Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 70 of 93
Found at i:9975125 original size:24 final size:22
Alignment explanation
Indices: 9975082--9975128 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
9975072 GCTTCATCAA
*
9975082 TATTTTAAAATTTTTTATATAT
1 TATTTTAAAATTTTTAATATAT
9975104 TATTTTATATAATTTTTAATATAT
1 TATTTTA-A-AATTTTTAATATAT
9975128 T
1 T
9975129 TAAATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 1 0.05
24 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTAAAATTTTTAATATAT
Found at i:9975374 original size:138 final size:136
Alignment explanation
Indices: 9975174--9975431 Score: 374
Period size: 138 Copynumber: 1.9 Consensus size: 136
9975164 TAAAATATAC
* *
9975174 AATTCGATTCAATTTAATATTTTTAACTTTTCAATTCAAAATTTAATCTATATATAATATATATT
1 AATTCGATTCAATTTAATATTTTTAACTTTTCAATTCAAAAGTTAATCTATACATAATATATATT
*
9975239 TAATATATAAATTAAATCCAAATCGAATAAAAAATTTAATTGAAACAAAATCAAATAATATAATT
66 TAATATATAAATTAAATCCAAATCGAAT-AAAAATTTAATTGAAACAAAATAAAATAATATAATT
9975304 ATAATAT
130 ATAATAT
* * ** *
9975311 AATTCGATTCAATTTAATATTTTTTTATTTTTCAATTTGAAAGTTAGT-TGATACATAATATATA
1 AATTCGATTCAATTTAATA-TTTTTAACTTTTCAATTCAAAAGTTAATCT-ATACATAATATATA
* ** *
9975375 TTTAATATATGAATTAAATTTAAATCGAATAAAAATTTAATTGAAACGAAATAAAAT
64 TTTAATATATAAATTAAATCCAAATCGAATAAAAATTTAATTGAAACAAAATAAAAT
9975432 GGTGTAATTA
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
137 45 0.42
138 62 0.58
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (136 bp):
AATTCGATTCAATTTAATATTTTTAACTTTTCAATTCAAAAGTTAATCTATACATAATATATATT
TAATATATAAATTAAATCCAAATCGAATAAAAATTTAATTGAAACAAAATAAAATAATATAATTA
TAATAT
Found at i:9975411 original size:22 final size:22
Alignment explanation
Indices: 9975386--9975430 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9975376 TTAATATATG
*
9975386 AATTAAATTTAAATCG-AATAAA
1 AATTAAATTGAAA-CGAAATAAA
*
9975408 AATTTAATTGAAACGAAATAAA
1 AATTAAATTGAAACGAAATAAA
9975430 A
1 A
9975431 TGGTGTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (22 bp):
AATTAAATTGAAACGAAATAAA
Found at i:9980497 original size:8 final size:8
Alignment explanation
Indices: 9980470--9980511 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
9980460 CATATAGCTG
*
9980470 AAAAAGCA
1 AAAAAGAA
*
9980478 AATAAGAA
1 AAAAAGAA
9980486 AAAAA-AA
1 AAAAAGAA
9980493 AAAAAGGAA
1 AAAAA-GAA
9980502 AAAAAGAA
1 AAAAAGAA
9980510 AA
1 AA
9980512 TTTGAAACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 7 0.24
8 15 0.52
9 7 0.24
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (8 bp):
AAAAAGAA
Found at i:9982500 original size:14 final size:15
Alignment explanation
Indices: 9982476--9982510 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
9982466 TTTAAAAATC
9982476 AAATTTACAAATTTT
1 AAATTTACAAATTTT
*
9982491 GAATTT-CAAATTTT
1 AAATTTACAAATTTT
9982505 AAATTT
1 AAATTT
9982511 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (15 bp):
AAATTTACAAATTTT
Found at i:9985048 original size:15 final size:15
Alignment explanation
Indices: 9985028--9985061 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9985018 ATGAATAATT
9985028 TTTTTTAAATATTAA
1 TTTTTTAAATATTAA
* *
9985043 TTTTTTATATATTTA
1 TTTTTTAAATATTAA
9985058 TTTT
1 TTTT
9985062 AAGAACTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTAAATATTAA
Found at i:9985386 original size:105 final size:106
Alignment explanation
Indices: 9985186--9985394 Score: 384
Period size: 105 Copynumber: 2.0 Consensus size: 106
9985176 TTTTAACTGT
*
9985186 AGTTGATGAAATGAATAAATTTAAAACATTTTCAAAAAATCATAGATTTAAAAATTGAATTTAAA
1 AGTTAATGAAATGAATAAATTTAAAACATTTTCAAAAAATCATAGATTTAAAAATTGAATTTAAA
9985251 AATCATGGATAAAAATAAAATATTACATAAAGATCATATAC
66 AATCATGGATAAAAATAAAATATTACATAAAGATCATATAC
**
9985292 AGTTAATGAAATGAATAAATTTAAAACATTTTCAAAATGTCATAGATTT-AAAATTGAATTTAAA
1 AGTTAATGAAATGAATAAATTTAAAACATTTTCAAAAAATCATAGATTTAAAAATTGAATTTAAA
9985356 AATCATGGATAAAAATAAAATATTACATAAAGATCATAT
66 AATCATGGATAAAAATAAAATATTACATAAAGATCATAT
9985395 GACATAAAAA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
105 54 0.54
106 46 0.46
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (106 bp):
AGTTAATGAAATGAATAAATTTAAAACATTTTCAAAAAATCATAGATTTAAAAATTGAATTTAAA
AATCATGGATAAAAATAAAATATTACATAAAGATCATATAC
Found at i:10001514 original size:9 final size:9
Alignment explanation
Indices: 10001500--10001539 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
10001490 GCTAATCTAA
10001500 AATTAATTT
1 AATTAATTT
10001509 AATTAATTT
1 AATTAATTT
* *
10001518 AATGATTTT
1 AATTAATTT
10001527 AACTTAATTT
1 AA-TTAATTT
10001537 AAT
1 AAT
10001540 AAAAATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:10004877 original size:158 final size:156
Alignment explanation
Indices: 10004589--10004902 Score: 538
Period size: 158 Copynumber: 2.0 Consensus size: 156
10004579 CCAACACATT
*
10004589 AAGTGGTCTGCTCATCAAATTCTTAAGCATAGCTATCCTACATAGTGCTGAAAATGATTTATGAA
1 AAGTGGTCAGCTCATCAAATTCTTAAGCATAGCTATCCTACATAGTGCTGAAAATGATTTATGAA
*
10004654 TAACATCATTAAATTGGTATATAATCAAATTTCCCATCAAACTAAGAGACATTCATAATCCAGCA
66 TAACATCATTAAATTGGTATATAACCAAATTTCCCATCAAACTAAGAGACATTCATAATCCAGCA
*
10004719 TCATCCTAGCCTTCAAAAACTAAAATTC
131 TCAT-CTACCCTTC-AAAACTAAAATTC
* * *
10004747 AAGTGGTCAGTTCGTCAAATTCTTAAGCATAGCTATCCTACATAGTGCTGAAAATGATTTATTAA
1 AAGTGGTCAGCTCATCAAATTCTTAAGCATAGCTATCCTACATAGTGCTGAAAATGATTTATGAA
* *
10004812 TAACATCATTAAATTGGTCTATAACCAAATTTCCCATCAAACTAAGAGACATTCATATTCCAGCA
66 TAACATCATTAAATTGGTATATAACCAAATTTCCCATCAAACTAAGAGACATTCATAATCCAGCA
10004877 TCATCTACCCTTCAAAACTAAAATTC
131 TCATCTACCCTTCAAAACTAAAATTC
10004903 TATGATAGAA
Statistics
Matches: 148, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
156 13 0.09
157 8 0.05
158 127 0.86
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.31
Consensus pattern (156 bp):
AAGTGGTCAGCTCATCAAATTCTTAAGCATAGCTATCCTACATAGTGCTGAAAATGATTTATGAA
TAACATCATTAAATTGGTATATAACCAAATTTCCCATCAAACTAAGAGACATTCATAATCCAGCA
TCATCTACCCTTCAAAACTAAAATTC
Found at i:10006137 original size:1 final size:1
Alignment explanation
Indices: 10006131--10006164 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
10006121 TTAAGAGACC
* *
10006131 AAAAAAAAAAAAAAAAAAAAAACACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10006165 GGCTATGAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10011956 original size:12 final size:12
Alignment explanation
Indices: 10011935--10011974 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
10011925 ATTAATCTAT
10011935 TATAATTATTTA
1 TATAATTATTTA
10011947 TA-ATATTATTTA
1 TATA-ATTATTTA
10011959 TATAATTATTTA
1 TATAATTATTTA
10011971 -ATAA
1 TATAA
10011975 ACTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.19
12 20 0.77
13 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TATAATTATTTA
Found at i:10012077 original size:16 final size:16
Alignment explanation
Indices: 10012039--10012080 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
10012029 TTTTAAGATG
10012039 TATAAATATATTAATTT
1 TATAAA-ATATTAATTT
*
10012056 TTTAAAATA-TAATTAT
1 TATAAAATATTAATT-T
10012072 TATAAAATA
1 TATAAAATA
10012081 AAAATAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAAAATATTAATTT
Found at i:10012162 original size:15 final size:15
Alignment explanation
Indices: 10012138--10012172 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10012128 TATTTTAACA
* *
10012138 ATTATTTTTATTTTT
1 ATTATATTTAATTTT
10012153 ATTATATTTAATTTT
1 ATTATATTTAATTTT
10012168 ATTAT
1 ATTAT
10012173 TATCGTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTATATTTAATTTT
Found at i:10013457 original size:38 final size:37
Alignment explanation
Indices: 10013395--10013474 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 37
10013385 TCTACTACTT
*
10013395 GAAGAGTAAAAAGAAATGCCCAG-AAAATTCAGAAAGA
1 GAAGAGTAAAAAAAAATGCCCAGAAAAATT-AGAAAGA
*
10013432 GAAGAGTAAAAAAAAAATGCTCAGAAAAATTAGAAAGA
1 GAAGAGT-AAAAAAAAATGCCCAGAAAAATTAGAAAGA
10013470 GAAGA
1 GAAGA
10013475 TTTTCATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
37 7 0.18
38 26 0.67
39 6 0.15
ACGTcount: A:0.60, C:0.07, G:0.21, T:0.11
Consensus pattern (37 bp):
GAAGAGTAAAAAAAAATGCCCAGAAAAATTAGAAAGA
Found at i:10029874 original size:16 final size:17
Alignment explanation
Indices: 10029843--10029875 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10029833 AAAGATATAA
*
10029843 ATTTTATTTAACAAATT
1 ATTTTATTTAAAAAATT
10029860 ATTTTA-TTAAAAAATT
1 ATTTTATTTAAAAAATT
10029876 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTATTTAAAAAATT
Found at i:10035484 original size:24 final size:24
Alignment explanation
Indices: 10035451--10035513 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
10035441 TAATAATATG
*
10035451 ATATATAAATTATAAGAATAAAAA
1 ATATAAAAATTATAAGAATAAAAA
* * * *
10035475 ATATAAAAATAATATGATTTAAAA
1 ATATAAAAATTATAAGAATAAAAA
* *
10035499 TTTTAAAAATTATAA
1 ATATAAAAATTATAA
10035514 ATAAATTTAA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (24 bp):
ATATAAAAATTATAAGAATAAAAA
Found at i:10035526 original size:40 final size:41
Alignment explanation
Indices: 10035416--10035526 Score: 104
Period size: 40 Copynumber: 2.7 Consensus size: 41
10035406 ATTTTTGTGT
*
10035416 AATTTTAATAATT-TAAAATATAATATAATAATATGATATATA
1 AATTTTAAAAATTAT-AAATATAAT-TAATAATATGATATATA
* * * * * *
10035458 AATTATAAGAATAAAAAATATAA-AAATAATATGATTTA-A
1 AATTTTAAAAATTATAAATATAATTAATAATATGATATATA
10035497 AATTTTAAAAATTATAAATA-AATTTAATAA
1 AATTTTAAAAATTATAAATATAA-TTAATAA
10035527 AATTAAAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
38 2 0.04
39 17 0.31
40 18 0.33
42 18 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (41 bp):
AATTTTAAAAATTATAAATATAATTAATAATATGATATATA
Found at i:10035926 original size:30 final size:30
Alignment explanation
Indices: 10035892--10035967 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
10035882 TACTTGGACG
*
10035892 AAAATAAATATTTAATAATTTAATTAAATA
1 AAAATAAATATTTAAAAATTTAATTAAATA
* * *
10035922 AAAATAAAAATTTAAAAATTTAATTAATTG
1 AAAATAAATATTTAAAAATTTAATTAAATA
10035952 AAAATAAATA-TTAAAA
1 AAAATAAATATTTAAAA
10035968 TTATAAATTG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 6 0.15
30 35 0.85
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAATAAATATTTAAAAATTTAATTAAATA
Found at i:10036038 original size:24 final size:23
Alignment explanation
Indices: 10036011--10036059 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
10036001 TAAATAATTA
*
10036011 TTTTTTTATTAT-TTTAAGTGTGT
1 TTTTTTTTTTATATTTAAGT-TGT
10036034 TTTTTTTTTTATATTTAAGTTGT
1 TTTTTTTTTTATATTTAAGTTGT
10036057 TTT
1 TTT
10036060 ATAACGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.73
Consensus pattern (23 bp):
TTTTTTTTTTATATTTAAGTTGT
Found at i:10036048 original size:25 final size:24
Alignment explanation
Indices: 10036011--10036059 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
10036001 TAAATAATTA
10036011 TTTTTTTATTATTTTAAGTGTGTTTT
1 TTTTTTTATTA-TTTAAGT-TGTTTT
10036037 TTTTTTTA-TATTTAAGTTGTTTT
1 TTTTTTTATTATTTAAGTTGTTTT
10036060 ATAACGTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
24 7 0.30
25 2 0.09
26 8 0.35
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.73
Consensus pattern (24 bp):
TTTTTTTATTATTTAAGTTGTTTT
Found at i:10036521 original size:21 final size:23
Alignment explanation
Indices: 10036473--10036525 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
10036463 TATATTGATT
* *
10036473 TAAATTT-ATTAAAATTAACATT
1 TAAATTTAATTAAAAATAACATA
10036495 TAAATTTAATTAAAAAT-ACA-A
1 TAAATTTAATTAAAAATAACATA
10036516 TAAATTTAAT
1 TAAATTTAAT
10036526 CCCGCTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.36
22 10 0.36
23 8 0.29
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAATTTAATTAAAAATAACATA
Found at i:10036846 original size:13 final size:14
Alignment explanation
Indices: 10036828--10036856 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10036818 TATATATTTA
10036828 AAAATAATT-ATAT
1 AAAATAATTAATAT
10036841 AAAATAATTAATAT
1 AAAATAATTAATAT
10036855 AA
1 AA
10036857 GTTTCTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATAATTAATAT
Found at i:10037680 original size:34 final size:34
Alignment explanation
Indices: 10037640--10037722 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
10037630 ATCAAATTTA
*
10037640 ATAA-TTTAAAATTATCAATAATCAAATCACCTTG
1 ATAATTTTAAAATTAT-AATAATCAAATCACCATG
** * *
10037674 ATAATTTTATCATTATAATAATTAAATTACCATG
1 ATAATTTTAAAATTATAATAATCAAATCACCATG
10037708 ATAATTTTAAAATTA
1 ATAATTTTAAAATTA
10037723 ATACTAAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 32 0.78
35 9 0.22
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (34 bp):
ATAATTTTAAAATTATAATAATCAAATCACCATG
Found at i:10037986 original size:15 final size:17
Alignment explanation
Indices: 10037956--10037988 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
10037946 ATGAATAGTT
10037956 ATTTAATCATAAATTCA
1 ATTTAATCATAAATTCA
10037973 ATTTAAT-A-AAATTCA
1 ATTTAATCATAAATTCA
10037988 A
1 A
10037989 ATTCAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTAATCATAAATTCA
Found at i:10038152 original size:9 final size:9
Alignment explanation
Indices: 10038135--10038185 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
10038125 TAAAAATAAA
*
10038135 AAATAAATT
1 AAATTAATT
10038144 AAATTAATT
1 AAATTAATT
*
10038153 AATTTAATT
1 AAATTAATT
* *
10038162 AATTTAA-A
1 AAATTAATT
10038170 AAATTAATT
1 AAATTAATT
10038179 ATAATTA
1 A-AATTA
10038186 TAACTGAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
8 6 0.17
9 24 0.69
10 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAATTAATT
Found at i:10038992 original size:38 final size:40
Alignment explanation
Indices: 10038907--10038995 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 40
10038897 TTTATTATTT
* * *
10038907 ATTTATTAAATATAATAAATAATTATAAATAATATTTTAAA
1 ATTTATTTATTATAATAAATAATTATAAATAATA-TATAAA
*
10038948 AATTATTTATTAT-ATAAATAAATTATAAAT-ATA-ATAAA
1 ATTTATTTATTATAATAAAT-AATTATAAATAATATATAAA
10038986 ATTTATTTAT
1 ATTTATTTAT
10038996 ATTTAATTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
38 13 0.31
40 9 0.21
41 20 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (40 bp):
ATTTATTTATTATAATAAATAATTATAAATAATATATAAA
Found at i:10045460 original size:13 final size:13
Alignment explanation
Indices: 10045442--10045466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10045432 ATATTAAGTT
10045442 AAATTTTATTTTA
1 AAATTTTATTTTA
10045455 AAATTTTATTTT
1 AAATTTTATTTT
10045467 TCGTATGTAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AAATTTTATTTTA
Found at i:10045709 original size:16 final size:17
Alignment explanation
Indices: 10045676--10045715 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
10045666 TGATTCGATG
10045676 ATTGATTAATTGAATTAA
1 ATTGA-TAATTGAATTAA
10045694 ATTGATAATT-AATTAA
1 ATTGATAATTGAATTAA
*
10045710 TTTGAT
1 ATTGAT
10045716 TAAAATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 5 0.24
18 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (17 bp):
ATTGATAATTGAATTAA
Found at i:10046038 original size:19 final size:19
Alignment explanation
Indices: 10046014--10046051 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10046004 AGGTTTAAAT
10046014 AAATACAAAGTCATTCCAC
1 AAATACAAAGTCATTCCAC
10046033 AAATACAAAGTCATTCCAC
1 AAATACAAAGTCATTCCAC
10046052 GAGCGATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATACAAAGTCATTCCAC
Found at i:10067201 original size:14 final size:13
Alignment explanation
Indices: 10067163--10067208 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
10067153 TTAGTAAAAT
10067163 AAAATAAATAATAA
1 AAAATAAA-AATAA
*
10067177 AATACTAAAAATCAA
1 AA-AATAAAAAT-AA
10067192 AAAATAAAAATAA
1 AAAATAAAAATAA
10067205 AAAA
1 AAAA
10067209 GAAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 6 0.21
14 13 0.46
15 9 0.32
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:10068081 original size:3 final size:3
Alignment explanation
Indices: 10068069--10068196 Score: 63
Period size: 3 Copynumber: 44.7 Consensus size: 3
10068059 AAAATAAAAA
* * ** *
10068069 AAT AAC AAT AAT -AT AA- CAT AAT -AT AAT AAT -AT AAT -AT ACC AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
10068112 AAT AAT AAT -AT AAT -AT AAT ACT AGT AAT AAT AACA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * * * **
10068156 TAT ACT AAT AAC AAA AAT AAT AAT AGT AAT AGC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10068197 AAATTGACCT
Statistics
Matches: 91, Mismatches: 26, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
2 13 0.14
3 76 0.84
4 2 0.02
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:10068151 original size:27 final size:25
Alignment explanation
Indices: 10068061--10068200 Score: 90
Period size: 27 Copynumber: 5.5 Consensus size: 25
10068051 AAATATTTAA
* *
10068061 AATAA-AAAAATAACAATAATATAAC
1 AATAATAAAAATAA-TATAATATACC
*
10068086 -ATAAT-ATAATAATATAATATACC
1 AATAATAAAAATAATATAATATACC
* **
10068109 AACAATAATAATATAATATAATACTAGT
1 AATAATAA-AA-ATAATATAATA-TACC
* *
10068137 AATAATAACAAATAATA-ATTATACT
1 AATAATAA-AAATAATATAATATACC
* * *
10068162 AATAACAAAAATAATAATAGTAATAGC
1 AATAATAAAAATAAT-ATAAT-ATACC
10068189 AATAATAAAAAT
1 AATAATAAAAAT
10068201 TGACCTCGAT
Statistics
Matches: 90, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
23 9 0.10
24 21 0.23
25 12 0.13
26 6 0.07
27 31 0.34
28 11 0.12
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (25 bp):
AATAATAAAAATAATATAATATACC
Found at i:10068151 original size:35 final size:35
Alignment explanation
Indices: 10068070--10068155 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
10068060 AAATAAAAAA
* *
10068070 ATAACAATAAT-ATAACATAATATAATAATATAAT
1 ATAACAACAATAATAATATAATATAATAATATAAT
* *
10068104 ATACCAACAATAATAATATAATATAATACTAGTAAT
1 ATAACAACAATAATAATATAATATAATAATA-TAAT
10068140 AATAAC-A-AATAATAAT
1 -ATAACAACAATAATAAT
10068156 TATACTAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 9 0.20
35 26 0.59
36 5 0.11
37 4 0.09
ACGTcount: A:0.60, C:0.08, G:0.01, T:0.30
Consensus pattern (35 bp):
ATAACAACAATAATAATATAATATAATAATATAAT
Found at i:10068176 original size:21 final size:21
Alignment explanation
Indices: 10068061--10068196 Score: 72
Period size: 21 Copynumber: 6.7 Consensus size: 21
10068051 AAATATTTAA
* *
10068061 AATAA-AAAAATAACAATAAT
1 AATAACAAAAATAATAATACT
*
10068081 -ATAACATAATATAATAATA-T
1 AATAACA-AAAATAATAATACT
*
10068101 AATATACCAACAATAATAATA-T
1 AATA-A-CAAAAATAATAATACT
* * * *
10068123 AAT----ATAATACTAGTAAT
1 AATAACAAAAATAATAATACT
*
10068140 AATAACAAATAATAATTATACT
1 AATAACAAA-AATAATAATACT
*
10068162 AATAACAAAAATAATAATAGT
1 AATAACAAAAATAATAATACT
* *
10068183 AATAGCAATAATAA
1 AATAACAAAAATAA
10068197 AAATTGACCT
Statistics
Matches: 89, Mismatches: 16, Indels: 21
0.71 0.13 0.17
Matches are distributed among these distances:
16 9 0.10
17 4 0.04
19 4 0.04
20 2 0.02
21 36 0.40
22 32 0.36
23 2 0.02
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAACAAAAATAATAATACT
Found at i:10068756 original size:55 final size:54
Alignment explanation
Indices: 10068616--10068773 Score: 140
Period size: 55 Copynumber: 2.9 Consensus size: 54
10068606 AAATGATCAA
*
10068616 GACT-GAACTGAGATCAAACAATCAAGATTGAACTACAAGTCAAAAAACGATTT
1 GACTCGAACCGAGATCAAACAATCAAGATTGAACTACAAGTCAAAAAACGATTT
* * * * ** ** * *
10068669 GCCTCGAGCCGATATCGAATGATTGAGATTGAACTACAAGTCTGAAAAATGATTT
1 GACTCGAACCGAGATCAAACAATCAAGATTGAACTACAAGTC-AAAAAACGATTT
* * * *
10068724 GAAC-CGAATCGAGATCAAACAATCAAAATTGAACCATAAGTCCAAAAAAC
1 G-ACTCGAACCGAGATCAAACAATCAAGATTGAACTACAAGT-CAAAAAAC
10068774 TAACCTAGAT
Statistics
Matches: 76, Mismatches: 25, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
53 3 0.04
54 29 0.38
55 42 0.55
56 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.21
Consensus pattern (54 bp):
GACTCGAACCGAGATCAAACAATCAAGATTGAACTACAAGTCAAAAAACGATTT
Found at i:10069663 original size:48 final size:46
Alignment explanation
Indices: 10069601--10069691 Score: 119
Period size: 48 Copynumber: 1.9 Consensus size: 46
10069591 ACATTTAGTC
* * *
10069601 CAAGCCATATTTTCAAGTTTTCAACTTGAACCTTTTTTTTCTTTGGCT
1 CAAGCCACACTTTCAAGTTTTCAACTT-AA-ATTTTTTTTCTTTGGCT
* *
10069649 CAAGCCACACTTTCAGGTTTTCAACTTAAATTTTTTTTTTTTG
1 CAAGCCACACTTTCAAGTTTTCAACTTAAATTTTTTTTCTTTG
10069692 TTTTTTTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 12 0.32
47 2 0.05
48 24 0.63
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (46 bp):
CAAGCCACACTTTCAAGTTTTCAACTTAAATTTTTTTTCTTTGGCT
Found at i:10069708 original size:57 final size:57
Alignment explanation
Indices: 10069634--10069751 Score: 132
Period size: 58 Copynumber: 2.1 Consensus size: 57
10069624 ACTTGAACCT
* *
10069634 TTTTTTTCTTTGGCTCAAGCCACAC-TTTCAGGTTTTCAACTTAAATTTTTTTTTTTTG
1 TTTTTTTCTTTGGCTCAAACCAC-CTTTTCAGGTTTTCAACTTAAA-CTTTTTTTTTTG
* * ** *
10069692 TTTTTTTGTTT-GCTCAAATCACCTTTTTTGGGTTTTCAACTTGAACTTTTTTTTTTG
1 TTTTTTTCTTTGGCTCAAACCACC-TTTTCAGGTTTTCAACTTAAACTTTTTTTTTTG
10069749 TTT
1 TTT
10069752 AAGCAAAGCG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
56 1 0.02
57 23 0.45
58 27 0.53
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.58
Consensus pattern (57 bp):
TTTTTTTCTTTGGCTCAAACCACCTTTTCAGGTTTTCAACTTAAACTTTTTTTTTTG
Found at i:10071991 original size:20 final size:21
Alignment explanation
Indices: 10071951--10072000 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
10071941 CTCGAAATTA
10071951 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
10071972 ATAAAATATTATTTTT-AAAT
1 ATAAAATATTATTTTTAAAAT
10071992 AT-AAATATT
1 ATAAAATATT
10072001 TAAAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.24
20 6 0.21
21 16 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:10072007 original size:16 final size:16
Alignment explanation
Indices: 10071988--10072032 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
10071978 TATTATTTTT
*
10071988 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
10072004 AAATATAATTATATAA
1 AAATATAAATATATAA
10072020 ATATATATAAATA
1 A-A-ATATAAATA
10072033 AAAAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 15 0.62
17 1 0.04
18 8 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:10072035 original size:30 final size:30
Alignment explanation
Indices: 10071968--10072060 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
10071958 ATTATTTTTA
* *
10071968 AAATATAAAATATTATT-TTTAAATATAAAT
1 AAATA-AAAATATAATTATATAAATATAAAT
** *
10071998 ATTTAAAAATATAATTATATAAATATATAT
1 AAATAAAAATATAATTATATAAATATAAAT
*
10072028 AAATAAAAA-ATTAATTA-ATTAAT-TAAA-
1 AAATAAAAATA-TAATTATATAAATATAAAT
10072055 AAATAA
1 AAATAA
10072061 TTTTTTTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
27 6 0.12
28 3 0.06
29 16 0.31
30 27 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATAAAAATATAATTATATAAATATAAAT
Found at i:10079973 original size:22 final size:22
Alignment explanation
Indices: 10079932--10079974 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10079922 TCTATGTCAT
*
10079932 TATTTTAAAAAATAATATTTAA
1 TATTTTAAAAAATAACATTTAA
**
10079954 TATTTTAAAATTTAACATTTA
1 TATTTTAAAAAATAACATTTA
10079975 TAATATTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTTTAAAAAATAACATTTAA
Found at i:10080403 original size:24 final size:25
Alignment explanation
Indices: 10080358--10080406 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
10080348 ATAAAAAAAT
*
10080358 AATTATTAAAAAATCATAAATTTTAA
1 AATTAATAAAAAA-CATAAATTTTAA
*
10080384 AATTAATAAAAAA-ATTAATTTTA
1 AATTAATAAAAAACATAAATTTTA
10080407 GTACTTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
26 12 0.57
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
AATTAATAAAAAACATAAATTTTAA
Found at i:10082272 original size:64 final size:64
Alignment explanation
Indices: 10082203--10082331 Score: 231
Period size: 64 Copynumber: 2.0 Consensus size: 64
10082193 ATTGAAAAAT
*
10082203 ATCTAAAGTAATATCTATATTAAAAAAATATTATGAAGATACTTCGTCTTTCAATTTATATATC
1 ATCTAAAGTAATATCTATATTAAAAAAATATTATGAAGATACTTCATCTTTCAATTTATATATC
* *
10082267 ATCTAAAGTAATATCTATATTAAAAAAATATTATTAAGATACTTCATCTTTGAATTTATATATC
1 ATCTAAAGTAATATCTATATTAAAAAAATATTATGAAGATACTTCATCTTTCAATTTATATATC
10082331 A
1 A
10082332 ATTTACCTCA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (64 bp):
ATCTAAAGTAATATCTATATTAAAAAAATATTATGAAGATACTTCATCTTTCAATTTATATATC
Found at i:10093149 original size:18 final size:20
Alignment explanation
Indices: 10093114--10093155 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 20
10093104 GAGATGAAAA
10093114 TAATTATTATAATGATAATAT
1 TAATTATTATAA-GATAATAT
10093135 TAATTATTAT-A-ATAATAT
1 TAATTATTATAAGATAATAT
10093153 TAA
1 TAA
10093156 AATAATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TAATTATTATAAGATAATAT
Found at i:10093264 original size:16 final size:15
Alignment explanation
Indices: 10093243--10093293 Score: 70
Period size: 16 Copynumber: 3.5 Consensus size: 15
10093233 AACATTATAT
10093243 TAAAATTTATATTTAA
1 TAAAATTTATATTT-A
10093259 TAAAATTTATA-TTA
1 TAAAATTTATATTTA
*
10093273 T-AATTTTATATTTA
1 TAAAATTTATATTTA
10093287 TAAAATT
1 TAAAATT
10093294 ACTAACTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 8 0.26
14 6 0.19
15 6 0.19
16 11 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAAATTTATATTTA
Found at i:10093269 original size:28 final size:28
Alignment explanation
Indices: 10093237--10093293 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
10093227 ATTAAAAACA
10093237 TTATATTA-AAATTTATATTTAATAAAAT
1 TTATATTATAAATTTATATTT-ATAAAAT
*
10093265 TTATATTATAATTTTATATTTATAAAAT
1 TTATATTATAAATTTATATTTATAAAAT
10093293 T
1 T
10093294 ACTAACTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATATTATAAATTTATATTTATAAAAT
Found at i:10093287 original size:14 final size:14
Alignment explanation
Indices: 10093237--10093290 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 14
10093227 ATTAAAAACA
10093237 TTATA-TTA-AAAT
1 TTATATTTATAAAT
10093249 TTATATTTAATAAAAT
1 TTATATTT-AT-AAAT
*
10093265 TTATA-TTATAATT
1 TTATATTTATAAAT
10093278 TTATATTTATAAA
1 TTATATTTATAAA
10093291 ATTACTAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 5 0.14
13 10 0.29
14 9 0.26
15 2 0.06
16 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATATTTATAAAT
Found at i:10093464 original size:23 final size:22
Alignment explanation
Indices: 10093425--10093486 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 22
10093415 ATTACTAATA
*
10093425 ATTTAGAAGATAATAATTATTTTT
1 ATTTA-AA-ATAATAATTATATTT
10093449 ATATTAAAATAATAATTATATTT
1 AT-TTAAAATAATAATTATATTT
10093472 ATTTAAAATAA-AATT
1 ATTTAAAATAATAATT
10093487 TAAAAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 4 0.11
22 9 0.25
23 16 0.44
24 4 0.11
25 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
ATTTAAAATAATAATTATATTT
Found at i:10094448 original size:18 final size:18
Alignment explanation
Indices: 10094419--10094463 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10094409 CTCGTGTTAA
*
10094419 TTGTTCTTTGTTATCGTTT
1 TTGTT-TTTGTTATCGATT
* *
10094438 TTGTTTTTGTTCTTGATT
1 TTGTTTTTGTTATCGATT
10094456 TTGTTTTT
1 TTGTTTTT
10094464 ACTCCTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.04, C:0.07, G:0.16, T:0.73
Consensus pattern (18 bp):
TTGTTTTTGTTATCGATT
Found at i:10098481 original size:2 final size:2
Alignment explanation
Indices: 10098476--10098500 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10098466 AATCAGCTAC
10098476 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
10098501 ATAGCTAGGC
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:10104558 original size:16 final size:16
Alignment explanation
Indices: 10104515--10104560 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
10104505 TAAAATTTAG
* *
10104515 TTTGAATTTAATTAAT
1 TTTGAATTTATTTAAA
*
10104531 TTTTAA-TT-TTTAAA
1 TTTGAATTTATTTAAA
10104545 TTTGAATTTATTTAAA
1 TTTGAATTTATTTAAA
10104561 ATAAAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
TTTGAATTTATTTAAA
Found at i:10104743 original size:19 final size:20
Alignment explanation
Indices: 10104698--10104745 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
10104688 ATTATAATTT
10104698 TTTAATTAAAATAATAAAAA
1 TTTAATTAAAATAATAAAAA
* * *
10104718 TAT-ATTAAAAT-TTAAAAG
1 TTTAATTAAAATAATAAAAA
10104736 TTTAATTAAA
1 TTTAATTAAA
10104746 CTCTTGAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 7 0.30
19 14 0.61
20 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTTAATTAAAATAATAAAAA
Found at i:10105626 original size:29 final size:28
Alignment explanation
Indices: 10105570--10105628 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
10105560 ATTAAAAAAA
* *
10105570 TTATTTATAATTAAAATTTGATTGATAT
1 TTATTTATAATAAAAATTTGATTAATAT
10105598 TTATTTAATAATAAAAATTTTG-TTAATAT
1 TTATTT-ATAATAAAAA-TTTGATTAATAT
10105627 TT
1 TT
10105629 TTACTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 6 0.22
29 17 0.63
30 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (28 bp):
TTATTTATAATAAAAATTTGATTAATAT
Found at i:10105673 original size:10 final size:10
Alignment explanation
Indices: 10105650--10105686 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
10105640 TATCTATTTA
* *
10105650 AAAATGTATC
1 AAAATTTATT
10105660 AAAATTTATT
1 AAAATTTATT
10105670 AAAATTTATT
1 AAAATTTATT
10105680 AAAATTT
1 AAAATTT
10105687 TATATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (10 bp):
AAAATTTATT
Found at i:10105927 original size:2 final size:2
Alignment explanation
Indices: 10105920--10105949 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10105910 TTTCAATAAC
10105920 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10105950 AGAAGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10115791 original size:20 final size:20
Alignment explanation
Indices: 10115762--10115832 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
10115752 CAAAAGTATC
*
10115762 ATAAAAATATAGTTTTTTTT
1 ATAAATATATAGTTTTTTTT
*
10115782 ATAAATATATATAGTGTTTTTTAA
1 AT-AA-ATATATAGT-TTTTTT-T
10115806 ATAAA-ATATA-TTAATTTTTT
1 ATAAATATATAGTT--TTTTTT
10115826 ATAAATA
1 ATAAATA
10115833 ATAATAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
19 1 0.02
20 8 0.20
21 13 0.32
22 9 0.22
23 8 0.20
24 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
ATAAATATATAGTTTTTTTT
Found at i:10115809 original size:24 final size:22
Alignment explanation
Indices: 10115762--10115838 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 22
10115752 CAAAAGTATC
*
10115762 ATAAAA-ATATAGTTTTTTT-T
1 ATAAAATATATAGTTTTTTTAA
10115782 ATAAATATATATAGTGTTTTTTAA
1 ATAAA-ATATATAGT-TTTTTTAA
*
10115806 ATAAAATATATTAATTTTTTATAA
1 ATAAAATATA-TAGTTTTTT-TAA
10115830 ATAATAATA
1 ATAA-AATA
10115839 AAATTGCTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
20 5 0.10
21 1 0.02
22 7 0.15
23 16 0.33
24 15 0.31
25 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
ATAAAATATATAGTTTTTTTAA
Found at i:10118660 original size:24 final size:24
Alignment explanation
Indices: 10118623--10118684 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
10118613 TTTAAAAAAT
10118623 TTTATTTTTT--AAAAATATTAAA
1 TTTATTTTTTAAAAAAATATTAAA
10118645 TTTATTTTTTAAAAAAATATTAAA
1 TTTATTTTTTAAAAAAATATTAAA
10118669 TTTATTTTTTAAAAAA
1 TTTATTTTTTAAAAAA
10118685 TTTACATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 10 0.26
24 28 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTATTTTTTAAAAAAATATTAAA
Found at i:10118704 original size:27 final size:24
Alignment explanation
Indices: 10118618--10118704 Score: 79
Period size: 24 Copynumber: 3.5 Consensus size: 24
10118608 ATATTTTTAA
*
10118618 AAAATTTTATTTTTT--AAAAATAT
1 AAAA-TTTATTTTTTAAAAAAACAT
* *
10118641 TAAATTTATTTTTTAAAAAAATAT
1 AAAATTTATTTTTTAAAAAAACAT
*
10118665 TAAATTTATTTTTTAAAAAATTTACAT
1 AAAATTTATTTTTTAAAAAA---ACAT
*
10118692 AAAATTCATTTTT
1 AAAATTTATTTTT
10118705 GACAATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
22 10 0.18
23 3 0.05
24 28 0.51
27 14 0.25
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
AAAATTTATTTTTTAAAAAAACAT
Found at i:10118722 original size:18 final size:19
Alignment explanation
Indices: 10118699--10118742 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
10118689 CATAAAATTC
*
10118699 ATTTTTGAC-AATTTTTAT
1 ATTTTTGACAAATTTTAAT
**
10118717 ATTTTTTTCAAATTTTAAT
1 ATTTTTGACAAATTTTAAT
10118736 ATTTTTG
1 ATTTTTG
10118743 TTTAATCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (19 bp):
ATTTTTGACAAATTTTAAT
Found at i:10120665 original size:3 final size:3
Alignment explanation
Indices: 10120657--10120686 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10120647 TAACTCTTTT
10120657 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10120687 TATTATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10120693 original size:3 final size:3
Alignment explanation
Indices: 10120687--10120728 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
10120677 AATAATAATA
10120687 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10120729 GTCTTTACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10124107 original size:18 final size:18
Alignment explanation
Indices: 10124084--10124118 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10124074 TAGTAGTTAT
10124084 TTGAGATAGAAAATATGG
1 TTGAGATAGAAAATATGG
10124102 TTGAGATAGAAAATATG
1 TTGAGATAGAAAATATG
10124119 ACCTATACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.29
Consensus pattern (18 bp):
TTGAGATAGAAAATATGG
Found at i:10124831 original size:32 final size:32
Alignment explanation
Indices: 10124784--10124844 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
10124774 TAGGTACTAA
10124784 AGTCAATTTTAGGAAATAAATGTTCACATGAG
1 AGTCAATTTTAGGAAATAAATGTTCACATGAG
* *
10124816 AGTCGATTTTGGGAAATAAATGTTCACAT
1 AGTCAATTTTAGGAAATAAATGTTCACAT
10124845 CACCTGTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.33
Consensus pattern (32 bp):
AGTCAATTTTAGGAAATAAATGTTCACATGAG
Found at i:10125006 original size:104 final size:104
Alignment explanation
Indices: 10124826--10125014 Score: 369
Period size: 104 Copynumber: 1.8 Consensus size: 104
10124816 AGTCGATTTT
10124826 GGGAAATAAATGTTCACATCACCTGTGAGGCGCCTTTTGTGGGACAAAAATATGAGACCCAAAGG
1 GGGAAATAAATGTTCACATCACCTGTGAGGCGCCTTTTGTGGGACAAAAATATGAGACCCAAAGG
10124891 ACCAAACGGATAATACCTCATAAATTGGTGCGGACCTTC
66 ACCAAACGGATAATACCTCATAAATTGGTGCGGACCTTC
*
10124930 GGGAAATAAATGTTCACATCACCTGTGAGGTGCCTTTTGTGGGACAAAAATATGAGACCCAAAGG
1 GGGAAATAAATGTTCACATCACCTGTGAGGCGCCTTTTGTGGGACAAAAATATGAGACCCAAAGG
10124995 ACCAAACGGATAATACCTCA
66 ACCAAACGGATAATACCTCA
10125015 CAAGTTAGTG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 84 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.22
Consensus pattern (104 bp):
GGGAAATAAATGTTCACATCACCTGTGAGGCGCCTTTTGTGGGACAAAAATATGAGACCCAAAGG
ACCAAACGGATAATACCTCATAAATTGGTGCGGACCTTC
Found at i:10126637 original size:361 final size:359
Alignment explanation
Indices: 10125965--10127000 Score: 1630
Period size: 361 Copynumber: 2.9 Consensus size: 359
10125955 GACATGCTGG
* * *
10125965 CCAACAGTTGCAAATTTTATGCAAAGTTAATTTCAGCACATAGTTGATATGCAAGAATCCATATC
1 CCAACAGTTGC-AATTTTGTGCAAAATTAATTTCAGCACATAGTTGATATGCAAGAATCTATATC
* * * *
10126030 TACTCTTTGTCGGACAAAAAGTAACAAATGATATTAATTGCTTACAGTAAGTATATTTTAGAAGT
65 TACTCTTTGTCGGACAAAAAGTAACAAATGATATTAAATGCATGCAGTAAGTATATTTTGGAAGT
* * *
10126095 TCCTGGAGGCATCAATATACATGACTTGTACTTCTATAGCAATTGTCAATGGCTCATTAAAAAGC
130 TCATGGAGGCATCAATGTACATGACTTGTACCTCTATAGCAATTGTCAATGGCTCATTAAAAAGC
* * * *
10126160 CTACAACATAATTGTTAGGCTACGGTGACTAAAACATATAAGATACCAACAAAAAGAGTGAGAAA
195 CTACAACATAATTGTTGGGTTACGATGACT-AAACATATAAGATACAAACAAAAAGAGTGAGAAA
* *
10126225 GGAAAAACCACTCACAAACAAAGCACACCATGCTCATCATAAAGTTTTACTAGCAACAAGGCTGC
259 GGATAAACCACTCACAAACAAAGCACACCATGCTCATCATAAA-ATTTACTAGCAACAAGGCTGC
*
10126290 ATGGAAGACCATGCTTCTTAAATGAGTGTCAAGCAGC
323 ATGGAAGACCATGCTTCCTAAATGAGTGTCAAGCAGC
*
10126327 CCAACAGTTGCAATTTTGTGCAAAATTAATTTCAGCCCATAGTTGAT-TCGCAAGAATCTATATC
1 CCAACAGTTGCAATTTTGTGCAAAATTAATTTCAGCACATAGTTGATAT-GCAAGAATCTATATC
*
10126391 TACTCTTTGGCGGACAAAAAGTAACAAATGATATTAAATGCATGCAGTAAGTATATTTTGGAAGT
65 TACTCTTTGTCGGACAAAAAGTAACAAATGATATTAAATGCATGCAGTAAGTATATTTTGGAAGT
* * * * *
10126456 TCATGAAGGCATCAATGTCCATGACTTGTACCTCTACAGAAATTGTCAATGGCTCATTAAAATGC
130 TCATGGAGGCATCAATGTACATGACTTGTACCTCTATAGCAATTGTCAATGGCTCATTAAAAAGC
* *
10126521 CTACAACATAATTGTTGGGGTTATGATGACATAAACTTATAAGATACAAACAAAAAGAGTGAGAA
195 CTACAACATAATTGTT-GGGTTACGATGAC-TAAACATATAAGATACAAACAAAAAGAGTGAGAA
*
10126586 AGGATAAACCACTCACAAAAAAAGCACACCATGCTCATCATAAAATTTACTAGCAACAAGGCTGC
258 AGGATAAACCACTCACAAACAAAGCACACCATGCTCATCATAAAATTTACTAGCAACAAGGCTGC
* *
10126651 ATGTAAGACCATGCTTCCTAAATGTGTGTCAAGCAGC
323 ATGGAAGACCATGCTTCCTAAATGAGTGTCAAGCAGC
*
10126688 CCAACAGTCGCAATTTTGTGCAAAATTAATTTCAGCACATAGTTGATATGCAAGAATCTATATCT
1 CCAACAGTTGCAATTTTGTGCAAAATTAATTTCAGCACATAGTTGATATGCAAGAATCTATATCT
*
10126753 ACTCTTTGTCAGACAAAAAGTAACAAATGATATTAAATGCATGCAGTAAGTATATTTTGGAAGTT
66 ACTCTTTGTCGGACAAAAAGTAACAAATGATATTAAATGCATGCAGTAAGTATATTTTGGAAGTT
* * *
10126818 CATGGAGGCATCAACGTACATGACTTGTAACTCTATAGCAATTGTCAATGGCTCATTAAAAAACC
131 CATGGAGGCATCAATGTACATGACTTGTACCTCTATAGCAATTGTCAATGGCTCATTAAAAAGCC
10126883 TACAACATAATTGTTAGGGTTACGATGAC-AAACATATACA-ATACAAACAAAAAGAGTGAGAAA
196 TACAACATAATTGTT-GGGTTACGATGACTAAACATATA-AGATACAAACAAAAAGAGTGAGAAA
* *
10126946 GGATGAACTC-CTCACAAACTAAGCACACCATGCTCATCATAAAATTTTACTAGCA
259 GGATAAAC-CACTCACAAACAAAGCACACCATGCTCATCATAAAA-TTTACTAGCA
10127001 GCATGGCATG
Statistics
Matches: 620, Mismatches: 47, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
359 70 0.11
360 13 0.02
361 442 0.71
362 94 0.15
363 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (359 bp):
CCAACAGTTGCAATTTTGTGCAAAATTAATTTCAGCACATAGTTGATATGCAAGAATCTATATCT
ACTCTTTGTCGGACAAAAAGTAACAAATGATATTAAATGCATGCAGTAAGTATATTTTGGAAGTT
CATGGAGGCATCAATGTACATGACTTGTACCTCTATAGCAATTGTCAATGGCTCATTAAAAAGCC
TACAACATAATTGTTGGGTTACGATGACTAAACATATAAGATACAAACAAAAAGAGTGAGAAAGG
ATAAACCACTCACAAACAAAGCACACCATGCTCATCATAAAATTTACTAGCAACAAGGCTGCATG
GAAGACCATGCTTCCTAAATGAGTGTCAAGCAGC
Found at i:10135732 original size:21 final size:20
Alignment explanation
Indices: 10135691--10135735 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
10135681 ATATATATTA
10135691 TTTATAAAAAAATTAACATAT
1 TTTATAAAAAAA-TAACATAT
10135712 TTTATTAAAAAAA-AACTATAT
1 TTTA-TAAAAAAATAAC-ATAT
10135733 TTT
1 TTT
10135736 CATGATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 8 0.36
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTATAAAAAAATAACATAT
Found at i:10135914 original size:25 final size:25
Alignment explanation
Indices: 10135867--10135914 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
10135857 GAATTAATTG
* *
10135867 ATTATTACTCATCAAACAGATTAAA
1 ATTATTAATCATCAAACAAATTAAA
* *
10135892 ATTATTAATTATCAAGCAAATTA
1 ATTATTAATCATCAAACAAATTA
10135915 TGAGAACATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTATTAATCATCAAACAAATTAAA
Found at i:10137654 original size:14 final size:14
Alignment explanation
Indices: 10137635--10137685 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
10137625 CAAAAAAGTC
10137635 AAAAAATTTAAACAA
1 AAAAAATTTAAA-AA
*
10137650 AAAAAATATAAAAA
1 AAAAAATTTAAAAA
*
10137664 AAAAAACATTAAAGAA
1 AAAAAA-TTTAAA-AA
10137680 AAAAAA
1 AAAAAA
10137686 AAGTGAGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 8 0.26
15 15 0.48
16 8 0.26
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (14 bp):
AAAAAATTTAAAAA
Found at i:10138593 original size:12 final size:13
Alignment explanation
Indices: 10138578--10138606 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10138568 TTCCTTTTCG
10138578 TTTTTTGTTTT-A
1 TTTTTTGTTTTGA
10138590 TTTTTTGTTTTGA
1 TTTTTTGTTTTGA
10138603 TTTT
1 TTTT
10138607 GATTTGATTT
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:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (13 bp):
TTTTTTGTTTTGA
Found at i:10138814 original size:20 final size:20
Alignment explanation
Indices: 10138786--10138854 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
10138776 ATTATTTATC
*
10138786 ATTTGCATGATTAATAATAT
1 ATTTACATGATTAATAATAT
10138806 ATTTACATGATT-AT--T-T
1 ATTTACATGATTAATAATAT
** *
10138822 ATTTGTATGACTAATAATAT
1 ATTTACATGATTAATAATAT
*
10138842 ATTTATATGATTA
1 ATTTACATGATTA
10138855 TTTATTATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.26
17 3 0.08
19 3 0.08
20 23 0.59
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (20 bp):
ATTTACATGATTAATAATAT
Found at i:10138831 original size:16 final size:16
Alignment explanation
Indices: 10138812--10138893 Score: 51
Period size: 16 Copynumber: 4.8 Consensus size: 16
10138802 ATATATTTAC
10138812 ATGATTATTTATTTGT
1 ATGATTATTTATTTGT
* *
10138828 ATGACTAATAATATATTTAT
1 ATGA-T--T-ATTTATTTGT
10138848 ATGATTATTTATTATG-
1 ATGATTATTTATT-TGT
* *
10138864 ACT-AATATTTTATTTGC
1 A-TGATTA-TTTATTTGT
10138881 ATGATTATTTATT
1 ATGATTATTTATT
10138894 ATTTGCATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
16 23 0.45
17 14 0.27
19 2 0.04
20 12 0.24
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.55
Consensus pattern (16 bp):
ATGATTATTTATTTGT
Found at i:10138837 original size:36 final size:36
Alignment explanation
Indices: 10138786--10138893 Score: 141
Period size: 36 Copynumber: 3.1 Consensus size: 36
10138776 ATTATTTATC
* *
10138786 ATTTGCATGATTAATAATATATTTACATGATTATTT
1 ATTTGTATGACTAATAATATATTTACATGATTATTT
*
10138822 ATTTGTATGACTAATAATATATTTATATGATTATTT
1 ATTTGTATGACTAATAATATATTTACATGATTATTT
* * *
10138858 A--T-TATGACTAATATTTTATTTGCATGATTATTT
1 ATTTGTATGACTAATAATATATTTACATGATTATTT
10138891 ATT
1 ATT
10138894 ATTTGCATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
33 28 0.44
34 1 0.02
36 34 0.54
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (36 bp):
ATTTGTATGACTAATAATATATTTACATGATTATTT
Found at i:10138894 original size:33 final size:33
Alignment explanation
Indices: 10138792--10138895 Score: 136
Period size: 33 Copynumber: 3.1 Consensus size: 33
10138782 TATCATTTGC
*
10138792 ATGATTAATAATATATTTACATGATTATTTATTTGT
1 ATGACTAATAATATATTTACATGATTATTTA--T-T
*
10138828 ATGACTAATAATATATTTATATGATTATTTATT
1 ATGACTAATAATATATTTACATGATTATTTATT
* * *
10138861 ATGACTAATATTTTATTTGCATGATTATTTATT
1 ATGACTAATAATATATTTACATGATTATTTATT
10138894 AT
1 AT
10138896 TTGCATAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
33 32 0.52
34 1 0.02
36 29 0.47
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (33 bp):
ATGACTAATAATATATTTACATGATTATTTATT
Found at i:10138906 original size:16 final size:16
Alignment explanation
Indices: 10138873--10138924 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
10138863 GACTAATATT
10138873 TTATTTGCATGATTATTTA
1 TTATTTGCAT-A--ATTTA
*
10138892 TTATTTGCATAATTTG
1 TTATTTGCATAATTTA
*
10138908 TTATTTGCATAACTTA
1 TTATTTGCATAATTTA
10138924 T
1 T
10138925 AAAATATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 19 0.63
18 1 0.03
19 10 0.33
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.56
Consensus pattern (16 bp):
TTATTTGCATAATTTA
Found at i:10139003 original size:37 final size:34
Alignment explanation
Indices: 10138976--10139053 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
10138966 ATTTAGTATG
*
10138976 ATATTATTGCATGATAATTTTTACATGATATTTT
1 ATATTATTGCATGAAAATTTTTACATGATATTTT
10139010 ATATTATTGCATGAAAATTTTGT--ATGATA-TTT
1 ATATTATTGCATGAAAATTTT-TACATGATATTTT
*
10139042 AGATTATTGCAT
1 ATATTATTGCAT
10139054 AATATCTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 14 0.34
33 6 0.15
34 20 0.49
35 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (34 bp):
ATATTATTGCATGAAAATTTTTACATGATATTTT
Found at i:10139069 original size:32 final size:32
Alignment explanation
Indices: 10138978--10139069 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 32
10138968 TTAGTATGAT
* * *
10138978 ATTATTGCATGATAATTTTTACATGATATTTTAT
1 ATTATTGCATAAT-A-TTTTGCATGATATTTTAG
* *
10139012 ATTATTGCATGAAAATTTTGTATGATA-TTTAG
1 ATTATTGCAT-AATATTTTGCATGATATTTTAG
10139044 ATTATTGCATAATATCTTTGCATGAT
1 ATTATTGCATAATAT-TTTGCATGAT
10139070 TGTTGGTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
31 4 0.08
32 23 0.47
33 10 0.20
34 11 0.22
35 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (32 bp):
ATTATTGCATAATATTTTGCATGATATTTTAG
Found at i:10140369 original size:28 final size:29
Alignment explanation
Indices: 10140328--10140410 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 29
10140318 TTTTAAAAAC
*
10140328 TAAAAATTATCTAAAAAAATATAACAAA-T
1 TAAAAATTATCT-AAAAAATATAAAAAATT
*
10140357 TAAAAA-TATCTAAAAAATTTAAAAAATT
1 TAAAAATTATCTAAAAAATATAAAAAATT
* * *
10140385 TAAAAAATAGCATAAAAAATTTAAAA
1 TAAAAATTATC-TAAAAAATATAAAA
10140411 TCTTAAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
27 13 0.27
28 12 0.25
29 9 0.19
30 14 0.29
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (29 bp):
TAAAAATTATCTAAAAAATATAAAAAATT
Found at i:10140380 original size:48 final size:51
Alignment explanation
Indices: 10140328--10140432 Score: 114
Period size: 48 Copynumber: 2.2 Consensus size: 51
10140318 TTTTAAAAAC
* *
10140328 TAAAAATTATCTAAAAAA-A-TATAACAAATTAAAAATATCTAAAA-AATT-
1 TAAAAATTATCTAAAAAATAGCATAAAAAATTAAAAATAT-TAAAATAATTA
* * *
10140376 TAAAAA--ATTTAAAAAATAGCATAAAAAATTTAAAATCTTAAAATAATTA
1 TAAAAATTATCTAAAAAATAGCATAAAAAATTAAAAATATTAAAATAATTA
10140425 TAAAAATT
1 TAAAAATT
10140433 TTTAAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
46 9 0.20
47 6 0.13
48 25 0.54
49 6 0.13
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (51 bp):
TAAAAATTATCTAAAAAATAGCATAAAAAATTAAAAATATTAAAATAATTA
Found at i:10140410 original size:9 final size:9
Alignment explanation
Indices: 10140284--10140392 Score: 69
Period size: 9 Copynumber: 11.8 Consensus size: 9
10140274 AAAATCTTTA
10140284 AAAAAATTT
1 AAAAAATTT
*
10140293 TAAAAATTT
1 AAAAAATTT
* *
10140302 TAAAAATTC
1 AAAAAATTT
*
10140311 AAATAAGTTT
1 AAA-AAATTT
* *
10140321 TAAAAA-CT
1 AAAAAATTT
*
10140329 AAAAATTATCTA
1 AAAAA--AT-TT
*
10140341 AAAAAATAT
1 AAAAAATTT
*
10140350 AACAAA-TT
1 AAAAAATTT
*
10140358 AAAAATATCT
1 AAAAA-ATTT
10140368 AAAAAATTT
1 AAAAAATTT
10140377 AAAAAATTT
1 AAAAAATTT
10140386 AAAAAAT
1 AAAAAAT
10140393 AGCATAAAAA
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
8 10 0.13
9 45 0.60
10 15 0.20
12 5 0.07
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAAATTT
Found at i:10140416 original size:29 final size:28
Alignment explanation
Indices: 10140284--10140418 Score: 84
Period size: 28 Copynumber: 4.8 Consensus size: 28
10140274 AAAATCTTTA
* *
10140284 AAAAAATTTTAAAAATTTTAAAAAT-TC-
1 AAAAAA-TTTAAAAATTTAAAAAATAGCT
* * * *
10140311 AAATAAGTTTTAAAAA-CTAAAAATTATCT
1 AAA-AA-ATTTAAAAATTTAAAAAATAGCT
* *
10140340 AAAAAAATATAACAAA-TT-AAAAATATCT
1 -AAAAAATTTAA-AAATTTAAAAAATAGCT
10140368 AAAAAATTTAAAAAATTTAAAAAATAGCAT
1 AAAAAATTT-AAAAATTTAAAAAATAGC-T
10140398 AAAAAATTT-AAAATCTTAAAA
1 AAAAAATTTAAAAAT-TTAAAA
10140419 TAATTATAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
27 20 0.23
28 34 0.39
29 20 0.23
30 13 0.15
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.30
Consensus pattern (28 bp):
AAAAAATTTAAAAATTTAAAAAATAGCT
Found at i:10140514 original size:26 final size:26
Alignment explanation
Indices: 10140485--10140536 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10140475 AAAAATAAAA
10140485 AAAAACCAAAAAAAACTTGAGAATTT
1 AAAAACCAAAAAAAACTTGAGAATTT
* * * *
10140511 AAAAATCTAAAAAAATTTGAGCATTT
1 AAAAACCAAAAAAAACTTGAGAATTT
10140537 TTAAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.25
Consensus pattern (26 bp):
AAAAACCAAAAAAAACTTGAGAATTT
Found at i:10140709 original size:26 final size:26
Alignment explanation
Indices: 10140661--10140710 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10140651 AAATATTAGC
*
10140661 TTTTTAATTTTTTGGGAAGATTTTCA
1 TTTTTAATTTTTTGGGAAAATTTTCA
*
10140687 TTTTTAGATTTTTT-TGAAAATTTT
1 TTTTTA-ATTTTTTGGGAAAATTTT
10140711 AAGATTAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.62
Consensus pattern (26 bp):
TTTTTAATTTTTTGGGAAAATTTTCA
Found at i:10140795 original size:15 final size:14
Alignment explanation
Indices: 10140772--10140808 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
10140762 TTTTTCCCAA
10140772 TTTTTTTTGAATTT
1 TTTTTTTTGAATTT
10140786 TTTATTTTTGAATTT
1 TTT-TTTTTGAATTT
10140801 TTTTTTTT
1 TTTTTTTT
10140809 ACATTTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (14 bp):
TTTTTTTTGAATTT
Found at i:10140925 original size:26 final size:26
Alignment explanation
Indices: 10140894--10140952 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
10140884 GATTATTTCA
10140894 AAAATTTT-AGATTGTTTTAAATTTTT
1 AAAATTTTAAG-TTGTTTTAAATTTTT
* * *
10140920 AGAATTTTAAGTTTTTTTAATTTTTT
1 AAAATTTTAAGTTGTTTTAAATTTTT
10140946 AAAATTT
1 AAAATTT
10140953 GTGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (26 bp):
AAAATTTTAAGTTGTTTTAAATTTTT
Found at i:10141074 original size:17 final size:17
Alignment explanation
Indices: 10141050--10141082 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10141040 ATTTTTTGAG
10141050 TTTTAAAAAAT-TTTTT
1 TTTTAAAAAATGTTTTT
10141066 TTTTAAAAAAATGTTTT
1 TTTT-AAAAAATGTTTT
10141083 AGATTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTTAAAAAATGTTTTT
Found at i:10143047 original size:2 final size:2
Alignment explanation
Indices: 10143040--10143072 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10143030 GTTGTAAGTT
10143040 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10143073 TCCAGACACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10144573 original size:52 final size:52
Alignment explanation
Indices: 10144513--10144616 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
10144503 GGACAAGAAA
* * *
10144513 ACTTGCAGAAGAAGAATTTTAAAAGAAAAAATATTCTTAATAGGCAAGTTTG
1 ACTTGCAGAAAAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGCAAGTTTG
* **
10144565 ACTTGCAGAAAAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTTG
1 ACTTGCAGAAAAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGCAAGTTTG
10144617 TATGATTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (52 bp):
ACTTGCAGAAAAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGCAAGTTTG
Found at i:10145492 original size:52 final size:52
Alignment explanation
Indices: 10145404--10145504 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
10145394 TGGATAAAAA
10145404 AACTTGCAGAAGAAAAATTCTAAAAGAAAAATGATTCTTAATAAGCAAGCTT
1 AACTTGCAGAAGAAAAATTCTAAAAGAAAAATGATTCTTAATAAGCAAGCTT
* * * * * *
10145456 AACTTGTAGAAGAAGAATTTTAAAAAGAGAGA-GATTCTTAATAGGCAAG
1 AACTTGCAGAAGAAAAATTCT-AAAAGAAAAATGATTCTTAATAAGCAAG
10145505 TTTGTATGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 34 0.81
53 8 0.19
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.25
Consensus pattern (52 bp):
AACTTGCAGAAGAAAAATTCTAAAAGAAAAATGATTCTTAATAAGCAAGCTT
Found at i:10145809 original size:14 final size:14
Alignment explanation
Indices: 10145790--10145818 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10145780 GGTTGATACG
10145790 TTTTGATGTATGTT
1 TTTTGATGTATGTT
10145804 TTTTGATGTATGTT
1 TTTTGATGTATGTT
10145818 T
1 T
10145819 GTAATTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.66
Consensus pattern (14 bp):
TTTTGATGTATGTT
Found at i:10146185 original size:48 final size:48
Alignment explanation
Indices: 10146114--10146210 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
10146104 TTCCCTTTGG
*
10146114 TAGAAGGTTAGAGTTAGTAAAGTTGGAATATTTCATTTTTAAGGTTTA
1 TAGAAGGGTAGAGTTAGTAAAGTTGGAATATTTCATTTTTAAGGTTTA
*
10146162 TAGAAGGGTAGAGTTAGTAAAGTTTGAATATTTCATTTTTAAGGTTTA
1 TAGAAGGGTAGAGTTAGTAAAGTTGGAATATTTCATTTTTAAGGTTTA
10146210 T
1 T
10146211 GTTTGAATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (48 bp):
TAGAAGGGTAGAGTTAGTAAAGTTGGAATATTTCATTTTTAAGGTTTA
Found at i:10154028 original size:8 final size:8
Alignment explanation
Indices: 10154015--10154045 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
10154005 ACGAAGAATG
10154015 TTTTATTT
1 TTTTATTT
10154023 TTTTATTT
1 TTTTATTT
10154031 TTTTATTT
1 TTTTATTT
*
10154039 TTATATT
1 TTTTATT
10154046 ATATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTATTT
Found at i:10154056 original size:16 final size:16
Alignment explanation
Indices: 10154034--10154067 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
10154024 TTTATTTTTT
*
10154034 TATTTTTATATTATATA
1 TATTTTCATATT-TATA
10154051 TATTTTCATATTTATA
1 TATTTTCATATTTATA
10154067 T
1 T
10154068 TTAATAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTCATATTTATA
Found at i:10160944 original size:37 final size:37
Alignment explanation
Indices: 10160890--10160960 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
10160880 TTGATTGCAT
* *
10160890 ATCAGTTTTCATGCTCTTTTCCTAGTGTTTTGAGCAC
1 ATCAGCTTTCATACTCTTTTCCTAGTGTTTTGAGCAC
*
10160927 ATCAGCTTTCATACTCTTTTTCTAGTGTTTTGAG
1 ATCAGCTTTCATACTCTTTTCCTAGTGTTTTGAG
10160961 TGCTCAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (37 bp):
ATCAGCTTTCATACTCTTTTCCTAGTGTTTTGAGCAC
Found at i:10164196 original size:12 final size:12
Alignment explanation
Indices: 10164179--10164213 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
10164169 TATTGGTCTT
*
10164179 TATTTGTTTGTA
1 TATTTGATTGTA
10164191 TATTTGATTGTA
1 TATTTGATTGTA
10164203 TATTTGATTGT
1 TATTTGATTGT
10164214 TGGCTCTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (12 bp):
TATTTGATTGTA
Found at i:10165054 original size:20 final size:20
Alignment explanation
Indices: 10165029--10165069 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10165019 TCTCAAATTA
*
10165029 TCTGCTGCAGTTAAATGAGG
1 TCTGCTGAAGTTAAATGAGG
*
10165049 TCTGCTGAAGTTACATGAGG
1 TCTGCTGAAGTTAAATGAGG
10165069 T
1 T
10165070 GTTCCTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (20 bp):
TCTGCTGAAGTTAAATGAGG
Found at i:10172461 original size:15 final size:15
Alignment explanation
Indices: 10172415--10172463 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
10172405 AAAATATATC
*
10172415 AAAAATAAATAAATA
1 AAAAATAAACAAATA
* **
10172430 ATAAATAAAACTCATA
1 AAAAAT-AAACAAATA
10172446 AAAAATAAACAAATA
1 AAAAATAAACAAATA
10172461 AAA
1 AAA
10172464 GGGAAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAATAAACAAATA
Found at i:10172734 original size:19 final size:20
Alignment explanation
Indices: 10172710--10172755 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
10172700 ATGTTGTCGG
10172710 AAAATTTG-TCGAAAAATTA
1 AAAATTTGTTCGAAAAATTA
* *
10172729 AAAATTTGTTTGAAAATTTA
1 AAAATTTGTTCGAAAAATTA
10172749 AAAATTT
1 AAAATTT
10172756 TCTAAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (20 bp):
AAAATTTGTTCGAAAAATTA
Found at i:10173321 original size:19 final size:16
Alignment explanation
Indices: 10173288--10173349 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 16
10173278 ATAAAAAATA
10173288 AAAGTAAAA-TAAAGAT
1 AAAG-AAAAGTAAAGAT
10173304 AAATGAATTAAGTAAAGAAT
1 AAA-GAA--AAGTAAAG-AT
*
10173324 AAAGAAAATTAAAGAT
1 AAAGAAAAGTAAAGAT
10173340 AAAGATAAAG
1 AAAGA-AAAG
10173350 AAAATACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
16 12 0.32
17 11 0.29
18 2 0.05
19 8 0.21
20 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (16 bp):
AAAGAAAAGTAAAGAT
Found at i:10173343 original size:16 final size:15
Alignment explanation
Indices: 10173263--10173344 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 15
10173253 TAATAAAGTA
*
10173263 AAAATGAAGAT-AAG
1 AAAATAAAGATAAAG
10173277 AATAA-AAA-ATAAAAG
1 AA-AATAAAGAT-AAAG
10173292 TAAAATAAAGATAAATG
1 -AAAATAAAGATAAA-G
10173309 AATTAAGTAAAGAATAAAG
1 AA--AA-TAAAG-ATAAAG
10173328 AAAATTAAAGATAAAG
1 AAAA-TAAAGATAAAG
10173344 A
1 A
10173345 TAAAGAAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
13 2 0.04
14 4 0.07
15 7 0.13
16 17 0.31
17 10 0.18
18 2 0.04
19 8 0.15
20 5 0.09
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (15 bp):
AAAATAAAGATAAAG
Found at i:10173344 original size:6 final size:6
Alignment explanation
Indices: 10173288--10173371 Score: 54
Period size: 6 Copynumber: 14.5 Consensus size: 6
10173278 ATAAAAAATA
* *
10173288 AAAG-T AAA-AT AAAGAT AAATGAAT TAAG-T AAAGAAT AAAGA- AAA-TT
1 AAAGAT AAAGAT AAAGAT AAA-G-AT AAAGAT AAAG-AT AAAGAT AAAGAT
* * *
10173334 AAAGAT AAAGAT AAAGA- AAATAC AAAGAT AAATAT AAA
1 AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT AAA
10173372 ATATAAAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
5 21 0.34
6 30 0.48
7 7 0.11
8 4 0.06
ACGTcount: A:0.68, C:0.01, G:0.12, T:0.19
Consensus pattern (6 bp):
AAAGAT
Found at i:10173360 original size:23 final size:22
Alignment explanation
Indices: 10173316--10173371 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
10173306 ATGAATTAAG
*
10173316 TAAAGAATAAAGAAAATTAAAGA
1 TAAAG-ATAAAGAAAATCAAAGA
10173339 TAAAGATAAAGAAAATACAAAGA
1 TAAAGATAAAGAAAAT-CAAAGA
*
10173362 TAAATATAAA
1 TAAAGATAAA
10173372 ATATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.18
Consensus pattern (22 bp):
TAAAGATAAAGAAAATCAAAGA
Found at i:10173387 original size:18 final size:19
Alignment explanation
Indices: 10173350--10173390 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10173340 AAAGATAAAG
10173350 AAAATACAAAGATAAATAT
1 AAAATACAAAGATAAATAT
* *
10173369 AAAATATAAA-ATAATTAT
1 AAAATACAAAGATAAATAT
10173387 AAAA
1 AAAA
10173391 ACATTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATACAAAGATAAATAT
Found at i:10173410 original size:22 final size:22
Alignment explanation
Indices: 10173369--10173423 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
10173359 AGATAAATAT
10173369 AAAA-TATA-AAATAATTATAA
1 AAAATTATATAAATAATTATAA
10173389 AAACATT-TATAAAT-ATTAATAA
1 AAA-ATTATATAAATAATT-ATAA
10173411 AAAATTATATAAA
1 AAAATTATATAAA
10173424 ATTGGACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 3 0.10
21 9 0.30
22 18 0.60
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATTATATAAATAATTATAA
Found at i:10173424 original size:12 final size:12
Alignment explanation
Indices: 10173372--10173424 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 12
10173362 TAAATATAAA
10173372 ATATAAAATAATT
1 ATATAAAA-AATT
*
10173385 ATA-AAAACATT
1 ATATAAAAAATT
*
10173396 -TAT-AAATATT
1 ATATAAAAAATT
10173406 A-ATAAAAAATT
1 ATATAAAAAATT
10173417 ATATAAAA
1 ATATAAAA
10173425 TTGGACTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
10 10 0.30
11 10 0.30
12 10 0.30
13 3 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
ATATAAAAAATT
Found at i:10174923 original size:29 final size:29
Alignment explanation
Indices: 10174852--10174924 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
10174842 GTTATATCAC
* * *
10174852 ATTA-ATTAAA-ATATTTATAATTTAAAT
1 ATTATATTAAATATTTTTAAAATTTAAAG
**
10174879 ATTATA-CGAATAATTTTTAAAATTTAAAG
1 ATTATATTAAAT-ATTTTTAAAATTTAAAG
10174908 ATTATATTAAATATTTT
1 ATTATATTAAATATTTT
10174925 AATATAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
27 6 0.17
28 1 0.03
29 25 0.71
30 3 0.09
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (29 bp):
ATTATATTAAATATTTTTAAAATTTAAAG
Found at i:10174959 original size:3 final size:3
Alignment explanation
Indices: 10174951--10174977 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10174941 GATTCATGAG
10174951 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
10174978 TTGAAGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10175469 original size:2 final size:2
Alignment explanation
Indices: 10175462--10175518 Score: 78
Period size: 2 Copynumber: 28.5 Consensus size: 2
10175452 TAATTTCCTT
*
10175462 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
10175504 TA GC TC TC GC TC TC T
1 TC TC TC TC TC TC TC T
10175519 TCTTTTTTGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.04, C:0.47, G:0.04, T:0.46
Consensus pattern (2 bp):
TC
Found at i:10177888 original size:25 final size:25
Alignment explanation
Indices: 10177848--10177898 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
10177838 TAATTATTAT
10177848 TGTGTGGAAAAACTAAGAAATAAAAC
1 TGTGTGGAAAAACTAAG-AATAAAAC
*
10177874 TGTGT-GAAAAACTAAGAGTAAAAC
1 TGTGTGGAAAAACTAAGAATAAAAC
10177898 T
1 T
10177899 TAATGTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.33
25 11 0.46
26 5 0.21
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.22
Consensus pattern (25 bp):
TGTGTGGAAAAACTAAGAATAAAAC
Found at i:10178069 original size:22 final size:22
Alignment explanation
Indices: 10178041--10178084 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10178031 ATTTTTGTCC
10178041 TTAATTCTAGGGATACAAATAT
1 TTAATTCTAGGGATACAAATAT
10178063 TTAATTCTAGGGATACAAATAT
1 TTAATTCTAGGGATACAAATAT
10178085 AAATATACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
TTAATTCTAGGGATACAAATAT
Found at i:10181595 original size:20 final size:22
Alignment explanation
Indices: 10181555--10181598 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10181545 TATACCCCAG
*
10181555 TAGGCTTTTCAAGAGTTTTCAA
1 TAGGCTTTTCAAGACTTTTCAA
10181577 TAGGCTTTTC-AG-CTTTTCAA
1 TAGGCTTTTCAAGACTTTTCAA
10181597 TA
1 TA
10181599 TTTTCTCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 2 0.10
22 10 0.48
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (22 bp):
TAGGCTTTTCAAGACTTTTCAA
Found at i:10182099 original size:22 final size:22
Alignment explanation
Indices: 10182071--10182114 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10182061 AATTTTTGTC
*
10182071 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10182093 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10182115 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:10184253 original size:406 final size:407
Alignment explanation
Indices: 10183500--10184343 Score: 1638
Period size: 406 Copynumber: 2.1 Consensus size: 407
10183490 TATGATAATA
10183500 GTTGCTTCTTACTGTTGAACTCTTGGATTTAGCTAAAAAAAAAAGAAGGAAAAGTAAATTGCAAC
1 GTTGCTTCTTACTGTTGAACTCTTGGATTTAGCTAAAAAAAAAAGAAGGAAAAGTAAATTGCAAC
10183565 TTCATAATAAATAAACAGCTGCAAATTGAAGCATTCGTAATAAATGGTTAATAAATGGGGAAATT
66 TTCATAATAAATAAACAGCTGCAAATTGAAGCATTCGTAATAAATGGTTAATAAATGGGGAAATT
10183630 TTGGGCAATATCTTTTTGCTTGTTTCATAGAGAATAATATATAAGGGTGTCTTCAACTGTGGAAA
131 TTGGGCAATATCTTTTTGCTTGTTTCATAGAGAATAATATATAAGGGTGTCTTCAACTGTGGAAA
10183695 ATTCTGGCCAAAAAAAAAAACAAACTGGAAAATTGGTTTTCTCCAAGCATGTTTCTAGAAAGTGG
196 ATTCTGGCCAAAAAAAAAAACAAACTGGAAAATTGGTTTTCTCCAAGCATGTTTCTAGAAAGTGG
*
10183760 ACATTGAGGAGAAAACTTGTTTGATGGACAACTTTGCACCTCCTAGAAACCCTGCTTTGCAATGT
261 ACATTGAAGAGAAAACTTGTTTGATGGACAACTTTGCACCTCCTAGAAACCCTGCTTTGCAATGT
*
10183825 GTGCCAGGGATATTCTGCGATCTTTTTCTTGTTTCTTTTTCTAATTATATCCTTTCTTTTCTATA
326 GTGCCAGGGATAATCTGCGATCTTTTTCTTGTTTCTTTTTCTAATTATATCCTTTCTTTTCTATA
10183890 CGACTGGAGAAAACATG
391 CGACTGGAGAAAACATG
*
10183907 GTTGCTTCTTACTGTTGAACTCTTGGATTTAGCT-AAAAAAAAAGAGGGAAAAGTAAATTGCAAC
1 GTTGCTTCTTACTGTTGAACTCTTGGATTTAGCTAAAAAAAAAAGAAGGAAAAGTAAATTGCAAC
10183971 TTCATAATAAATAAACAGCTGCAAATTGAAGCATTCGTAATAAATGGTTAATAAATGGGGAAATT
66 TTCATAATAAATAAACAGCTGCAAATTGAAGCATTCGTAATAAATGGTTAATAAATGGGGAAATT
10184036 TTGGGCAATATCTTTTTGCTTGTTTCATAGAGAATAATATATAAGGGTGTCTTCAACTGTGGAAA
131 TTGGGCAATATCTTTTTGCTTGTTTCATAGAGAATAATATATAAGGGTGTCTTCAACTGTGGAAA
10184101 ATTCTGGCCAAAAGAAAAAAA-AAACTGGAAAATTGGTTTTCTCCAAGCATGTTTCTAGAAAGTG
196 ATTCTGGCCAAAA-AAAAAAACAAACTGGAAAATTGGTTTTCTCCAAGCATGTTTCTAGAAAGTG
10184165 GACATTGAAGAGAAAACTTGTTTGATGGACAACTTTGCACCTCCTAGAAACCCTGCTTTGCAATG
260 GACATTGAAGAGAAAACTTGTTTGATGGACAACTTTGCACCTCCTAGAAACCCTGCTTTGCAATG
10184230 TGTGCCAGGGATAATCTGCGATCTTTTTCTTGTTTCTTTTTCTAATTATATCCTTTCTTTTCTAT
325 TGTGCCAGGGATAATCTGCGATCTTTTTCTTGTTTCTTTTTCTAATTATATCCTTTCTTTTCTAT
10184295 ACGACTGGAGAAAACATG
390 ACGACTGGAGAAAACATG
10184313 GTTGCTTCTTACTGTTGAACTCTTGGATTTA
1 GTTGCTTCTTACTGTTGAACTCTTGGATTTA
10184344 CTGGAGAAAA
Statistics
Matches: 433, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
406 392 0.91
407 41 0.09
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (407 bp):
GTTGCTTCTTACTGTTGAACTCTTGGATTTAGCTAAAAAAAAAAGAAGGAAAAGTAAATTGCAAC
TTCATAATAAATAAACAGCTGCAAATTGAAGCATTCGTAATAAATGGTTAATAAATGGGGAAATT
TTGGGCAATATCTTTTTGCTTGTTTCATAGAGAATAATATATAAGGGTGTCTTCAACTGTGGAAA
ATTCTGGCCAAAAAAAAAAACAAACTGGAAAATTGGTTTTCTCCAAGCATGTTTCTAGAAAGTGG
ACATTGAAGAGAAAACTTGTTTGATGGACAACTTTGCACCTCCTAGAAACCCTGCTTTGCAATGT
GTGCCAGGGATAATCTGCGATCTTTTTCTTGTTTCTTTTTCTAATTATATCCTTTCTTTTCTATA
CGACTGGAGAAAACATG
Found at i:10186432 original size:16 final size:18
Alignment explanation
Indices: 10186411--10186444 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10186401 TTTGAAAGTT
10186411 AAAAA-AGGCTTTCCTCA
1 AAAAAGAGGCTTTCCTCA
10186428 AAAAAGAGGCTTTCCTC
1 AAAAAGAGGCTTTCCTC
10186445 TGGGATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (18 bp):
AAAAAGAGGCTTTCCTCA
Found at i:10188550 original size:2 final size:2
Alignment explanation
Indices: 10188543--10188568 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10188533 AAAGAATTAC
10188543 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
10188569 GAAATATAAT
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:10188768 original size:21 final size:20
Alignment explanation
Indices: 10188703--10188770 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
10188693 TTTAATCATG
*
10188703 TTTTTATGTAAAAAAAGTAAT
1 TTTTTATATAAAAAAA-TAAT
*
10188724 GTTTTA-ATAATAAAAATCACAT
1 TTTTTATATAA-AAAAAT-A-AT
10188746 TTTTTATATAAAAAATATAAT
1 TTTTTATATAAAAAA-ATAAT
10188767 TTTT
1 TTTT
10188771 GAAAAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 4 0.10
21 17 0.44
22 12 0.31
23 6 0.15
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (20 bp):
TTTTTATATAAAAAAATAAT
Found at i:10190229 original size:17 final size:17
Alignment explanation
Indices: 10190207--10190243 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10190197 TAAATCTTTT
*
10190207 TTAAAAAATCTTAAATA
1 TTAAAAAATCTTAAAAA
*
10190224 TTAAAAAATTTTAAAAA
1 TTAAAAAATCTTAAAAA
10190241 TTA
1 TTA
10190244 GAATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAATCTTAAAAA
Found at i:10190235 original size:29 final size:31
Alignment explanation
Indices: 10190174--10190235 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
10190164 ATAACAAAAA
* * **
10190174 TTTTAAAAAATTCTATAAATTTTTAAATCTT
1 TTTTAAAAAATTCTATAAATATTAAAAAATT
10190205 TTTTAAAAAA-TCT-TAAATATTAAAAAATT
1 TTTTAAAAAATTCTATAAATATTAAAAAATT
10190234 TT
1 TT
10190236 AAAAATTAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.52
30 3 0.11
31 10 0.37
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (31 bp):
TTTTAAAAAATTCTATAAATATTAAAAAATT
Found at i:10190294 original size:18 final size:17
Alignment explanation
Indices: 10190227--10190313 Score: 54
Period size: 18 Copynumber: 4.9 Consensus size: 17
10190217 TTAAATATTA
*
10190227 AAAAATTT-TAAAAATT
1 AAAAATTTAAAAAAATT
* *
10190243 AGAATTTTAAAAAAATTT
1 AAAAATTTAAAAAAA-TT
10190261 AGAAAA--TAAATGAAAACTT
1 A-AAAATTTAAA--AAAA-TT
10190280 AAAAATTTAAAAAAATAT
1 AAAAATTTAAAAAAAT-T
*
10190298 CAAAATTTAAATAAAA
1 AAAAATTTAAA-AAAA
10190314 AATCCAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
16 6 0.11
17 10 0.18
18 22 0.40
19 13 0.24
20 4 0.07
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAAATTTAAAAAAATT
Found at i:10190302 original size:26 final size:27
Alignment explanation
Indices: 10190253--10190308 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
10190243 AGAATTTTAA
*
10190253 AAAAATTTAGAAAATAAATGAAAACTT
1 AAAAATTTAGAAAATAAATCAAAACTT
*
10190280 AAAAATTTA-AAAA-AATATCAAAATTT
1 AAAAATTTAGAAAATAA-ATCAAAACTT
10190306 AAA
1 AAA
10190309 TAAAAAATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 2 0.08
26 15 0.58
27 9 0.35
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (27 bp):
AAAAATTTAGAAAATAAATCAAAACTT
Done.