pattern (59 bp):
TTTTTTAAAAATTTTATTTTCTAAGAAAAATTGATATTTTCAACTTTTTCTTAAAAATA
Found at i:4900737 original size:118 final size:117
Alignment explanation
Indices: 4900578--4900798 Score: 270
Period size: 118 Copynumber: 1.9 Consensus size: 117
4900568 AGAAAATTTT
*
4900578 ATATTTTCAATTTTTCCCTAAAAAAATATTTTTTGAAATTTT-TATTTTTAAGAAAAATTAATAC
1 ATATTTTCAATTTTTCCCTAAAAAAATATTTTTTAAAATTTTAT-TTTTTAAGAAAAATTAATAC
* *
4900642 TTTCGAC-TTTTCTTCAAAAAAATATTTTTTTGAAAATTTTATCTTCAAGGAAAG
65 TTTCAACTTTTTC-TCAAAAAAATA-TTTTTTAAAAATTTTATCTTCAAGGAAAG
* * * *
4900696 ATATTTTCAACTTTTT-CTTAAAAAGAT-TTTTTTAAAAATTTTATTTTTTGAGAAAAATTGATA
1 ATATTTTCAA-TTTTTCCCTAAAAAAATATTTTTT-AAAATTTTATTTTTTAAGAAAAATTAATA
* * * *
4900759 TTTTTAACTTTTTCTCCAAAAATTATTTTTTAAAAATTTT
64 CTTTCAACTTTTTCTCAAAAAAATATTTTTTAAAAATTTT
4900799 TATTTTTTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
117 20 0.23
118 57 0.65
119 11 0.12
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (117 bp):
ATATTTTCAATTTTTCCCTAAAAAAATATTTTTTAAAATTTTATTTTTTAAGAAAAATTAATACT
TTCAACTTTTTCTCAAAAAAATATTTTTTAAAAATTTTATCTTCAAGGAAAG
Found at i:4900907 original size:59 final size:58
Alignment explanation
Indices: 4900723--4900916 Score: 130
Period size: 59 Copynumber: 3.3 Consensus size: 58
4900713 TTAAAAAGAT
* * * * * *
4900723 TTTTTTAAAA-ATTTTATTTTTTGAGAAAAATTGAT-ATTTTTAACTTTTTCTCCAAAAATTA
1 TTTTTTAAAATTTTTTACTTTTTAAGAAAAATTGATCA--TTCAACTCTTCCT-C-AAAA-TA
* * *
4900784 TTTTTTAAAAATTTTTATTTTTTAAGAAAAATTGATGCATTCAACTTTTCCTCAAAATCA
1 TTTTTTAAAATTTTTTACTTTTTAAGAAAAATTGAT-CATTCAACTCTTCCTCAAAAT-A
* *
4900844 -TTTTTAAAATTTTTTACTTTTT-AGGAAAATTGAT-ATTTCAA-TCCTTCCTAAGAAAATA
1 TTTTTTAAAATTTTTTACTTTTTAAGAAAAATTGATCA-TTCAACT-CTTCCT--CAAAATA
**
4900902 TTTTTTTGAATTTTT
1 TTTTTTAAAATTTTT
4900917 ATTTCCTTCA
Statistics
Matches: 113, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
56 2 0.02
57 10 0.09
58 12 0.11
59 38 0.34
60 5 0.04
61 11 0.10
62 34 0.30
64 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.51
Consensus pattern (58 bp):
TTTTTTAAAATTTTTTACTTTTTAAGAAAAATTGATCATTCAACTCTTCCTCAAAATA
Found at i:4903826 original size:6 final size:6
Alignment explanation
Indices: 4903815--4903839 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4903805 TATTCCCCGG
4903815 CCCTTT CCCTTT CCCTTT CCCTTT C
1 CCCTTT CCCTTT CCCTTT CCCTTT C
4903840 AAATTAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
CCCTTT
Found at i:4905953 original size:16 final size:16
Alignment explanation
Indices: 4905932--4905969 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
4905922 ATATATAGTT
4905932 AGTATCTGAGTTTTTC
1 AGTATCTGAGTTTTTC
4905948 AGTATCTGAGTTTTTC
1 AGTATCTGAGTTTTTC
4905964 AGTATC
1 AGTATC
4905970 AGTTACATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.47
Consensus pattern (16 bp):
AGTATCTGAGTTTTTC
Found at i:4910465 original size:13 final size:13
Alignment explanation
Indices: 4910433--4910469 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4910423 GTGGAAGTTG
*
4910433 AATTTTT-TATTT
1 AATTTTTGTAATT
4910445 AA-TTTTGTAATT
1 AATTTTTGTAATT
4910457 AATTTTTGTAATT
1 AATTTTTGTAATT
4910470 TTTTTAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 4 0.18
12 8 0.36
13 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (13 bp):
AATTTTTGTAATT
Found at i:4914543 original size:2 final size:2
Alignment explanation
Indices: 4914536--4914570 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4914526 TACCAGTTTC
*
4914536 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4914571 GGTCAAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:4917021 original size:23 final size:24
Alignment explanation
Indices: 4916980--4917024 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
4916970 AACGAAAAAA
4916980 AATTTGTTAAATAAGTTTAAATAT
1 AATTTGTTAAATAAGTTTAAATAT
* *
4917004 AATTT-TTAGATATGTTTAAAT
1 AATTTGTTAAATAAGTTTAAAT
4917025 TTTAAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (24 bp):
AATTTGTTAAATAAGTTTAAATAT
Found at i:4918184 original size:19 final size:20
Alignment explanation
Indices: 4918156--4918198 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
4918146 CAAAAATCAG
*
4918156 TTAATTAAATTTAA-TCAAA
1 TTAATAAAATTTAACTCAAA
4918175 TTAATAAAATTTAACTCAAA
1 TTAATAAAATTTAACTCAAA
4918195 TTAA
1 TTAA
4918199 AATTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAATAAAATTTAACTCAAA
Found at i:4926961 original size:9 final size:9
Alignment explanation
Indices: 4926925--4926964 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
4926915 GGATGAAGAG
*
4926925 GATGATGAT
1 GATGACGAT
4926934 GATGACGAT
1 GATGACGAT
*
4926943 GATGATGAT
1 GATGACGAT
*
4926952 GATGGCGAT
1 GATGACGAT
4926961 GATG
1 GATG
4926965 TTATATCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.30, C:0.05, G:0.38, T:0.28
Consensus pattern (9 bp):
GATGACGAT
Found at i:4926964 original size:3 final size:3
Alignment explanation
Indices: 4926925--4926955 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
4926915 GGATGAAGAG
*
4926925 GAT GAT GAT GAT GAC GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
4926956 GCGATGATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:4931893 original size:13 final size:13
Alignment explanation
Indices: 4931874--4931913 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
4931864 ATTTACTTAA
4931874 ATATATTAAAATT
1 ATATATTAAAATT
* *
4931887 TTATATTAAAATA
1 ATATATTAAAATT
*
4931900 ATATATAAAAATT
1 ATATATTAAAATT
4931913 A
1 A
4931914 AAAACCAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:4939711 original size:102 final size:102
Alignment explanation
Indices: 4939532--4939736 Score: 365
Period size: 102 Copynumber: 2.0 Consensus size: 102
4939522 TGTTTGTATA
4939532 TCCTTGTAAACTGAATTATCAATAGACTTAACTATCTACTATGGTCAATGTCTTGGAACTTAGAC
1 TCCTTGTAAACTGAATTATCAATAGACTTAACTATCTACTATGGTCAATGTCTTGGAACTTAGAC
* *
4939597 AACCGTTTGTCTTCTGTAATAACTTTTTGATGATTTT
66 AACCGTTGGTCTTCCGTAATAACTTTTTGATGATTTT
* *
4939634 TCCTTGTGAACTGAATTATCAATAGACTTAACTGTCTACTATGGTCAATGTCTTGGAACTTAGAC
1 TCCTTGTAAACTGAATTATCAATAGACTTAACTATCTACTATGGTCAATGTCTTGGAACTTAGAC
*
4939699 AACTGTTGGTCTTCCGTAATAACTTTTTGATGATTTT
66 AACCGTTGGTCTTCCGTAATAACTTTTTGATGATTTT
4939736 T
1 T
4939737 TATTTATCAT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 98 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (102 bp):
TCCTTGTAAACTGAATTATCAATAGACTTAACTATCTACTATGGTCAATGTCTTGGAACTTAGAC
AACCGTTGGTCTTCCGTAATAACTTTTTGATGATTTT
Found at i:4949234 original size:19 final size:16
Alignment explanation
Indices: 4949195--4949227 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4949185 AACGATTTGA
4949195 ATGATAATGATGATTT
1 ATGATAATGATGATTT
4949211 ATGATAATGATGATTT
1 ATGATAATGATGATTT
4949227 A
1 A
4949228 CGATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:4971917 original size:3 final size:3
Alignment explanation
Indices: 4971909--4971943 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
4971899 TATTTCAGCA
4971909 TCT TCT TCT TCT TCT TCT TCT T-T CTCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT TC
4971944 CATGGCTACC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.03
3 28 0.93
4 1 0.03
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:4976057 original size:3 final size:3
Alignment explanation
Indices: 4976049--4976084 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4976039 TATTAGGACA
4976049 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4976085 GTTGATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4976301 original size:28 final size:28
Alignment explanation
Indices: 4976261--4976337 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
4976251 CCATAAACAA
* *
4976261 AAACTACTAACACACACCTAACTT-TCAT
1 AAACCACTAACACACATCTAACTTCT-AT
4976289 AAACCACTAACACACATCTAACTTCTAT
1 AAACCACTAACACACATCTAACTTCTAT
4976317 AAACCACTAACACACATCTAA
1 AAACCACTAACACACATCTAA
4976338 TTATTCATCA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 45 0.98
29 1 0.02
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.22
Consensus pattern (28 bp):
AAACCACTAACACACATCTAACTTCTAT
Found at i:4977089 original size:21 final size:21
Alignment explanation
Indices: 4977064--4977103 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4977054 CCAATCAAAC
*
4977064 TTTTGTACTGA-CTTTCATCAA
1 TTTTGT-CTGATCTATCATCAA
4977085 TTTTGTCTGATCTATCATC
1 TTTTGTCTGATCTATCATC
4977104 CTTGCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (21 bp):
TTTTGTCTGATCTATCATCAA
Found at i:4980638 original size:28 final size:28
Alignment explanation
Indices: 4980600--4980676 Score: 154
Period size: 28 Copynumber: 2.8 Consensus size: 28
4980590 CCATAAACAA
4980600 AAACCACTAACACACATCTAACTTCCAC
1 AAACCACTAACACACATCTAACTTCCAC
4980628 AAACCACTAACACACATCTAACTTCCAC
1 AAACCACTAACACACATCTAACTTCCAC
4980656 AAACCACTAACACACATCTAA
1 AAACCACTAACACACATCTAA
4980677 TTATTCATCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (28 bp):
AAACCACTAACACACATCTAACTTCCAC
Found at i:4990572 original size:17 final size:15
Alignment explanation
Indices: 4990528--4990563 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4990518 AAAAGGAACA
**
4990528 CAAAATATTCTTACC
1 CAAAATATTAATACC
4990543 CAAAATATTAATACC
1 CAAAATATTAATACC
4990558 CAAAAT
1 CAAAAT
4990564 CCATTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (15 bp):
CAAAATATTAATACC
Found at i:5014903 original size:19 final size:19
Alignment explanation
Indices: 5014868--5014904 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5014858 AAAAAGATGG
* *
5014868 AGAAAAAGGTTTGTGATTA
1 AGAAAAAGGTATATGATTA
5014887 AGAAAAAGGTATATGATT
1 AGAAAAAGGTATATGATT
5014905 TATACGTATC
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:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (19 bp):
AGAAAAAGGTATATGATTA
Found at i:5015538 original size:27 final size:27
Alignment explanation
Indices: 5015500--5015556 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
5015490 AGAGATTTCA
*
5015500 AGATTTGAGATATGATATTTCATCATG
1 AGATTTGAGATACGATATTTCATCATG
5015527 AGATTTGAGATACGATATTTCATCATG
1 AGATTTGAGATACGATATTTCATCATG
5015554 AGA
1 AGA
5015557 AGTTTTTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
AGATTTGAGATACGATATTTCATCATG
Found at i:5031907 original size:2 final size:2
Alignment explanation
Indices: 5031895--5031934 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
5031885 TTAAATTTAG
*
5031895 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT -T AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
5031935 TCACACATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:5046899 original size:16 final size:16
Alignment explanation
Indices: 5046878--5046930 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
5046868 TGATAAATAA
*
5046878 ATGATAATGATGATTT
1 ATGATAATAATGATTT
5046894 ATGATAATAATGATTT
1 ATGATAATAATGATTT
*
5046910 ATAATAATAATGATTT
1 ATGATAATAATGATTT
5046926 ATGAT
1 ATGAT
5046931 GATTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (16 bp):
ATGATAATAATGATTT
Found at i:5046944 original size:23 final size:26
Alignment explanation
Indices: 5046903--5046953 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 26
5046893 TATGATAATA
*
5046903 ATGATTTATAATAATAATGATTTATG
1 ATGATTTATAATAATAATGATTCATG
5046929 ATGATTT-TAA-AA-AATGATTCATG
1 ATGATTTATAATAATAATGATTCATG
5046952 AT
1 AT
5046954 TTGTATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 12 0.50
24 2 0.08
25 3 0.12
26 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (26 bp):
ATGATTTATAATAATAATGATTCATG
Found at i:5047641 original size:16 final size:16
Alignment explanation
Indices: 5047620--5047652 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5047610 CTAAAGAATT
5047620 CATCTAGCTGACTCAA
1 CATCTAGCTGACTCAA
5047636 CATCTAGCTGACTCAA
1 CATCTAGCTGACTCAA
5047652 C
1 C
5047653 CAAGATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.24
Consensus pattern (16 bp):
CATCTAGCTGACTCAA
Found at i:5052134 original size:3 final size:3
Alignment explanation
Indices: 5052126--5052151 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5052116 AGTGGGTTTT
5052126 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
5052152 TGTTTATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5052517 original size:15 final size:15
Alignment explanation
Indices: 5052480--5052518 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
5052470 TATCTTTGAC
*
5052480 CTCATTAATTAATTA
1 CTCATTTATTAATTA
5052495 CTCATTTATTAATTA
1 CTCATTTATTAATTA
*
5052510 CTCGTTTAT
1 CTCATTTAT
5052519 GATGAAAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (15 bp):
CTCATTTATTAATTA
Found at i:5053022 original size:2 final size:2
Alignment explanation
Indices: 5053017--5053041 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5053007 ACACACACAC
5053017 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
5053042 GCCCACTCCT
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:5053804 original size:34 final size:33
Alignment explanation
Indices: 5053730--5053814 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 33
5053720 TATAAATTTG
*
5053730 AAAACTTTTAAAAATTTTTAGATTTGTATTCCA
1 AAAACTTTTAAAAATTTTTAGATTTATATTCCA
*
5053763 AAAACTTTTAAAAGTTTTT-GTATTTACATATT-CA
1 AAAACTTTTAAAAATTTTTAG-ATTT--ATATTCCA
*
5053797 AAAACTTTTAAATATTTT
1 AAAACTTTTAAAAATTTT
5053815 AAAATTTGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
32 1 0.02
33 22 0.49
34 18 0.40
35 4 0.09
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (33 bp):
AAAACTTTTAAAAATTTTTAGATTTATATTCCA
Found at i:5053827 original size:34 final size:34
Alignment explanation
Indices: 5053730--5053828 Score: 105
Period size: 34 Copynumber: 2.9 Consensus size: 34
5053720 TATAAATTTG
*
5053730 AAAACTTTTAAAAATTTTTAGATTTG--TATTCCA
1 AAAACTTTT-AAAATTTTTAAATTTGCATATTCCA
** *
5053763 AAAACTTTTAAAAGTTTTTGTATTTACATATT-CA
1 AAAACTTTTAAAA-TTTTTAAATTTGCATATTCCA
*
5053797 AAAACTTTTAAATATTTTAAAATTTGCATATT
1 AAAACTTTTAAA-ATTTTTAAATTTGCATATT
5053829 TGGAAGCTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
32 4 0.07
33 18 0.33
34 28 0.51
35 5 0.09
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.46
Consensus pattern (34 bp):
AAAACTTTTAAAATTTTTAAATTTGCATATTCCA
Found at i:5056019 original size:20 final size:17
Alignment explanation
Indices: 5055979--5056015 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
5055969 TTATTCATTA
5055979 AATTCAATATATAATAT
1 AATTCAATATATAATAT
5055996 AATTCAA-ATATATATAT
1 AATTCAATATATA-ATAT
5056013 AAT
1 AAT
5056016 AATTGACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTCAATATATAATAT
Found at i:5057352 original size:27 final size:29
Alignment explanation
Indices: 5057322--5057380 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
5057312 TATTGATTTT
*
5057322 TTATATATAAT-AAT-TTTTATCA-ATAAA
1 TTATAT-TAATAAATGTTTTATCACAAAAA
5057349 TTATATTAATAAATGTTTTATCACAAAAA
1 TTATATTAATAAATGTTTTATCACAAAAA
5057378 TTA
1 TTA
5057381 ATCTTATATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 4 0.14
27 9 0.32
28 8 0.29
29 7 0.25
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (29 bp):
TTATATTAATAAATGTTTTATCACAAAAA
Found at i:5057564 original size:89 final size:89
Alignment explanation
Indices: 5057413--5057593 Score: 353
Period size: 89 Copynumber: 2.0 Consensus size: 89
5057403 TTATGGGTGA
5057413 TATCTTGATTTCTGATAATGAAATCCCTATTAATGGACATATAGACGACACATAGGTTTTGAAAT
1 TATCTTGATTTCTGATAATGAAATCCCTATTAATGGACATATAGACGACACATAGGTTTTGAAAT
5057478 TTCTTGTCATTAACTTAGAATTCT
66 TTCTTGTCATTAACTTAGAATTCT
*
5057502 TATCTTGATTTCTGATAATGAAATCCCTATTAATGGACATATAGACGGCACATAGGTTTTGAAAT
1 TATCTTGATTTCTGATAATGAAATCCCTATTAATGGACATATAGACGACACATAGGTTTTGAAAT
5057567 TTCTTGTCATTAACTTAGAATTCT
66 TTCTTGTCATTAACTTAGAATTCT
5057591 TAT
1 TAT
5057594 TTTTGAATTG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (89 bp):
TATCTTGATTTCTGATAATGAAATCCCTATTAATGGACATATAGACGACACATAGGTTTTGAAAT
TTCTTGTCATTAACTTAGAATTCT
Found at i:5060814 original size:9 final size:9
Alignment explanation
Indices: 5060768--5060806 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
5060758 AAAGATCACT
5060768 TATAAATTA
1 TATAAATTA
5060777 TATAAATTA
1 TATAAATTA
5060786 TATAAATTA
1 TATAAATTA
*
5060795 TATCAA-TA
1 TATAAATTA
5060803 TATA
1 TATA
5060807 TTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (9 bp):
TATAAATTA
Found at i:5061010 original size:2 final size:2
Alignment explanation
Indices: 5061005--5061031 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5060995 CTGAAAAAAG
5061005 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5061032 CAAACTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5076006 original size:136 final size:136
Alignment explanation
Indices: 5075837--5076108 Score: 517
Period size: 136 Copynumber: 2.0 Consensus size: 136
5075827 ATGGCAATGG
* *
5075837 CTAATGTAAGATTGCTTCATTTTTTTTCAAGTTTCATAGTGGAAATGGTTTTCATATAGTATCTT
1 CTAATGTAAGATTGCTTCATTTTTTTGCAAGTTTCATAGTAGAAATGGTTTTCATATAGTATCTT
5075902 TTATTTTATTTTATTTTCATTATTTTATTTAAAATAAAGTTATGGCAAAATGTTTAATTTCTCAT
66 TTATTTTATTTTATTTTCATTATTTTATTTAAAATAAAGTTATGGCAAAATGTTTAATTTCTCAT
5075967 GGTTAA
131 GGTTAA
*
5075973 CTAATGTAAGATTGCTTCATTTTTTTGCAAGTTTCATAGTAGAAATGGTTTTCATATGGTATCTT
1 CTAATGTAAGATTGCTTCATTTTTTTGCAAGTTTCATAGTAGAAATGGTTTTCATATAGTATCTT
5076038 TTATTTTATTTTATTTTCATTATTTTATTTAAAATAAAGTTATGGCAAAATGTTTAATTTCTCAT
66 TTATTTTATTTTATTTTCATTATTTTATTTAAAATAAAGTTATGGCAAAATGTTTAATTTCTCAT
5076103 GGTTAA
131 GGTTAA
5076109 TGTTTATTTT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 133 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.50
Consensus pattern (136 bp):
CTAATGTAAGATTGCTTCATTTTTTTGCAAGTTTCATAGTAGAAATGGTTTTCATATAGTATCTT
TTATTTTATTTTATTTTCATTATTTTATTTAAAATAAAGTTATGGCAAAATGTTTAATTTCTCAT
GGTTAA
Found at i:5084786 original size:2 final size:2
Alignment explanation
Indices: 5084779--5084812 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5084769 CCCCTGCTAG
*
5084779 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5084813 TTTGCTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5090170 original size:13 final size:13
Alignment explanation
Indices: 5090154--5090179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5090144 CATACTTATC
5090154 ATTCATAACATCT
1 ATTCATAACATCT
5090167 ATTCATAACATCT
1 ATTCATAACATCT
5090180 GTAAAAGAAA
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:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTCATAACATCT
Found at i:5090453 original size:16 final size:16
Alignment explanation
Indices: 5090432--5090464 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5090422 AAAATCATCG
5090432 TAAATCATCATTATCA
1 TAAATCATCATTATCA
5090448 TAAATCATCATTATCA
1 TAAATCATCATTATCA
5090464 T
1 T
5090465 TCAAATCGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:5092409 original size:2 final size:2
Alignment explanation
Indices: 5092362--5092389 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5092352 TAATTAGATA
5092362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5092390 TCCAGCTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5100489 original size:19 final size:18
Alignment explanation
Indices: 5100465--5100513 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
5100455 ATTTAATTTT
5100465 ATATTTATATTAAAAAATA
1 ATATTT-TATTAAAAAATA
5100484 ATATTTT-TTATAAAAATA
1 ATATTTTATTA-AAAAATA
5100502 ATATTTTATTAA
1 ATATTTTATTAA
5100514 TTTTTAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.11
18 16 0.57
19 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTTATTAAAAAATA
Found at i:5101624 original size:23 final size:23
Alignment explanation
Indices: 5101577--5101622 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
5101567 AAAAATTATT
5101577 ATTATTATAATTATAATTCAAAA
1 ATTATTATAATTATAATTCAAAA
*
5101600 ATTATTTTAATTATAA-TCAAAA
1 ATTATTATAATTATAATTCAAAA
5101622 A
1 A
5101623 ATAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTATTATAATTATAATTCAAAA
Found at i:5114795 original size:2 final size:2
Alignment explanation
Indices: 5114788--5114815 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5114778 CTATACATAC
5114788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5114816 TCACCTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5120223 original size:7 final size:7
Alignment explanation
Indices: 5120211--5120235 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5120201 ACAAGCACAA
5120211 AAAAAAT
1 AAAAAAT
5120218 AAAAAAT
1 AAAAAAT
5120225 AAAAAAT
1 AAAAAAT
5120232 AAAA
1 AAAA
5120236 TCACAATCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:5120288 original size:192 final size:187
Alignment explanation
Indices: 5119965--5120341 Score: 700
Period size: 192 Copynumber: 2.0 Consensus size: 187
5119955 ACAACCAAGC
5119965 ATCCATAACCCCAAATACCTTAACGAAAACCTAACTACCCATCAAACTACAAGCACAAAAAAAAA
1 ATCCATAACCCCAAATACCTTAACGAAAACCTAACTACCCATCAAACTACAAGCACAAAAAAAAA
5120030 AATAAAAAATAAAATCACAATCCTCGGCTATCAGGCGAGGAACCATCAATGACTAGCCCCTGCAA
66 AATAAAAAATAAAATCACAATCCTCGGCTATCAGGCGAGGAACCATCAATGACTAGCCCCTGCAA
5120095 CAAAAAACAAAAGAAAATCAATTTTAGTTTATATAAAAAAAAAAAAAAAAGGAGACCG
131 CAAAAAACAAAAGAAAATCAATTTTAGTTTATAT-AAAAAAAAAAAAAAAGGAGACCG
5120153 ATCCATAACCCCAAATACCTTAACGAAAACCTAACTACCCATCAAACTACAAGCACAAAAAAAAT
1 ATCCATAACCCCAAATACCTTAACGAAAACCTAACTACCCATCAAACTACAAGCAC---AAAAA-
5120218 AAAAAATAAAAAATAAAATCACAATCCTCGGCTATCAGGCGAGGAACCATCAATGACTAGCCCCT
62 AAAAAATAAAAAATAAAATCACAATCCTCGGCTATCAGGCGAGGAACCATCAATGACTAGCCCCT
*
5120283 GCAACAAAAAACAAAAGAAAATCAATTTTAGTTTATATAAAAAAAAAAAGAAAGGAGAC
127 GCAACAAAAAACAAAAGAAAATCAATTTTAGTTTATATAAAAAAAAAAAAAAAGGAGAC
5120342 TGAAACTTTA
Statistics
Matches: 184, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
188 56 0.30
191 25 0.14
192 103 0.56
ACGTcount: A:0.52, C:0.22, G:0.10, T:0.16
Consensus pattern (187 bp):
ATCCATAACCCCAAATACCTTAACGAAAACCTAACTACCCATCAAACTACAAGCACAAAAAAAAA
AATAAAAAATAAAATCACAATCCTCGGCTATCAGGCGAGGAACCATCAATGACTAGCCCCTGCAA
CAAAAAACAAAAGAAAATCAATTTTAGTTTATATAAAAAAAAAAAAAAAGGAGACCG
Found at i:5120895 original size:21 final size:22
Alignment explanation
Indices: 5120857--5120911 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
5120847 TTTTTGAATT
*
5120857 TTTTTATTTTTTTAAAATATTA
1 TTTTTATTATTTTAAAATATTA
*
5120879 TTTTTATTATTTT-AAATTTTA
1 TTTTTATTATTTTAAAATATTA
* *
5120900 TTATTAATATTT
1 TTTTTATTATTT
5120912 ATGCATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTATTATTTTAAAATATTA
Found at i:5124875 original size:52 final size:52
Alignment explanation
Indices: 5124804--5124902 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
5124794 TAAAAGGATA
** * *
5124804 CAAACTTACCTATTAAGAA-TCTTTTTCCTCTTAGAATTCTTTTTTTACAAGT
1 CAAACTTACCTATTAAGAATTCACTTT-CTCTTAAAATTCTTATTTTACAAGT
5124856 CAAACTTACCTATTAAGAATTCACTTTCTCTTAAAATTCTTATTTTA
1 CAAACTTACCTATTAAGAATTCACTTTCTCTTAAAATTCTTATTTTA
5124903 TAAATCTTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 37 0.88
53 5 0.12
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.45
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATTCACTTTCTCTTAAAATTCTTATTTTACAAGT
Found at i:5126961 original size:53 final size:53
Alignment explanation
Indices: 5126897--5127013 Score: 132
Period size: 53 Copynumber: 2.2 Consensus size: 53
5126887 ATATACACTC
*
5126897 ATACACTCATACCTATGA-GGA-TCATCTCAGACTCCTT-TAGTCCACTCCAACAT
1 ATACACCCATACCTAT-ATGGACT-ATCTCAGACT-CTTGTAGTCCACTCCAACAT
* * * *
5126950 ATACACCCATACCTATATGGACTGTTTCAGTCTTTTGTAGTCCACTCCAACAT
1 ATACACCCATACCTATATGGACTATCTCAGACTCTTGTAGTCCACTCCAACAT
*
5127003 ATACATCCATA
1 ATACACCCATA
5127014 AAGACATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 3 0.05
53 51 0.93
54 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (53 bp):
ATACACCCATACCTATATGGACTATCTCAGACTCTTGTAGTCCACTCCAACAT
Found at i:5128369 original size:88 final size:88
Alignment explanation
Indices: 5128220--5128396 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
5128210 TTATATAAAG
5128220 TAAAAATATTTAATAACTTTTGAAATAAAACAATGGCCAAATTGTTTTATAATCCACAAATTTAA
1 TAAAAATATTTAATAACTTTTGAAATAAAACAATGGCCAAATTGTTTTATAATCCACAAATTTAA
5128285 AATAAGTCAAGAACTATCGTCAT
66 AATAAGTCAAGAACTATCGTCAT
5128308 TAAAAATATTTAATAACTTTTGAAATAAAACAATGGCCAAATTGTTTTATAATCCACAAATTTAA
1 TAAAAATATTTAATAACTTTTGAAATAAAACAATGGCCAAATTGTTTTATAATCCACAAATTTAA
5128373 AATAAGTCAAGAACTATCGTCAT
66 AATAAGTCAAGAACTATCGTCAT
5128396 T
1 T
5128397 GTACGAAATC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.33
Consensus pattern (88 bp):
TAAAAATATTTAATAACTTTTGAAATAAAACAATGGCCAAATTGTTTTATAATCCACAAATTTAA
AATAAGTCAAGAACTATCGTCAT
Found at i:5133792 original size:24 final size:23
Alignment explanation
Indices: 5133765--5133816 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
5133755 TAAAAACTTG
* *
5133765 AAATTAATTATTTTTAAATATATA
1 AAATTAATTA-ATTAAAATATATA
*
5133789 AAATTTAATTAATTAAAATATTTA
1 AAA-TTAATTAATTAAAATATATA
5133813 AAAT
1 AAAT
5133817 AATAAAGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 16 0.67
25 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATTAATTAATTAAAATATATA
Found at i:5147863 original size:3 final size:3
Alignment explanation
Indices: 5147855--5147883 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5147845 CTTAAAAGGT
5147855 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5147884 TATCAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5148138 original size:2 final size:2
Alignment explanation
Indices: 5148131--5148156 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5148121 CCAACTTGAC
5148131 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
5148157 TTTTGTATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5154633 original size:25 final size:25
Alignment explanation
Indices: 5154577--5154625 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5154567 TGTAAAATAT
**
5154577 TAAA-ATT-TATATTATCTTTTATA
1 TAAATATTATATATTATAATTTATA
5154600 TAAATATTATATATTATAATTTATA
1 TAAATATTATATATTATAATTTATA
5154625 T
1 T
5154626 CGATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 3 0.14
25 15 0.68
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
TAAATATTATATATTATAATTTATA
Found at i:5154674 original size:19 final size:21
Alignment explanation
Indices: 5154647--5154693 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
5154637 TATAAAATAT
*
5154647 ATTTTTATAATT-TTATTAAA
1 ATTTATATAATTATTATTAAA
*
5154667 TTTATATATAATTATTATTAAA
1 ATT-TATATAATTATTATTAAA
5154689 ATTTA
1 ATTTA
5154694 AACTATATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 10 0.45
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTATATAATTATTATTAAA
Found at i:5177560 original size:33 final size:32
Alignment explanation
Indices: 5177522--5177590 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
5177512 TTTATATAAA
* * *
5177522 ATATGATACAAATACATAAATTATCAATATTTT
1 ATATGATACAAATACACAAATTACCAA-ATCTT
5177555 ATATGATACAAATACACAAATTACCAAATCTT
1 ATATGATACAAATACACAAATTACCAAATCTT
5177587 ATAT
1 ATAT
5177591 ACAATGCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 8 0.24
33 25 0.76
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (32 bp):
ATATGATACAAATACACAAATTACCAAATCTT
Found at i:5178401 original size:12 final size:13
Alignment explanation
Indices: 5178384--5178412 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5178374 ATCCTCAAAA
5178384 TTTATTTTT-ATT
1 TTTATTTTTCATT
5178396 TTTATTTTTCATT
1 TTTATTTTTCATT
5178409 TTTA
1 TTTA
5178413 AATTTTTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTTCATT
Found at i:5178446 original size:55 final size:54
Alignment explanation
Indices: 5178387--5178515 Score: 135
Period size: 48 Copynumber: 2.4 Consensus size: 54
5178377 CTCAAAATTT
*
5178387 ATTTTTATTTTTATTTTTCATTTTTAAATTTTTCACTATTTGGGTCAATTTAGAA
1 ATTTTTATTTTTATTTTT-ATTTTTAAATTTTTCACCATTTGGGTCAATTTAGAA
* ** *
5178442 A----T-TTTCT-TTTTTATTTTTAAATTTTTCACCATTTTTGTCTATTTAGAA
1 ATTTTTATTTTTATTTTTATTTTTAAATTTTTCACCATTTGGGTCAATTTAGAA
*
5178490 ATTCTTTATTTTATTTTTTTATTTTT
1 ATT-TTTATTTT-TATTTTTATTTTT
5178516 GGAAAGAAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
48 33 0.55
49 5 0.08
50 4 0.07
51 1 0.02
53 1 0.02
54 3 0.05
55 2 0.03
56 11 0.18
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (54 bp):
ATTTTTATTTTTATTTTTATTTTTAAATTTTTCACCATTTGGGTCAATTTAGAA
Found at i:5178515 original size:48 final size:47
Alignment explanation
Indices: 5178393--5178507 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 47
5178383 ATTTATTTTT
*
5178393 ATTTTTATTTTTCATTTTTAAATTTTTCACTATTTGGGTCAATTTAGAA
1 ATTTTTA-TTTT-ATTTTTAAATTTTTCACCATTTGGGTCAATTTAGAA
* ** *
5178442 ATTTTCTTTTTTATTTTTAAATTTTTCACCATTTTTGTCTATTTAGAA
1 ATTTT-TATTTTATTTTTAAATTTTTCACCATTTGGGTCAATTTAGAA
5178490 ATTCTTTATTTTATTTTT
1 ATT-TTTATTTTATTTTT
5178508 TTATTTTTGG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 46 0.79
49 11 0.19
50 1 0.02
ACGTcount: A:0.23, C:0.09, G:0.05, T:0.63
Consensus pattern (47 bp):
ATTTTTATTTTATTTTTAAATTTTTCACCATTTGGGTCAATTTAGAA
Found at i:5178627 original size:27 final size:27
Alignment explanation
Indices: 5178596--5178658 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
5178586 GATAAATTTA
*
5178596 AAGAAATTTCTGTCCTAGAGATTTCTT
1 AAGAAATTTCTCTCCTAGAGATTTCTT
5178623 AAGAAATTTCTCTCCTAGAGATTTCTT
1 AAGAAATTTCTCTCCTAGAGATTTCTT
5178650 AAGAAATTT
1 AAGAAATTT
5178659 ATCATTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (27 bp):
AAGAAATTTCTCTCCTAGAGATTTCTT
Found at i:5178828 original size:24 final size:23
Alignment explanation
Indices: 5178798--5178857 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
5178788 AAATTAAAAA
5178798 AAAAATTTCATCTAAAAATTTCTT
1 AAAAATTTCATCTAAAAATTTC-T
* *
5178822 AGAAATTTACTAT-TTAAAATTTCT
1 AAAAATTT-C-ATCTAAAAATTTCT
5178846 AAAAATTTCATC
1 AAAAATTTCATC
5178858 ATAGGATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.07
23 1 0.03
24 15 0.50
25 10 0.33
26 2 0.07
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAAATTTCATCTAAAAATTTCT
Found at i:5178979 original size:4 final size:4
Alignment explanation
Indices: 5178970--5179011 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
5178960 AATATTTTAA
*
5178970 AAAT AAAT AAACA AAAT AAAT AAAT AAAT AAAAT AAA- AAAT A
1 AAAT AAAT AAA-T AAAT AAAT AAAT AAAT -AAAT AAAT AAAT A
5179012 CTAAAACAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 3 0.09
4 23 0.70
5 7 0.21
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:5178987 original size:13 final size:12
Alignment explanation
Indices: 5178968--5179009 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
5178958 AAAATATTTT
5178968 AAAAATAAATAA
1 AAAAATAAATAA
5178980 ACAAAATAAATAA
1 A-AAAATAAATAA
*
5178993 ATAAATAAAATAA
1 AAAAAT-AAATAA
5179006 AAAA
1 AAAA
5179010 TACTAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAAATAAATAA
Found at i:5178992 original size:17 final size:17
Alignment explanation
Indices: 5178970--5179011 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
5178960 AATATTTTAA
5178970 AAATAAATAAACAAAAT
1 AAATAAATAAACAAAAT
*
5178987 AAATAAATAAATAAAAT
1 AAATAAATAAACAAAAT
5179004 AAA-AAATA
1 AAATAAATA
5179012 CTAAAACAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
AAATAAATAAACAAAAT
Found at i:5179463 original size:17 final size:18
Alignment explanation
Indices: 5179430--5179464 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5179420 GGCCATTCTT
*
5179430 TTTTTTTTTCAATTATCC
1 TTTTTTTTTCAAATATCC
5179448 TTTTTTTTT-AAATATCC
1 TTTTTTTTTCAAATATCC
5179465 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTTTTCAAATATCC
Found at i:5179556 original size:31 final size:30
Alignment explanation
Indices: 5179521--5179583 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
5179511 GATAAACAAC
*
5179521 AAAT-AAACAAGATAAAATAAGTAATAAAATA
1 AAATAAAACAAGAT-AAATAAATAA-AAAATA
* *
5179552 AAATAAAATAAGATCAATAAATAAAAAATA
1 AAATAAAACAAGATAAATAAATAAAAAATA
5179582 AA
1 AA
5179584 TAGATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 8 0.29
31 12 0.43
32 8 0.29
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (30 bp):
AAATAAAACAAGATAAATAAATAAAAAATA
Found at i:5179577 original size:23 final size:22
Alignment explanation
Indices: 5179522--5179601 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
5179512 ATAAACAACA
* *
5179522 AATAAACAAGATAAAATAAG-T
1 AATAAATAAAATAAAATAAGAT
5179543 AATAAAATAAAATAAAATAAGAT
1 AAT-AAATAAAATAAAATAAGAT
*
5179566 CAATAAATAAAAAATAAAT-AGAT
1 -AATAAATAAAATA-AAATAAGAT
5179589 AAATAAAGTAAAA
1 -AATAAA-TAAAA
5179602 ATATAATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.06
22 15 0.30
23 20 0.40
24 12 0.24
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (22 bp):
AATAAATAAAATAAAATAAGAT
Found at i:5180049 original size:13 final size:13
Alignment explanation
Indices: 5180031--5180055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5180021 AAGAAGATGA
5180031 AGAATTTAGAGAG
1 AGAATTTAGAGAG
5180044 AGAATTTAGAGA
1 AGAATTTAGAGA
5180056 AAGTTGGAAC
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:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (13 bp):
AGAATTTAGAGAG
Found at i:5185538 original size:5 final size:5
Alignment explanation
Indices: 5185520--5185579 Score: 76
Period size: 5 Copynumber: 13.0 Consensus size: 5
5185510 AAAATACTTT
*
5185520 TAAAA T-AAA T-AAA TAAAA TAAAA T-AAA T-AAC T-AAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
5185565 TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA
5185580 AATACCAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
4 18 0.35
5 33 0.65
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:5185549 original size:22 final size:23
Alignment explanation
Indices: 5185520--5185578 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 23
5185510 AAAATACTTT
5185520 TAAAATAAATAAATAAAATAAAA
1 TAAAATAAATAAATAAAATAAAA
*
5185543 T-AAATAACTAAATAAAATAAAA
1 TAAAATAAATAAATAAAATAAAA
5185565 TAAAATAAAATAAA
1 TAAAAT-AAATAAA
5185579 AAATACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 21 0.66
23 5 0.16
24 6 0.19
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (23 bp):
TAAAATAAATAAATAAAATAAAA
Found at i:5185582 original size:27 final size:27
Alignment explanation
Indices: 5185526--5185583 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
5185516 CTTTTAAAAT
*
5185526 AAAT-AAATAAAATAAAATAAATAACT
1 AAATAAAATAAAATAAAATAAATAACA
5185552 AAATAAAATAAAATAAAATAAAATAA-A
1 AAATAAAATAAAATAAAAT-AAATAACA
5185579 AAATA
1 AAATA
5185584 CCAAAACAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 4 0.14
27 19 0.66
28 6 0.21
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.21
Consensus pattern (27 bp):
AAATAAAATAAAATAAAATAAATAACA
Found at i:5200399 original size:3 final size:3
Alignment explanation
Indices: 5200391--5200425 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
5200381 CCGATTTCAA
* *
5200391 CCT CCT CCT CCA CCT CCT CGT CCT CCT CCT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CC
5200426 CCGTCTTCTT
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:0.03, C:0.66, G:0.03, T:0.29
Consensus pattern (3 bp):
CCT
Found at i:5210276 original size:12 final size:12
Alignment explanation
Indices: 5210259--5210283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5210249 AAAAATAATA
5210259 TGAAAGTTTTCC
1 TGAAAGTTTTCC
5210271 TGAAAGTTTTCC
1 TGAAAGTTTTCC
5210283 T
1 T
5210284 AATGTCAGTA
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:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TGAAAGTTTTCC
Found at i:5214158 original size:16 final size:16
Alignment explanation
Indices: 5214103--5214148 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
5214093 TTTAATGTCA
* *
5214103 AAAATAAAAAAAATTT
1 AAAATATAAAAATTTT
5214119 -AAA-AT-AAAATTTT
1 AAAATATAAAAATTTT
5214132 AAAATATAAAAATTTT
1 AAAATATAAAAATTTT
5214148 A
1 A
5214149 GATATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 7 0.28
14 4 0.16
15 5 0.20
16 9 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATATAAAAATTTT
Found at i:5221566 original size:27 final size:28
Alignment explanation
Indices: 5221534--5221591 Score: 109
Period size: 27 Copynumber: 2.1 Consensus size: 28
5221524 TTTTAAATTG
5221534 TATCATCTTTGTATTTTATTTTATAT-A
1 TATCATCTTTGTATTTTATTTTATATCA
5221561 TATCATCTTTGTATTTTATTTTATATCA
1 TATCATCTTTGTATTTTATTTTATATCA
5221589 TAT
1 TAT
5221592 TCTTATCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (28 bp):
TATCATCTTTGTATTTTATTTTATATCA
Found at i:5223989 original size:17 final size:17
Alignment explanation
Indices: 5223931--5223989 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
5223921 TTTTGAATAA
*
5223931 AAATTTAAT-AATTATTT
1 AAATTTAATAAAAT-TTT
*
5223948 AAATTT-ATAATATTTT
1 AAATTTAATAAAATTTT
5223964 ATTATATTTAATAAAATTTT
1 A--A-ATTTAATAAAATTTT
5223984 AAATTT
1 AAATTT
5223990 TTTTATTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
16 6 0.18
17 12 0.35
18 2 0.06
19 4 0.12
20 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATTTAATAAAATTTT
Found at i:5223996 original size:25 final size:29
Alignment explanation
Indices: 5223948--5224006 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 29
5223938 ATAATTATTT
*
5223948 AAATTTATAATATTTTATTATATTTAATA
1 AAATTTATAATATTTTATTATATTTAAGA
*
5223977 AAATTT-TAA-ATTTT-TT-TATTTCAGA
1 AAATTTATAATATTTTATTATATTTAAGA
5224002 AAATT
1 AAATT
5224007 AACTCTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 12 0.43
26 2 0.07
27 5 0.18
28 3 0.11
29 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
AAATTTATAATATTTTATTATATTTAAGA
Found at i:5224141 original size:15 final size:15
Alignment explanation
Indices: 5224113--5224150 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
5224103 ATTCAAGTAT
*
5224113 TTTTTTA-TTCTTTA
1 TTTTTTATTTATTTA
5224127 TTTTTTATTTATTTA
1 TTTTTTATTTATTTA
*
5224142 CTTTTTATT
1 TTTTTTATT
5224151 AAATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTATTTA
Found at i:5239671 original size:9 final size:9
Alignment explanation
Indices: 5239645--5239680 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
5239635 TAATATTTAA
5239645 TTATAATAT
1 TTATAATAT
5239654 TTA-AATAT
1 TTATAATAT
5239662 TTATAATAT
1 TTATAATAT
5239671 TT-TAAT-T
1 TTATAATAT
5239678 TTA
1 TTA
5239681 ACATCTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 3 0.12
8 12 0.48
9 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTATAATAT
Found at i:5240058 original size:2 final size:2
Alignment explanation
Indices: 5240051--5240085 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
5240041 GACATAATTC
*
5240051 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5240086 TGCACTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5253757 original size:2 final size:2
Alignment explanation
Indices: 5253750--5253798 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
5253740 TCTCCATATG
5253750 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
5253792 CT CT CT C
1 CT CT CT C
5253799 GCAAATGCAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:5258406 original size:1 final size:1
Alignment explanation
Indices: 5258400--5258424 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
5258390 TTTTAACATT
5258400 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
5258425 CCCACCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5263319 original size:79 final size:78
Alignment explanation
Indices: 5263172--5263339 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 78
5263162 CCGACAAAGG
* * * *
5263172 TAATGCTAATGGCAGTAGTTAGTGGCGACAGCAAACACTCATATATGCACATTTGATAGGTTTCG
1 TAATGCTAATGGCAGTAATTAGTGGCGACAGCAAACAATCATACATGCACATTTGATAGGTTTAG
* *
5263237 ATTTGGTTCAAGC
66 ATTTAGTCCAAGC
* * *
5263250 TGATGCTAATGGCTGTAATTAGTGGCGACAAGGC-AACAATCATACATGCGCATTTGATAGGTTT
1 TAATGCTAATGGCAGTAATTAGTGGCGAC-A-GCAAACAATCATACATGCACATTTGATAGGTTT
*
5263314 AGATTTAGTCCAAGG
64 AGATTTAGTCCAAGC
5263329 TAATGCTAATG
1 TAATGCTAATG
5263340 ATCATAATTA
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
78 26 0.34
79 49 0.64
80 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (78 bp):
TAATGCTAATGGCAGTAATTAGTGGCGACAGCAAACAATCATACATGCACATTTGATAGGTTTAG
ATTTAGTCCAAGC
Found at i:5264549 original size:20 final size:19
Alignment explanation
Indices: 5264526--5264590 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
5264516 CATAAATTAT
5264526 AATATATAATTTTTATATAA
1 AATAT-TAATTTTTATATAA
***
5264546 AATATTATATAAATATATAA
1 AATATTA-ATTTTTATATAA
*
5264566 AATTTTAATATTTTATATGAA
1 AATATTAAT-TTTTATAT-AA
5264587 AATA
1 AATA
5264591 CATACTTTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 4 0.12
20 25 0.74
21 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
AATATTAATTTTTATATAA
Found at i:5264563 original size:13 final size:12
Alignment explanation
Indices: 5264517--5264559 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
5264507 TTATATTAAC
*
5264517 ATAAATTATAAT
1 ATAAATTATTAT
*
5264529 ATATAATTTTTAT
1 ATA-AATTATTAT
*
5264542 ATAAAATATTAT
1 ATAAATTATTAT
5264554 ATAAAT
1 ATAAAT
5264560 ATATAAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAAATTATTAT
Found at i:5266436 original size:15 final size:15
Alignment explanation
Indices: 5266418--5266449 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5266408 AATTTTAATA
5266418 AAATTTATTTATTAT
1 AAATTTATTTATTAT
*
5266433 AAATTTTTTTATTAT
1 AAATTTATTTATTAT
5266448 AA
1 AA
5266450 TTATAATAAT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAATTTATTTATTAT
Found at i:5267485 original size:14 final size:14
Alignment explanation
Indices: 5267468--5267508 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
5267458 ATTATATTTA
5267468 ATAATTTAAAATAT
1 ATAATTTAAAATAT
*
5267482 ATAATTAAAAAT-T
1 ATAATTTAAAATAT
5267495 ATATATTTAAAATA
1 ATA-ATTTAAAATA
5267509 ACCCTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATTTAAAATAT
Found at i:5267499 original size:15 final size:14
Alignment explanation
Indices: 5267468--5267506 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
5267458 ATTATATTTA
*
5267468 ATAATTTAAAATAT
1 ATAATTAAAAATAT
5267482 ATAATTAAAAATTAT
1 ATAATTAAAAA-TAT
*
5267497 ATATTTAAAA
1 ATAATTAAAA
5267507 TAACCCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATTAAAAATAT
Found at i:5268121 original size:2 final size:2
Alignment explanation
Indices: 5268116--5268161 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
5268106 GTGTGTTTGT
5268116 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
5268158 GA GA
1 GA GA
5268162 AGGGGTCGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5272766 original size:27 final size:27
Alignment explanation
Indices: 5272717--5272772 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
5272707 TTGAAATAAA
*
5272717 TTTAAAGAAATTTCTCATCTAAAGATTT
1 TTTAAAGAAATTTATCATCTAAA-ATTT
* *
5272745 TTTAAA-AAATTTATTATTTAAAATTT
1 TTTAAAGAAATTTATCATCTAAAATTT
5272771 TT
1 TT
5272773 AAGATTCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.24
27 13 0.52
28 6 0.24
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (27 bp):
TTTAAAGAAATTTATCATCTAAAATTT
Found at i:5274011 original size:19 final size:20
Alignment explanation
Indices: 5273979--5274017 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
5273969 CAACTCCAAA
*
5273979 TTTCAAGTCCAACTTAAACT
1 TTTCAAGTCCAACTCAAACT
*
5273999 TTTCAA-TCTAACTCAAACT
1 TTTCAAGTCCAACTCAAACT
5274018 CAACCGTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (20 bp):
TTTCAAGTCCAACTCAAACT
Found at i:5274341 original size:43 final size:41
Alignment explanation
Indices: 5274288--5274525 Score: 165
Period size: 44 Copynumber: 5.5 Consensus size: 41
5274278 GGTTTAACAC
5274288 TTTGAAAAATAGAAAAGCTCCTCTTAACAGAGGCTCAACGATT
1 TTTGAAAAATA-AAAAGCTCCTCTTAACAGAGGCTCAACGA-T
* * * * *
5274331 TTTGAAAAATAAAATAAGACT-CTTTTAAGCAGAGACGCAATGAC
1 TTTGAAAAAT-AAA-AAG-CTCCTCTTAA-CAGAGGCTCAACGAT
* *
5274375 TTTGAAAAATAAATAAAGCTCCTC-TAAGCAAAGGCTCAACGAC
1 TTTGAAAAAT-AA-AAAGCTCCTCTTAA-CAGAGGCTCAACGAT
* * * *
5274418 TTTAAAAAATAAATAAGGCTCCTCTAAACAGAAGCTCAACCACT
1 TTTGAAAAATAAA-AA-GCTCCTCTTAACAGAGGCTCAACGA-T
* * * * *
5274462 TTTGAAAAGTAATTAAGGTTCCTCTAAACAAAGGCTCAACGACT
1 TTTGAAAAATAA--AAAGCTCCTCTTAACAGAGGCTCAACGA-T
*
5274506 TTTGAAAAGTAAATAAGCTC
1 TTTGAAAAATAAA-AAGCTC
5274526 ATTTAAGCAA
Statistics
Matches: 157, Mismatches: 25, Indels: 26
0.75 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 5 0.03
43 60 0.38
44 75 0.48
45 15 0.10
46 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (41 bp):
TTTGAAAAATAAAAAGCTCCTCTTAACAGAGGCTCAACGAT
Found at i:5274540 original size:87 final size:87
Alignment explanation
Indices: 5274288--5274695 Score: 332
Period size: 87 Copynumber: 4.7 Consensus size: 87
5274278 GGTTTAACAC
* * * *
5274288 TTTGAAAAATAGAA-AA-GCTCCTCTTAACAGAGGCTCAACGATTTTTGAAAAATAAAATAAGAC
1 TTTGAAAAGTA-AATAAGGCTCCTCTAAACAAAGGCTCAACGACTTTTGAAAAAT-AAATAAG-C
* * * * *
5274351 TCTTTTAAGC-AGAGACGCAATGAC-
63 TCCTCTAAGCAAAAG-CTCAACGACT
* * * *
5274375 TTTGAAAAATAAATAAAGCTCCTCTAAGCAAAGGCTCAACGAC-TTTAAAAAATAAATAAGGCTC
1 TTTGAAAAGTAAATAAGGCTCCTCTAAACAAAGGCTCAACGACTTTTGAAAAATAAATAA-GCTC
* * *
5274439 CTCTAAACAGAAGCTCAACCACT
65 CTCTAAGCAAAAGCTCAACGACT
* * * *
5274462 TTTGAAAAGTAATTAAGGTTCCTCTAAACAAAGGCTCAACGACTTTTGAAAAGTAAATAAGCTCA
1 TTTGAAAAGTAAATAAGGCTCCTCTAAACAAAGGCTCAACGACTTTTGAAAAATAAATAAGCTCC
* * *
5274527 TTTAAGCAAAAGCTTAACAACT
66 TCTAAGCAAAAGCTCAACGACT
* * ** ** * *
5274549 TTTGAAAA-TAAATAAAAGCTTCTCTAAACAGAA-GCTGGATAACTTTTGAAAAACAAATAACCT
1 TTTGAAAAGTAAAT-AAGGCTCCTCTAAACA-AAGGCTCAACGACTTTTGAAAAATAAATAAGCT
* *
5274612 CCTCTAAGCAAAAGCTTAATGACT
64 CCTCTAAGCAAAAGCTCAACGACT
* * * *
5274636 TTTG-AAAGATAAATAA-GCTCATCTAAGCAGAA-GCTTAACAACTTTTGAAAAATAAATAAG
1 TTTGAAAAG-TAAATAAGGCTCCTCTAAACA-AAGGCTCAACGACTTTTGAAAAATAAATAAG
5274696 GTTCCTTTTT
Statistics
Matches: 262, Mismatches: 49, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
86 65 0.25
87 154 0.59
88 43 0.16
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (87 bp):
TTTGAAAAGTAAATAAGGCTCCTCTAAACAAAGGCTCAACGACTTTTGAAAAATAAATAAGCTCC
TCTAAGCAAAAGCTCAACGACT
Found at i:5274615 original size:130 final size:131
Alignment explanation
Indices: 5274300--5274694 Score: 386
Period size: 130 Copynumber: 3.0 Consensus size: 131
5274290 TGAAAAATAG
* * * * * * * * * *
5274300 AAAAGCTCCTCTTAACAGAGGCTCAACGATTTTTGAAAAATAAAATAAGACTCTTTTAAGC-AGA
1 AAAAGCTCCTCTAAACAGAAGCTCAACAACTTTTGAAAAA-CAAATAAGCCTCCTCTAAACAAAA
* * * * * * * **
5274364 GACGCAATGAC-TTTGAAAAATAAATAAAGCTCCTCTAAGCAAAGGCTCAACGACTTTAAAAAAT
65 G-CTCAACGACTTTTGAAAAGTAAAT-AAGCTCATCTAAGCAAAAGCTTAACAACTTTTGAAAAT
5274428 AAAT
128 AAAT
* * ** * ** *
5274432 -AAGGCTCCTCTAAACAGAAGCTCAACCACTTTTGAAAAGTAATTAAGGTTCCTCTAAACAAAGG
1 AAAAGCTCCTCTAAACAGAAGCTCAACAACTTTTGAAAAACAAATAAGCCTCCTCTAAACAAAAG
*
5274496 CTCAACGACTTTTGAAAAGTAAATAAGCTCATTTAAGCAAAAGCTTAACAACTTTTGAAAATAAA
66 CTCAACGACTTTTGAAAAGTAAATAAGCTCATCTAAGCAAAAGCTTAACAACTTTTGAAAATAAA
5274561 T
131 T
* ** * *
5274562 AAAAGCTTCTCTAAACAGAAGCTGGATAACTTTTGAAAAACAAATAA-CCTCCTCTAAGCAAAAG
1 AAAAGCTCCTCTAAACAGAAGCTCAACAACTTTTGAAAAACAAATAAGCCTCCTCTAAACAAAAG
* * *
5274626 CTTAATGACTTTTG-AAAGATAAATAAGCTCATCTAAGCAGAAGCTTAACAACTTTTGAAAAATA
66 CTCAACGACTTTTGAAAAG-TAAATAAGCTCATCTAAGCAAAAGCTTAACAACTTTTG-AAAATA
5274690 AAT
129 AAT
5274693 AA
1 AA
5274695 GGTTCCTTTT
Statistics
Matches: 216, Mismatches: 42, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
129 4 0.02
130 116 0.54
131 96 0.44
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (131 bp):
AAAAGCTCCTCTAAACAGAAGCTCAACAACTTTTGAAAAACAAATAAGCCTCCTCTAAACAAAAG
CTCAACGACTTTTGAAAAGTAAATAAGCTCATCTAAGCAAAAGCTTAACAACTTTTGAAAATAAA
T
Found at i:5274637 original size:43 final size:43
Alignment explanation
Indices: 5274288--5274695 Score: 333
Period size: 43 Copynumber: 9.4 Consensus size: 43
5274278 GGTTTAACAC
* * *
5274288 TTTGAAAAATAGAA-AAGCTCCTCTTAA-CAGAGGCTCAACGATT
1 TTTGAAAAATA-AATAAGCTCCTC-TAAGCAAAAGCTCAACGACT
* * * * *
5274331 TTTGAAAAATAAAATAAGACTCTTTTAAGC-AGAGACGCAATGAC-
1 TTTGAAAAAT-AAATAAG-CTCCTCTAAGCAAAAG-CTCAACGACT
*
5274375 TTTGAAAAATAAATAAAGCTCCTCTAAGCAAAGGCTCAACGAC-
1 TTTGAAAAATAAAT-AAGCTCCTCTAAGCAAAAGCTCAACGACT
* * * *
5274418 TTTAAAAAATAAATAAGGCTCCTCTAAACAGAAGCTCAACCACT
1 TTTGAAAAATAAATAA-GCTCCTCTAAGCAAAAGCTCAACGACT
* * * * *
5274462 TTTGAAAAGTAATTAAGGTTCCTCTAAACAAAGGCTCAACGACT
1 TTTGAAAAATAAATAA-GCTCCTCTAAGCAAAAGCTCAACGACT
* * * * *
5274506 TTTGAAAAGTAAATAAGCTCATTTAAGCAAAAGCTTAACAACT
1 TTTGAAAAATAAATAAGCTCCTCTAAGCAAAAGCTCAACGACT
* * * ** **
5274549 TTTG-AAAATAAATAAAAGCTTCTCTAAACAGAAGCTGGATAACT
1 TTTGAAAAATAAAT--AAGCTCCTCTAAGCAAAAGCTCAACGACT
* * * *
5274593 TTTGAAAAACAAATAACCTCCTCTAAGCAAAAGCTTAATGACT
1 TTTGAAAAATAAATAAGCTCCTCTAAGCAAAAGCTCAACGACT
* * * * *
5274636 TTTGAAAGATAAATAAGCTCATCTAAGCAGAAGCTTAACAACT
1 TTTGAAAAATAAATAAGCTCCTCTAAGCAAAAGCTCAACGACT
5274679 TTTGAAAAATAAATAAG
1 TTTGAAAAATAAATAAG
5274696 GTTCCTTTTT
Statistics
Matches: 294, Mismatches: 59, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
42 10 0.03
43 165 0.56
44 100 0.34
45 19 0.06
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (43 bp):
TTTGAAAAATAAATAAGCTCCTCTAAGCAAAAGCTCAACGACT
Found at i:5277175 original size:49 final size:48
Alignment explanation
Indices: 5277076--5277177 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 48
5277066 ATTTTACAAG
*
5277076 TTTTATTTCTAAATTTTCCACCATTTGAGCCAATTTAAAATTTTTCTT
1 TTTTATTTCTAAATTTTCCACCATTTGAGCCAATGTAAAATTTTTCTT
* * * * *
5277124 TTTTATTTCTAAATTTTTCACCATTTTG-GTCTATGTAGAATTTTTTTT
1 TTTTATTTCTAAATTTTCCACCA-TTTGAGCCAATGTAAAATTTTTCTT
5277172 TTTTAT
1 TTTTAT
5277178 CTTTGGAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 43 0.91
49 4 0.09
ACGTcount: A:0.24, C:0.13, G:0.06, T:0.58
Consensus pattern (48 bp):
TTTTATTTCTAAATTTTCCACCATTTGAGCCAATGTAAAATTTTTCTT
Found at i:5279120 original size:14 final size:13
Alignment explanation
Indices: 5279091--5279135 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
5279081 ATTGTAGTTG
*
5279091 AAAAAATTTTAAT
1 AAAAAATTTTATT
5279104 AAAAAATTTATATT
1 AAAAAATTT-TATT
5279118 AAATAAATTTTATT
1 AAA-AAATTTTATT
5279132 AAAA
1 AAAA
5279136 TTAATATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 10 0.34
14 13 0.45
15 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAAATTTTATT
Found at i:5281394 original size:17 final size:17
Alignment explanation
Indices: 5281372--5281404 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5281362 TTCCAATTTA
*
5281372 AATGGAAAATTTGGAAT
1 AATGGAAAATTAGGAAT
5281389 AATGGAAAATTAGGAA
1 AATGGAAAATTAGGAA
5281405 GAAATTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
AATGGAAAATTAGGAAT
Found at i:5281555 original size:11 final size:11
Alignment explanation
Indices: 5281530--5281575 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
5281520 ATTTATCAGT
*
5281530 TTTTATATATTA
1 TTTTA-ATATAA
5281542 TTTTAATATAA
1 TTTTAATATAA
5281553 TTTTAATAT-A
1 TTTTAATATAA
*
5281563 TTTAAATA-AA
1 TTTTAATATAA
5281573 TTT
1 TTT
5281576 AAGTATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 12 0.39
11 14 0.45
12 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAATATAA
Found at i:5281582 original size:20 final size:20
Alignment explanation
Indices: 5281543--5281582 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
5281533 TATATATTAT
*
5281543 TTTAATATAATTTTAATATA
1 TTTAATATAAATTTAATATA
5281563 TTTAA-ATAAATTTAAGTATA
1 TTTAATATAAATTTAA-TATA
5281583 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTAATATAAATTTAATATA
Found at i:5282367 original size:2 final size:2
Alignment explanation
Indices: 5282360--5282385 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5282350 GTTATGGCTA
5282360 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
5282386 TTTAATACTT
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:5283914 original size:27 final size:27
Alignment explanation
Indices: 5283852--5283916 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
5283842 TAAAAGTTTA
* * *
5283852 TAATTCGATTTTAATTAAATTTATTGAT
1 TAATTC-AATTTAATTAAATTAATTAAT
*
5283880 TGAA-TCAATTTAATTAAGTTAATTAAT
1 T-AATTCAATTTAATTAAATTAATTAAT
5283907 TAATTCAATT
1 TAATTCAATT
5283917 AATAGATTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 2 0.06
27 24 0.77
28 3 0.10
29 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (27 bp):
TAATTCAATTTAATTAAATTAATTAAT
Done.