Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 41 of 190
Found at i:7038735 original size:16 final size:16
Alignment explanation
Indices: 7038706--7038750 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
7038696 AGGGCTAGTA
* *
7038706 AAAAAATGATATATAT
1 AAAAAATAATATATAC
*
7038722 AAAGAATAATATATAC
1 AAAAAATAATATATAC
7038738 AAAAAATAATATA
1 AAAAAATAATATA
7038751 AATGGTTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (16 bp):
AAAAAATAATATATAC
Found at i:7039172 original size:16 final size:16
Alignment explanation
Indices: 7039137--7039179 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
7039127 TATACAAATG
*
7039137 AATGACATATATAAAAA
1 AATGA-ATAAATAAAAA
*
7039154 AATGAATAAATAAACA
1 AATGAATAAATAAAAA
*
7039170 AATAAATAAA
1 AATGAATAAA
7039180 ATGCAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (16 bp):
AATGAATAAATAAAAA
Found at i:7039935 original size:18 final size:19
Alignment explanation
Indices: 7039909--7039951 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7039899 GATCAAAACA
* *
7039909 AAATATTTTAT-TAATAAT
1 AAATTTTTTATATAAAAAT
7039927 AAATTTTTTATATAAAAAT
1 AAATTTTTTATATAAAAAT
*
7039946 TAATTT
1 AAATTT
7039952 ATGAAAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATTTTTTATATAAAAAT
Found at i:7040153 original size:15 final size:14
Alignment explanation
Indices: 7040127--7040175 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
7040117 TTCACTTTAA
*
7040127 AATAAGTAAAATAT
1 AATAAATAAAATAT
*
7040141 AATAATATAAAATCT
1 AATAA-ATAAAATAT
7040156 AAATAAATAAAATA-
1 -AATAAATAAAATAT
7040170 AATAAA
1 AATAAA
7040176 AACAAAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 14 0.47
16 5 0.17
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:7040170 original size:9 final size:9
Alignment explanation
Indices: 7040124--7040176 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
7040114 TTGTTCACTT
*
7040124 TAAAATAAG
1 TAAAATAAA
7040133 TAAAATATAA
1 TAAAATA-AA
*
7040143 TAATATAAAA
1 TAAAAT-AAA
*
7040153 TCTAAATAAA
1 T-AAAATAAA
7040163 TAAAATAAA
1 TAAAATAAA
7040172 TAAAA
1 TAAAA
7040177 ACAAAAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
9 19 0.53
10 13 0.36
11 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (9 bp):
TAAAATAAA
Found at i:7040201 original size:18 final size:17
Alignment explanation
Indices: 7040169--7040213 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
7040159 TAAATAAAAT
*
7040169 AAATAAAAACAAAAACAA
1 AAATAAAAA-TAAAACAA
*
7040187 AAATAGAAAATAAAATAA
1 AAATA-AAAATAAAACAA
7040205 AAATAAAAA
1 AAATAAAAA
7040214 CCTACAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.11
Consensus pattern (17 bp):
AAATAAAAATAAAACAA
Found at i:7041084 original size:84 final size:84
Alignment explanation
Indices: 7040942--7041110 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
7040932 TCTTCTAGTA
* *
7040942 TGTTTGGTCCCCTATTCTTATAGGGATTGAATCTTTTTTAAACTTTAAAACAACTCAATTCAACC
1 TGTTTGGTCCCCTATTCTTATAGGGATTGAATCTCTTTTAAACTTTAAAACAAATCAATTCAACC
7041007 AGATTTGATTTAATTTGAT
66 AGATTTGATTTAATTTGAT
* *
7041026 TGTTTGGTCCCCTATTCTTATAGGGATTGAATCTCTTTTACACTTTAAAGCAAATCAATTCAACC
1 TGTTTGGTCCCCTATTCTTATAGGGATTGAATCTCTTTTAAACTTTAAAACAAATCAATTCAACC
7041091 AGATTTGATTTAATTTGAT
66 AGATTTGATTTAATTTGAT
7041110 T
1 T
7041111 TTCTGAGAAC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (84 bp):
TGTTTGGTCCCCTATTCTTATAGGGATTGAATCTCTTTTAAACTTTAAAACAAATCAATTCAACC
AGATTTGATTTAATTTGAT
Found at i:7041730 original size:15 final size:14
Alignment explanation
Indices: 7041689--7041731 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 14
7041679 TATTAAAAAG
7041689 ATTCATTTTTATTT
1 ATTCATTTTTATTT
7041703 A-TC-TTTTTA-TT
1 ATTCATTTTTATTT
7041714 ATTCAATTTTTATTT
1 ATTC-ATTTTTATTT
7041729 ATT
1 ATT
7041732 TTCTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.12
12 8 0.32
13 2 0.08
14 7 0.28
15 5 0.20
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTCATTTTTATTT
Found at i:7043343 original size:62 final size:62
Alignment explanation
Indices: 7043308--7043432 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 62
7043298 AATAATCTTT
* *
7043308 TTCAA-TTTTTATT-AAGAAATTATTCAATGCGTTTTTGGTCAAAAATATCTTAAATAATCCCC
1 TTCAATTTTTTATTGAAG--ATTATTCAAGGCGTTTTTGGTCAAAAATACCTTAAATAATCCCC
** * *
7043370 TTCAATTTTTTATTGAAGATTATTCAAGGCGTTTTTACCTAAAAAATACCTTAAATAACCCCC
1 TTCAATTTTTTATTGAAGATTATTCAAGGCGTTTTT-GGTCAAAAATACCTTAAATAATCCCC
7043433 AATAAAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
62 22 0.41
63 29 0.54
64 3 0.06
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (62 bp):
TTCAATTTTTTATTGAAGATTATTCAAGGCGTTTTTGGTCAAAAATACCTTAAATAATCCCC
Found at i:7043794 original size:61 final size:59
Alignment explanation
Indices: 7043729--7043863 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 59
7043719 CAAAAATGTA
* *
7043729 TTGAATAATCCCTAAAAAATATGATAGGGGATTATTAAAGGCATTTTTAG-CATAAAATACC
1 TTGAATAATCCCTAAAAAAT-T-AGAGAGGATTATTAAAGGCATTTTTAGACA-AAAATACC
** * *
7043790 TTGAATAATTCTTTTTAAAAATTAGAGAGGATTATTCAAGGCATTTTTAGACAAAAATACC
1 TTGAATAA-TC-CCTAAAAAATTAGAGAGGATTATTAAAGGCATTTTTAGACAAAAATACC
*
7043851 TTTAATAATCCCT
1 TTGAATAATCCCT
7043864 TCATTTTAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
59 1 0.02
60 2 0.03
61 47 0.76
62 5 0.08
63 7 0.11
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (59 bp):
TTGAATAATCCCTAAAAAATTAGAGAGGATTATTAAAGGCATTTTTAGACAAAAATACC
Found at i:7044842 original size:18 final size:18
Alignment explanation
Indices: 7044819--7044856 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
7044809 AAAAGCTTTT
7044819 AAAATAAATAAAT-AAATA
1 AAAAT-AATAAATAAAATA
*
7044837 AAAATAATAATTAAAATA
1 AAAATAATAAATAAAATA
7044855 AA
1 AA
7044857 GTAAAAGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATAATAAATAAAATA
Found at i:7045882 original size:24 final size:24
Alignment explanation
Indices: 7045851--7045901 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
7045841 TATTTTAATT
* *
7045851 AAATTTTAAT-GTCAAAAAAATAA
1 AAATTTTAATAGTAAAAAAAAAAA
7045874 AAATGTTTAATAGTAAAAAAAAAAA
1 AAAT-TTTAATAGTAAAAAAAAAAA
7045899 AAA
1 AAA
7045902 CTTAAATGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 6 0.25
25 14 0.58
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (24 bp):
AAATTTTAATAGTAAAAAAAAAAA
Found at i:7050133 original size:12 final size:13
Alignment explanation
Indices: 7050102--7050128 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7050092 CATCTTATTT
7050102 TTACTATAAAAAA
1 TTACTATAAAAAA
7050115 TTACTATAAAAAA
1 TTACTATAAAAAA
7050128 T
1 T
7050129 CCTATCCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (13 bp):
TTACTATAAAAAA
Found at i:7059436 original size:2 final size:2
Alignment explanation
Indices: 7059429--7059461 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7059419 GTTACCTACC
7059429 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7059462 CACGCTCCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7061173 original size:2 final size:2
Alignment explanation
Indices: 7061166--7061192 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7061156 TACATACGTG
7061166 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 T
7061193 GCAATCTATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7061383 original size:13 final size:13
Alignment explanation
Indices: 7061365--7061390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7061355 TTTAAAATAA
7061365 AAAAAAAATTTTC
1 AAAAAAAATTTTC
7061378 AAAAAAAATTTTC
1 AAAAAAAATTTTC
7061391 TTAATTATAA
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAAAATTTTC
Found at i:7061779 original size:22 final size:22
Alignment explanation
Indices: 7061741--7061790 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
7061731 AAATATTTTT
* *
7061741 AAAA-ATATCTTTTAAAAAC-A
1 AAAATATATCATTAAAAAACTA
7061761 AAACATATATCATTAAAAAACTA
1 AAA-ATATATCATTAAAAAACTA
7061784 AAAATAT
1 AAAATAT
7061791 TATATTTGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 3 0.12
21 1 0.04
22 17 0.68
23 4 0.16
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAATATATCATTAAAAAACTA
Found at i:7065671 original size:6 final size:6
Alignment explanation
Indices: 7065671--7065700 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7065661 TGGAGGAGGA
7065671 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG
1 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG
7065701 AAATGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:7066839 original size:13 final size:12
Alignment explanation
Indices: 7066804--7066843 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
7066794 TTTTGAAATG
7066804 ATTTAAATCCAA
1 ATTTAAATCCAA
*
7066816 ATTTATTATCCCAA
1 ATTTA-AAT-CCAA
7066830 ATTTAAATCCAA
1 ATTTAAATCCAA
7066842 AT
1 AT
7066844 CCAAAATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 11 0.46
13 4 0.17
14 9 0.38
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTTAAATCCAA
Found at i:7067485 original size:15 final size:15
Alignment explanation
Indices: 7067467--7067500 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7067457 AATATATTTC
* *
7067467 ATTTTAAATTTTAAA
1 ATTTTAAAATATAAA
7067482 ATTTTAAAATATAAA
1 ATTTTAAAATATAAA
7067497 ATTT
1 ATTT
7067501 ATTTTTAGAG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTAAAATATAAA
Found at i:7068396 original size:20 final size:20
Alignment explanation
Indices: 7068349--7068396 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
7068339 ATAAATTTTT
* * *
7068349 AAATAATTATTTAAAATTTA
1 AAATTATTACTTAAAAATTA
* *
7068369 ATACTATTACTTAAAAATTA
1 AAATTATTACTTAAAAATTA
7068389 AAATTATT
1 AAATTATT
7068397 TCATTTTAGC
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATTATTACTTAAAAATTA
Found at i:7069999 original size:22 final size:21
Alignment explanation
Indices: 7069950--7070001 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
7069940 TAAATTTTCA
*
7069950 AAGATTCAAAATTCAAAATTT
1 AAGATTCAAAATTCAAAATTC
* *
7069971 AACGATTCATAATTGAAAATTCC
1 AA-GATTCAAAATTCAAAATT-C
7069994 AAGATTCA
1 AAGATTCA
7070002 CAAAATATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (21 bp):
AAGATTCAAAATTCAAAATTC
Found at i:7070061 original size:20 final size:20
Alignment explanation
Indices: 7070036--7070075 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7070026 ATTAAGAACA
*
7070036 TTCAAAGATTCACAAAAGTG
1 TTCAAAAATTCACAAAAGTG
*
7070056 TTCAAAAATTCACAAGAGTG
1 TTCAAAAATTCACAAAAGTG
7070076 AAGATTCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
TTCAAAAATTCACAAAAGTG
Found at i:7070156 original size:36 final size:36
Alignment explanation
Indices: 7070116--7070248 Score: 115
Period size: 36 Copynumber: 3.7 Consensus size: 36
7070106 TCAAAGGTTT
* *
7070116 GCAAGGGATCAAAGATTCATAAAAGTTCAAAAACTC
1 GCAAGAGATCAAAGATTCACAAAAGTTCAAAAACTC
* ** ** * *
7070152 GCAAGAGATCATAGATTTGCAACTGTTCAAAGATTC
1 GCAAGAGATCAAAGATTCACAAAAGTTCAAAAACTC
* * * *
7070188 GTAAGAGATCAAAGATTCACAAGAGTTCAAAGATTC
1 GCAAGAGATCAAAGATTCACAAAAGTTCAAAAACTC
* *
7070224 AC-AGAAGATCAGAGATTCACAAAAG
1 GCAAG-AGATCAAAGATTCACAAAAG
7070249 ATAAAAATTT
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
35 2 0.03
36 75 0.97
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (36 bp):
GCAAGAGATCAAAGATTCACAAAAGTTCAAAAACTC
Found at i:7070199 original size:18 final size:18
Alignment explanation
Indices: 7070106--7070364 Score: 87
Period size: 18 Copynumber: 14.5 Consensus size: 18
7070096 TTGCAAGAAT
* * *
7070106 TCAAAGGTTTGCAAGGGA
1 TCAAAGATTCGCAAGAGA
** * *
7070124 TCAAAGATTCATAAAAGT
1 TCAAAGATTCGCAAGAGA
* *
7070142 TCAAAAACTCGCAAGAGA
1 TCAAAGATTCGCAAGAGA
* * ** *
7070160 TCATAGATTTGCAACTGT
1 TCAAAGATTCGCAAGAGA
*
7070178 TCAAAGATTCGTAAGAGA
1 TCAAAGATTCGCAAGAGA
* *
7070196 TCAAAGATTCACAAGAGT
1 TCAAAGATTCGCAAGAGA
*
7070214 TCAAAGATTCAC-AGAAGA
1 TCAAAGATTCGCAAG-AGA
* * *
7070232 TCAGAGATTCACAAAAGA
1 TCAAAGATTCGCAAGAGA
* *
7070250 T-AAAAATTTTGCAAGA-A
1 TCAAAGA-TTCGCAAGAGA
* * * *
7070267 CTAAAAAATTCACAAAAGA
1 -TCAAAGATTCGCAAGAGA
* * *
7070286 TTAAAGATTC-CAAAAAA
1 TCAAAGATTCGCAAGAGA
* * * *
7070303 T-AATGGTTTGCAAGAGT
1 TCAAAGATTCGCAAGAGA
* **
7070320 TCAACGATTCATAAGAGA
1 TCAAAGATTCGCAAGAGA
* ** *
7070338 TCAATGATTTTCAAGAGT
1 TCAAAGATTCGCAAGAGA
7070356 TCAAAGATT
1 TCAAAGATT
7070365 TACAAATAAA
Statistics
Matches: 172, Mismatches: 61, Indels: 16
0.69 0.24 0.06
Matches are distributed among these distances:
16 5 0.03
17 18 0.10
18 142 0.83
19 7 0.04
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.25
Consensus pattern (18 bp):
TCAAAGATTCGCAAGAGA
Found at i:7070265 original size:54 final size:52
Alignment explanation
Indices: 7070207--7070346 Score: 127
Period size: 52 Copynumber: 2.7 Consensus size: 52
7070197 CAAAGATTCA
* * * *
7070207 CAAGAGTTCAAAGATTCACAGAAGATCAGAGATTCACAAAAGATAAAAATTTTG
1 CAAGAGTTCAAAGATTCACAAAAGATCAAAGATTC-CAAAAAAT-AAAAGTTTG
** * * * **
7070261 CAAGAACTAAAAAATTCACAAAAGATTAAAGATTCCAAAAAATAATGGTTTG
1 CAAGAGTTCAAAGATTCACAAAAGATCAAAGATTCCAAAAAATAAAAGTTTG
* * * *
7070313 CAAGAGTTCAACGATTCATAAGAGATCAATGATT
1 CAAGAGTTCAAAGATTCACAAAAGATCAAAGATT
7070347 TTCAAGAGTT
Statistics
Matches: 66, Mismatches: 20, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
52 31 0.47
53 7 0.11
54 28 0.42
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.24
Consensus pattern (52 bp):
CAAGAGTTCAAAGATTCACAAAAGATCAAAGATTCCAAAAAATAAAAGTTTG
Found at i:7070428 original size:57 final size:56
Alignment explanation
Indices: 7070355--7070537 Score: 208
Period size: 57 Copynumber: 3.2 Consensus size: 56
7070345 TTTTCAAGAG
* * **
7070355 TTCAAAGATTTACAAATAAAATTTCAAAATTTTCAATTGTAAATATTTGCAAATAAT
1 TTCAAAGATTCACAAATGAAA-TTCAAAATTTTCAATTGTAAATATTCACAAATAAT
* * * * *
7070412 TTTAAAGATTCACAAATGAAATTCAAAATTTCGCAACTGTAAAGATTCACAAATAGT
1 TTCAAAGATTCACAAATGAAATTCAAAATTT-TCAATTGTAAATATTCACAAATAAT
7070469 TTCAAAGATTTC-CAAATGAAATTCAAAA-TTTCGTAATTGTAAATATTCACAAATAAT
1 TTCAAAGA-TTCACAAATGAAATTCAAAATTTTC--AATTGTAAATATTCACAAATAAT
* *
7070526 CTCAAATATTCA
1 TTCAAAGATTCA
7070538 TATTCAAAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
55 1 0.01
56 15 0.14
57 86 0.82
58 3 0.03
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (56 bp):
TTCAAAGATTCACAAATGAAATTCAAAATTTTCAATTGTAAATATTCACAAATAAT
Found at i:7070750 original size:22 final size:21
Alignment explanation
Indices: 7070728--7070837 Score: 89
Period size: 21 Copynumber: 5.0 Consensus size: 21
7070718 TTCAACAAAT
7070728 TTTAGAGATTCATATCTAAAA
1 TTTAGAGATTCATATCTAAAA
* * *
7070749 TTTA-AAACTTCACATTTGAAAAAA
1 TTTAGAGA-TTCATATCT---AAAA
*
7070773 CTTTAGAGATTCATATATAAAA
1 -TTTAGAGATTCATATCTAAAA
* *
7070795 TTCA-AGATTCATATTTAAAAA
1 TTTAGAGATTCATATCT-AAAA
*
7070816 TTTAGAGATTCATATCCAAAA
1 TTTAGAGATTCATATCTAAAA
7070837 T
1 T
7070838 ACAAAAGGCA
Statistics
Matches: 70, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
20 13 0.19
21 26 0.37
22 14 0.20
24 4 0.06
25 11 0.16
26 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (21 bp):
TTTAGAGATTCATATCTAAAA
Found at i:7070784 original size:46 final size:42
Alignment explanation
Indices: 7070700--7070843 Score: 153
Period size: 46 Copynumber: 3.3 Consensus size: 42
7070690 GAAAATTTCC
* *
7070700 AAAATTCAAATATTTACATTCAACAAATTTTAGAGATTCATATCT
1 AAAATTCAAA-ATTCACATTTAA-AAA-TTTAGAGATTCATATCT
* *
7070745 AAAATTTAAAACTTCACATTTGAAAAAACTTTAGAGATTCATATAT
1 AAAATTCAAAA-TTCACATTT--AAAAA-TTTAGAGATTCATATCT
* * *
7070791 AAAATTCAAGATTCATATTTAAAAATTTAGAGATTCATATCC
1 AAAATTCAAAATTCACATTTAAAAATTTAGAGATTCATATCT
*
7070833 AAAATACAAAA
1 AAAATTCAAAA
7070844 GGCATTTGAA
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
42 24 0.29
43 5 0.06
44 1 0.01
45 24 0.29
46 28 0.33
47 2 0.02
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.34
Consensus pattern (42 bp):
AAAATTCAAAATTCACATTTAAAAATTTAGAGATTCATATCT
Found at i:7070804 original size:20 final size:22
Alignment explanation
Indices: 7070768--7070830 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
7070758 TCACATTTGA
*
7070768 AAAAACTTTAGAGATTCATATAT
1 AAAAA-TTCAGAGATTCATATAT
*
7070791 -AAAATTCA-AGATTCATATTT
1 AAAAATTCAGAGATTCATATAT
*
7070811 AAAAATTTAGAGATTCATAT
1 AAAAATTCAGAGATTCATAT
7070831 CCAAAATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 11 0.31
21 10 0.29
22 14 0.40
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (22 bp):
AAAAATTCAGAGATTCATATAT
Found at i:7073738 original size:13 final size:13
Alignment explanation
Indices: 7073720--7073754 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
7073710 ACTAGGTATA
7073720 ATCATTCTTGACT
1 ATCATTCTTGACT
7073733 ATCATTCTTGACT
1 ATCATTCTTGACT
*
7073746 GTCATTCTT
1 ATCATTCTT
7073755 AACATTAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.49
Consensus pattern (13 bp):
ATCATTCTTGACT
Found at i:7074027 original size:33 final size:33
Alignment explanation
Indices: 7073985--7074052 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
7073975 TGCTCTTGGC
* *
7073985 TTACATTAGCAGGTCTTTCTTGAGTTGAGGATT
1 TTACATTAGCAAGTCTTTCTTGAGTTGAAGATT
*
7074018 TTACATTAGCAAGTTTTTCTTGAGTTGAAGATT
1 TTACATTAGCAAGTCTTTCTTGAGTTGAAGATT
7074051 TT
1 TT
7074053 CTCGCCAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.46
Consensus pattern (33 bp):
TTACATTAGCAAGTCTTTCTTGAGTTGAAGATT
Found at i:7077393 original size:21 final size:20
Alignment explanation
Indices: 7077369--7077407 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7077359 AATTGGTGCT
7077369 TTATTTAATTCATGATTTTAA
1 TTATTTAATT-ATGATTTTAA
*
7077390 TTATTTAATTATTATTTT
1 TTATTTAATTATGATTTT
7077408 CAACTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATTTAATTATGATTTTAA
Found at i:7077782 original size:3 final size:3
Alignment explanation
Indices: 7077776--7077813 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
7077766 TATTAATGTC
*
7077776 ATT ATT ACT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7077814 TATTTTCCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:7077879 original size:3 final size:3
Alignment explanation
Indices: 7077873--7077899 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7077863 TATTGATGCC
7077873 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
7077900 GTTTTTTAGT
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:7079732 original size:37 final size:37
Alignment explanation
Indices: 7079677--7079747 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
7079667 TTTCATTACT
* *
7079677 TATATTTGCTTTATTATTTATTTTTCTTTTTATTGTG
1 TATACTTGCTTTATTATTTATCTTTCTTTTTATTGTG
*
7079714 TATACTTGC-TTATTTATTTGTCTTTCTTTTTATT
1 TATACTTGCTTTA-TTATTTATCTTTCTTTTTATT
7079748 CATTACTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 3 0.10
37 27 0.90
ACGTcount: A:0.15, C:0.08, G:0.07, T:0.69
Consensus pattern (37 bp):
TATACTTGCTTTATTATTTATCTTTCTTTTTATTGTG
Found at i:7082405 original size:23 final size:23
Alignment explanation
Indices: 7082362--7082405 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
7082352 TTCTTTTCTT
*
7082362 TTTTATGCATTTGCATCACATTC
1 TTTTATGCATTTGCATAACATTC
*
7082385 TTTTATTCATTAT-CATAACAT
1 TTTTATGCATT-TGCATAACAT
7082406 CATCATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTTATGCATTTGCATAACATTC
Found at i:7090431 original size:114 final size:113
Alignment explanation
Indices: 7090211--7090616 Score: 357
Period size: 114 Copynumber: 3.6 Consensus size: 113
7090201 AAATTATTTC
* * * **
7090211 ATTTTGACTCGTGGTTTCATCCCGATCACTTGATCTTGGCTCAATCCAGGTCATTTCTCATGATT
1 ATTTTGACTCGTGGTTTCATCCCGATCACTTAATCTT-ACTCAGT-CAAATCATTTCTCATGATT
* * * * * *
7090276 CGTGATTTTGTCTTGATCATTTTTAACCT-TAACTCAATCTTGATCGCTTT
64 CATGATTTCGTCTAGATCATTTTCAACCTCT-ACTCGATCTTGGTCGCTTT
*
7090326 ATTTTGACTCGTGGTTTCATCCCGATCACTTAATCTTACTCAGTCTAAATCATTTCTCATGATTT
1 ATTTTGACTCGTGGTTTCATCCCGATCACTTAATCTTACTCAGTC-AAATCATTTCTCATGATTC
* *
7090391 ATGATTTCGTCATAG-TCATTTTCAACCTCTACTTGGTCTTGGTCG-TTT
65 ATGATTTCGTC-TAGATCATTTTCAACCTCTACTCGATCTTGGTCGCTTT
* ** * *
7090439 CATTTTGACGT-GTAGTTTTGT-CC-A-CA--TAATCTTACTCAGTGCAAATCATTTCCCATAAT
1 -ATTTTGAC-TCGTGGTTTCATCCCGATCACTTAATCTTACTCAGT-CAAATCATTTCTCATGAT
* * * *
7090498 TCATGATTTCATCTCGATCATTTTCAACCTCGACTCGATCTTGGTTGCTTT
63 TCATGATTTCGTCTAGATCATTTTCAACCTCTACTCGATCTTGGTCGCTTT
* * * * * * * *
7090549 ATTTTGACTTGTGATTTTACCCCGATCACCTGATCTTGGCTTAGTCCAAATCATCTT-TCA-GAT
1 ATTTTGACTCGTGGTTTCATCCCGATCACTTAATCTT-ACTCAGT-CAAATCAT-TTCTCATGAT
7090612 TCATG
63 TCATG
7090617 GATCATTTTT
Statistics
Matches: 239, Mismatches: 36, Indels: 33
0.78 0.12 0.11
Matches are distributed among these distances:
108 3 0.01
109 80 0.33
110 6 0.03
111 3 0.01
112 3 0.01
113 6 0.03
114 81 0.34
115 55 0.23
116 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (113 bp):
ATTTTGACTCGTGGTTTCATCCCGATCACTTAATCTTACTCAGTCAAATCATTTCTCATGATTCA
TGATTTCGTCTAGATCATTTTCAACCTCTACTCGATCTTGGTCGCTTT
Found at i:7090506 original size:109 final size:109
Alignment explanation
Indices: 7090261--7090556 Score: 276
Period size: 109 Copynumber: 2.7 Consensus size: 109
7090251 TCAATCCAGG
* * * ** * * ** * *
7090261 TCATTTCTCATGATTCGTGATTTTGTCTTGATCATTTTTAACCTTAACTCAATCTTGATCGCTTT
1 TCATTTCCCATAATTCATGATTTCATCTAGATCATTTTCAACCTCGACTCGATCTTGGTCGCTTT
* **
7090326 ATTTTGAC-TCGTGGTTTCATCCCGATCACTTAATCTTACTCAGTCTAAA
66 ATTTTGACGT-GTAGTTTTGT-CC-A-CA--TAATCTTACTCAGTCTAAA
* * * * * * *
7090375 TCATTTCTCATGATTTATGATTTCGTCATAG-TCATTTTCAACCTCTACTTGGTCTTGGTCG-TT
1 TCATTTCCCATAATTCATGATTTCATC-TAGATCATTTTCAACCTCGACTCGATCTTGGTCGCTT
7090438 TCATTTTGACGTGTAGTTTTGTCCACATAATCTTACTCAGTGC-AAA
65 T-ATTTTGACGTGTAGTTTTGTCCACATAATCTTACTCAGT-CTAAA
* *
7090484 TCATTTCCCATAATTCATGATTTCATCTCGATCATTTTCAACCTCGACTCGATCTTGGTTGCTTT
1 TCATTTCCCATAATTCATGATTTCATCTAGATCATTTTCAACCTCGACTCGATCTTGGTCGCTTT
7090549 ATTTTGAC
66 ATTTTGAC
7090557 TTGTGATTTT
Statistics
Matches: 153, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
108 2 0.01
109 74 0.48
110 4 0.03
111 2 0.01
112 1 0.01
113 5 0.03
114 62 0.41
115 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.44
Consensus pattern (109 bp):
TCATTTCCCATAATTCATGATTTCATCTAGATCATTTTCAACCTCGACTCGATCTTGGTCGCTTT
ATTTTGACGTGTAGTTTTGTCCACATAATCTTACTCAGTCTAAA
Found at i:7091706 original size:13 final size:13
Alignment explanation
Indices: 7091679--7091710 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
7091669 TTTGATTTTA
7091679 TTTTATTTTATTT
1 TTTTATTTTATTT
7091692 TTTTAGTTTTATTT
1 TTTTA-TTTTATTT
7091706 TTTTA
1 TTTTA
7091711 AAACAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:7091826 original size:24 final size:24
Alignment explanation
Indices: 7091769--7091816 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
7091759 AAAATGATTC
*
7091769 AATAAAAAAATCTTTTCAAATAAA
1 AATAACAAAATCTTTTCAAATAAA
7091793 AATAACAAAATCTTTTCAAATAAA
1 AATAACAAAATCTTTTCAAATAAA
7091817 GTTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.29
Consensus pattern (24 bp):
AATAACAAAATCTTTTCAAATAAA
Found at i:7091866 original size:16 final size:17
Alignment explanation
Indices: 7091845--7091884 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
7091835 AAATCCTTTC
*
7091845 AATAAAAA-TTAAAAAA
1 AATAAAAAGGTAAAAAA
7091861 AATAAAAAAGGTAAAAAA
1 AAT-AAAAAGGTAAAAAA
7091879 AATAAA
1 AATAAA
7091885 GCTTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 8 0.38
18 10 0.48
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (17 bp):
AATAAAAAGGTAAAAAA
Found at i:7091981 original size:3 final size:3
Alignment explanation
Indices: 7091973--7091999 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7091963 TCAATGCAAA
7091973 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
7092000 TTTTGTCTTT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7094557 original size:12 final size:12
Alignment explanation
Indices: 7094540--7094566 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7094530 AAAAAGTGAA
7094540 ATGGAATATTGC
1 ATGGAATATTGC
7094552 ATGGAATATTGC
1 ATGGAATATTGC
7094564 ATG
1 ATG
7094567 AATGAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (12 bp):
ATGGAATATTGC
Found at i:7096900 original size:18 final size:19
Alignment explanation
Indices: 7096869--7096910 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
7096859 TTTATAAGGA
* *
7096869 TTTTTATTTGGAAATGATT
1 TTTTTAATTGGAAAGGATT
7096888 TTTTTAATT-GAAAGGATT
1 TTTTTAATTGGAAAGGATT
7096906 TTTTT
1 TTTTT
7096911 TTGTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (19 bp):
TTTTTAATTGGAAAGGATT
Found at i:7096907 original size:17 final size:18
Alignment explanation
Indices: 7096864--7096909 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
7096854 TTTATTTTAT
*
7096864 AAGGA-TTTTTATTTGGA
1 AAGGATTTTTTAATTGGA
*
7096881 AATGATTTTTTTAATT-GA
1 AAGGA-TTTTTTAATTGGA
7096899 AAGGATTTTTT
1 AAGGATTTTTT
7096910 TTTGTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 10 0.42
18 6 0.25
19 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (18 bp):
AAGGATTTTTTAATTGGA
Found at i:7097133 original size:18 final size:19
Alignment explanation
Indices: 7097095--7097149 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
7097085 AAAAAATTTT
*
7097095 AAAAAATAAAAATTTAAAATA
1 AAAAAAT-AAAA-TAAAAATA
**
7097116 TGAAAAT-AAATAAAAATA
1 AAAAAATAAAATAAAAATA
7097134 AAAAAATAAAATAAAA
1 AAAAAATAAAATAAAA
7097150 GTGGAAAAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 12 0.43
19 11 0.39
21 5 0.18
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAAATAAAATAAAAATA
Found at i:7098064 original size:121 final size:120
Alignment explanation
Indices: 7097818--7098067 Score: 263
Period size: 121 Copynumber: 2.1 Consensus size: 120
7097808 ATTGAGGTAA
* * * * ** *
7097818 AAAATAAATAACTGGGATGAAACCACAAGTCATAAGAAATGATTTGGATTGAGTTAAGATTAAGT
1 AAAATAAATAACTAGGACGAAACCACAAGTCATAAGAAATGATTAGAATTGAGCCAAGATCAAGT
* * *
7097883 GACTGAGACAAAACCACAAGTAAAAAATGAAACAACCTAGATCGAGTCAAGATCG
66 GACTGAGACAAAACCACAAGTAAAAAAAGAAACAACCAAGATCAAGTCAAGATCG
* * * *
7097938 AAAATAAATAGCTAGGACGAAACCGCAAGTGATAAGAAATGATTCAGAATTGAGCCAAGATCAGG
1 AAAATAAATAACTAGGACGAAACCACAAGTCATAAGAAATGATT-AGAATTGAGCCAAGATCAAG
* * * * * *
7098003 TGA-TTAGGACAAAACTATAAGTAAAAAAAGAGACGACCAAGA-CTAAGTCGAGATC-
65 TGACTGA-GACAAAACCACAAGTAAAAAAAGAAACAACCAAGATC-AAGTCAAGATCG
7098058 ACAAATAAAT
1 A-AAATAAAT
7098068 GATCGGGATG
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
120 43 0.41
121 63 0.59
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (120 bp):
AAAATAAATAACTAGGACGAAACCACAAGTCATAAGAAATGATTAGAATTGAGCCAAGATCAAGT
GACTGAGACAAAACCACAAGTAAAAAAAGAAACAACCAAGATCAAGTCAAGATCG
Found at i:7098318 original size:69 final size:69
Alignment explanation
Indices: 7098207--7098338 Score: 167
Period size: 69 Copynumber: 1.9 Consensus size: 69
7098197 TCTATAAAAG
** * * * **
7098207 TTTTCAAATTTGTAAGAATGGAAGATTCGCAAGATTTAAAGTTTCGTAAAGGTTTTAGATTCACA
1 TTTTCAAATTCATAAGAAAGAAAAATTCGCAAGATTTAAAGTTTCACAAAGGTTTTAGATTCACA
7098272 ATGA
66 ATGA
* *
7098276 TTTTCAAATTCATAAGAAAGAAAAATTTGCAAGATTCT-AAGTTTCACAAAGTTTTTAGATTCA
1 TTTTCAAATTCATAAGAAAGAAAAATTCGCAAGATT-TAAAGTTTCACAAAGGTTTTAGATTCA
7098339 TAAAGATATA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 52 0.98
70 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (69 bp):
TTTTCAAATTCATAAGAAAGAAAAATTCGCAAGATTTAAAGTTTCACAAAGGTTTTAGATTCACA
ATGA
Found at i:7099468 original size:14 final size:14
Alignment explanation
Indices: 7099431--7099483 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
7099421 TCTTGTTGTC
7099431 TTTTTGTCTTTTT-T
1 TTTTTG-CTTTTTAT
7099445 TTATTT--TTTTTAT
1 TT-TTTGCTTTTTAT
7099458 TTTTTGCTTTTTAT
1 TTTTTGCTTTTTAT
7099472 TTTTTGCTTTTT
1 TTTTTGCTTTTT
7099484 TCATCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.23
13 3 0.09
14 21 0.60
15 3 0.09
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (14 bp):
TTTTTGCTTTTTAT
Found at i:7103160 original size:10 final size:11
Alignment explanation
Indices: 7103141--7103169 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
7103131 GAGGATAAAG
7103141 ATTATTTTATT
1 ATTATTTTATT
7103152 ATT-TTTTATT
1 ATTATTTTATT
7103162 ATTATTTT
1 ATTATTTT
7103170 TTGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:7103165 original size:13 final size:13
Alignment explanation
Indices: 7103147--7103171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7103137 AAAGATTATT
7103147 TTATTATTTTTTA
1 TTATTATTTTTTA
7103160 TTATTATTTTTT
1 TTATTATTTTTT
7103172 GAAAAAAATT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTATTTTTTA
Found at i:7103315 original size:20 final size:19
Alignment explanation
Indices: 7103285--7103331 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
7103275 TTTGTAAGGA
7103285 TTTTTATTTGAAAAAAGATTT
1 TTTTTATTTG--AAAAGATTT
7103306 TTTTTA-TTGAAAAGA-TT
1 TTTTTATTTGAAAAGATTT
7103323 TTTTTATTT
1 TTTTTATTT
7103332 TTATAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 8 0.32
20 3 0.12
21 6 0.24
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (19 bp):
TTTTTATTTGAAAAGATTT
Found at i:7103495 original size:19 final size:17
Alignment explanation
Indices: 7103470--7103512 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
7103460 ACCAATAAAA
* *
7103470 TAAAATAGAATAAAATAT
1 TAAAATACAACAAAAT-T
7103488 TGAAAATACAACAAAATT
1 T-AAAATACAACAAAATT
7103506 TAAAATA
1 TAAAATA
7103513 TGAAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 3 0.14
19 13 0.59
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (17 bp):
TAAAATACAACAAAATT
Found at i:7103520 original size:25 final size:24
Alignment explanation
Indices: 7103480--7103545 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
7103470 TAAAATAGAA
*
7103480 TAAAATATTGAAAATACAACAAAATT
1 TAAAATA-TGAAAATA-AACAAAAAT
*
7103506 TAAAATATGAAAATAAATAAAAAT
1 TAAAATATGAAAATAAACAAAAAT
*
7103530 TAAAA-ATAAAAATAAA
1 TAAAATATGAAAATAAA
7103546 AATGGAAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.27
24 12 0.32
25 8 0.22
26 7 0.19
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (24 bp):
TAAAATATGAAAATAAACAAAAAT
Found at i:7105449 original size:13 final size:13
Alignment explanation
Indices: 7105431--7105455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7105421 ACATATTTTG
7105431 AAATTTTGAATTA
1 AAATTTTGAATTA
7105444 AAATTTTGAATT
1 AAATTTTGAATT
7105456 TTATTATGTT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
AAATTTTGAATTA
Found at i:7107993 original size:2 final size:2
Alignment explanation
Indices: 7107980--7108015 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
7107970 ATTTCATTGG
* *
7107980 AT AT AT AA AT AT AT AT AA 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 AT
7108016 TATGGTCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:7107995 original size:10 final size:10
Alignment explanation
Indices: 7107980--7108015 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
7107970 ATTTCATTGG
7107980 ATATATAAAT
1 ATATATAAAT
7107990 ATATATAAAT
1 ATATATAAAT
*
7108000 ATATATATAT
1 ATATATAAAT
7108010 ATATAT
1 ATATAT
7108016 TATGGTCGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATATAAAT
Found at i:7109870 original size:29 final size:29
Alignment explanation
Indices: 7109817--7109876 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
7109807 TACATATATA
7109817 TATATATATATATATAACCCATAAATTGT
1 TATATATATATATATAACCCATAAATTGT
* * *
7109846 TATATATATATATTTATCCCGTAAATTGT
1 TATATATATATATATAACCCATAAATTGT
7109875 TA
1 TA
7109877 GGCTTCGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (29 bp):
TATATATATATATATAACCCATAAATTGT
Found at i:7113399 original size:58 final size:58
Alignment explanation
Indices: 7113245--7113527 Score: 304
Period size: 58 Copynumber: 4.8 Consensus size: 58
7113235 AAAAAAAATA
* * * * * * *
7113245 TTTCCAAAAGATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAAT
1 TTTCTAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGT
* *
7113303 TTCTATTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGT
1 TT-T-CTAAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGT
**
7113363 TTTCTAAAAAATATTTTCGATG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAATTT
1 TTTCTAAAAAATATTTT-GA-GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGT
* * * * *
7113422 TTTTTAAAAAAATTTTTTTAGAAAAAGTT-AGAAGTATCAATTTTTCTCGAAATTAAAG-
1 TTTCT-AAAAAATATTTTGAGAAAAAGTTGA-AAGTATCAATTTTTCTTGAAAATAAAGT
* * *
7113480 TTTCAAAAAAATATTTTGAGAAAAAATTGAAAGTATTAATTTTTCTTG
1 TTTCTAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
7113528 TACAAAAGCA
Statistics
Matches: 188, Mismatches: 27, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
57 40 0.21
58 50 0.27
59 40 0.21
60 23 0.12
61 35 0.19
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (58 bp):
TTTCTAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGT
Found at i:7113430 original size:15 final size:15
Alignment explanation
Indices: 7113401--7113447 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
7113391 TGAAAGTATC
*
7113401 AATTTTTCTTGAAAAT
1 AATTTTT-TTGAAAAA
*
7113417 AATTTTTTTTAAAAA
1 AATTTTTTTGAAAAA
7113432 AATTTTTTTAGAAAAA
1 AATTTTTTT-GAAAAA
7113448 GTTAGAAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (15 bp):
AATTTTTTTGAAAAA
Found at i:7113462 original size:117 final size:116
Alignment explanation
Indices: 7113245--7113527 Score: 340
Period size: 117 Copynumber: 2.4 Consensus size: 116
7113235 AAAAAAAATA
* * * * *
7113245 TTTCCAAAAGATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTCTATT
1 TTTCAAAAAAATATTTTGA-GAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAATTTCTATT
*
7113310 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAG
64 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAG
* * *
7113362 TTTTCTAAAAAATATTTTCGATGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AATTTTTTT
1 -TTTCAAAAAAATATTTT-GA-GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTCTAT
* * *
7113426 TAAAAAA-ATTTTTTTAGAAAAAGTT-AGAAGTATCAATTTTTCTCGAAATTAAAG
63 TAAAAAATA-TTTTTGAGAAAAAGTTGA-AAGTATCAATTTTCCTCGAAAATAAAG
* *
7113480 TTTCAAAAAAATATTTTGAGAAAAAATTGAAAGTATTAATTTTTCTTG
1 TTTCAAAAAAATATTTTGAG-AAAAGTTGAAAGTATCAATTTTTCTTG
7113528 TACAAAAGCA
Statistics
Matches: 145, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
115 1 0.01
116 29 0.20
117 65 0.45
118 18 0.12
119 32 0.22
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (116 bp):
TTTCAAAAAAATATTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAATTTCTATTAA
AAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAG
Found at i:7119838 original size:3 final size:3
Alignment explanation
Indices: 7119832--7119878 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7119822 ATAATAATAA
7119832 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7119879 GACACTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7122616 original size:84 final size:84
Alignment explanation
Indices: 7122470--7122640 Score: 202
Period size: 84 Copynumber: 2.0 Consensus size: 84
7122460 CCTCAAATCG
* * * *
7122470 GCTAGAAAGAATTAGGGCTTTGGAGAAAAAGCTACTTGGTAGAGGAAAACAACAAAGAGTTCCGA
1 GCTAGAAAGAATTAGAGCTTTGGAGAAAAAGCTACTTGCTAAAGGAAAACAACAAAGAGTTCCAA
* *
7122535 AAGAGCCAAAGGATCAAAA
66 AAGAACAAAAGGATCAAAA
* * * * *
7122554 GCTAGAAAGAATTAGATCTATT-GAGAAGAAGGTACTTGCTAAAGGAAACCAGCAAA-AGGTTCC
1 GCTAGAAAGAATTAGAGCT-TTGGAGAAAAAGCTACTTGCTAAAGGAAAACAACAAAGA-GTTCC
*
7122617 AAAAGAACAAAAGGTTCAAAA
64 AAAAGAACAAAAGGATCAAAA
7122638 GCT
1 GCT
7122641 TGATATTCCA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
83 1 0.01
84 70 0.96
85 2 0.03
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (84 bp):
GCTAGAAAGAATTAGAGCTTTGGAGAAAAAGCTACTTGCTAAAGGAAAACAACAAAGAGTTCCAA
AAGAACAAAAGGATCAAAA
Found at i:7124665 original size:17 final size:16
Alignment explanation
Indices: 7124626--7124667 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
7124616 CTCTTCGATC
7124626 AAATACAAA-AATTTAA
1 AAATA-AAATAATTTAA
7124642 AAATAAAATAATTTAA
1 AAATAAAATAATTTAA
7124658 AAATTAAAAT
1 AAA-TAAAAT
7124668 TTTCTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.12
16 15 0.62
17 6 0.25
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAATAATTTAA
Found at i:7124706 original size:16 final size:16
Alignment explanation
Indices: 7124666--7124706 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
7124656 AAAAATTAAA
* *
7124666 ATTTTCTTTGAATTTT
1 ATTTTTTTTGAATATT
*
7124682 ATATTTTTTGAATATT
1 ATTTTTTTTGAATATT
7124698 ATTTTTTTT
1 ATTTTTTTT
7124707 ATAAAATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (16 bp):
ATTTTTTTTGAATATT
Found at i:7128412 original size:52 final size:52
Alignment explanation
Indices: 7128334--7128439 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
7128324 CTACATGATG
7128334 GTTTTACTTGAAAATAAATAAGGTTTGAATCTCTTTTCCCCAACTAATAAAA
1 GTTTTACTTGAAAATAAATAAGGTTTGAATCTCTTTTCCCCAACTAATAAAA
* * *
7128386 GTTTTACTTGAAAATCAATAAGGTTTGAATCTGTTTTCCCCAACTAGTAAAA
1 GTTTTACTTGAAAATAAATAAGGTTTGAATCTCTTTTCCCCAACTAATAAAA
7128438 GT
1 GT
7128440 ATATTTTTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (52 bp):
GTTTTACTTGAAAATAAATAAGGTTTGAATCTCTTTTCCCCAACTAATAAAA
Found at i:7128667 original size:35 final size:36
Alignment explanation
Indices: 7128597--7128670 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
7128587 GTGTCTCCAA
*
7128597 TTTAAGCTTAAAAGTTCCTTCAACGTAGCTCATGAG
1 TTTAAGCTTAAAAGCTCCTTCAACGTAGCTCATGAG
* *
7128633 TTTAAGCTTGAAAGCTCCTT-AACGTAGCTGATGAG
1 TTTAAGCTTAAAAGCTCCTTCAACGTAGCTCATGAG
7128668 TTT
1 TTT
7128671 TGGCTTTCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
35 17 0.49
36 18 0.51
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (36 bp):
TTTAAGCTTAAAAGCTCCTTCAACGTAGCTCATGAG
Found at i:7129047 original size:30 final size:30
Alignment explanation
Indices: 7129013--7129078 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
7129003 CGAAATAGGT
* * *
7129013 TTTTTCCCAAACAGTTGTTTACAGAATAGA
1 TTTTTCCAAAACAGCTGTTTACAAAATAGA
7129043 TTTTTCCAAAACAGCTGTTTACAAAATAGA
1 TTTTTCCAAAACAGCTGTTTACAAAATAGA
*
7129073 TCTTTC
1 TTTTTC
7129079 ACATAATAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (30 bp):
TTTTTCCAAAACAGCTGTTTACAAAATAGA
Found at i:7129248 original size:15 final size:15
Alignment explanation
Indices: 7129228--7129292 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
7129218 TTCATGGAAC
**
7129228 AATTATTTATTAAAT
1 AATTATTTAAGAAAT
*
7129243 AATTATTCAAGAAAT
1 AATTATTTAAGAAAT
*
7129258 AATTATTTCACGAAAT
1 AATTATTT-AAGAAAT
* *
7129274 AACTATTTAAGAAAC
1 AATTATTTAAGAAAT
7129289 AATT
1 AATT
7129293 TTTTCATAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
15 27 0.68
16 13 0.32
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (15 bp):
AATTATTTAAGAAAT
Found at i:7129272 original size:16 final size:16
Alignment explanation
Indices: 7129239--7129298 Score: 70
Period size: 15 Copynumber: 3.9 Consensus size: 16
7129229 ATTATTTATT
7129239 AAATAATTA-TTCAAG
1 AAATAATTATTTCAAG
*
7129254 AAATAATTATTTCACG
1 AAATAATTATTTCAAG
*
7129270 AAATAACTATTT-AAG
1 AAATAATTATTTCAAG
* *
7129285 AAACAATTTTTTCA
1 AAATAATTATTTCA
7129299 TAAAACAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 20 0.54
16 17 0.46
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (16 bp):
AAATAATTATTTCAAG
Found at i:7129274 original size:31 final size:31
Alignment explanation
Indices: 7129189--7129298 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
7129179 TCAGATGTTT
* * * *
7129189 AAGAAACGATTATTTCATGTAATAACTTTTTC
1 AAGAAACAATTATTTCACGAAATAAC-TATTC
* * ** *
7129221 ATGGAACAATTATTT-ATTAAATAATTATTC
1 AAGAAACAATTATTTCACGAAATAACTATTC
* *
7129251 AAGAAATAATTATTTCACGAAATAACTATTT
1 AAGAAACAATTATTTCACGAAATAACTATTC
*
7129282 AAGAAACAATTTTTTCA
1 AAGAAACAATTATTTCA
7129299 TAAAACAATA
Statistics
Matches: 61, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
30 16 0.26
31 33 0.54
32 12 0.20
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (31 bp):
AAGAAACAATTATTTCACGAAATAACTATTC
Found at i:7129306 original size:16 final size:16
Alignment explanation
Indices: 7129285--7129322 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
7129275 ACTATTTAAG
7129285 AAACAAT-TTTTTCATA
1 AAACAATATTTTT-ATA
7129301 AAACAATATTTTTATA
1 AAACAATATTTTTATA
7129317 AAACAA
1 AAACAA
7129323 CTGTTTACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
AAACAATATTTTTATA
Found at i:7132685 original size:12 final size:12
Alignment explanation
Indices: 7132668--7132692 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7132658 TGATACTTCA
7132668 ATAAAAAAATAT
1 ATAAAAAAATAT
7132680 ATAAAAAAATAT
1 ATAAAAAAATAT
7132692 A
1 A
7132693 AATTTGTCAG
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAAAAATAT
Found at i:7150996 original size:18 final size:18
Alignment explanation
Indices: 7150975--7151017 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
7150965 ATTTCTATCA
*
7150975 TTTTTA-AAGTTTTTAAT
1 TTTTTATAAATTTTTAAT
**
7150992 TTTTTATCTATTTTTAAT
1 TTTTTATAAATTTTTAAT
7151010 TTTTTATA
1 TTTTTATA
7151018 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTATAAATTTTTAAT
Found at i:7151020 original size:27 final size:27
Alignment explanation
Indices: 7150958--7151020 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
7150948 CTTAATCTAA
7150958 TTTTTATA-TTTCTATCATTTTTAAAG
1 TTTTTATATTTTCTATCATTTTTAAAG
* *
7150984 TTTTTA-ATTTTTTATCTATTTTT-AAT
1 TTTTTATATTTTCTATC-ATTTTTAAAG
7151010 TTTTTATATTT
1 TTTTTATATTT
7151021 CAAAATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 1 0.03
26 21 0.66
27 10 0.31
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTTTATATTTTCTATCATTTTTAAAG
Found at i:7160230 original size:187 final size:185
Alignment explanation
Indices: 7159695--7160283 Score: 638
Period size: 187 Copynumber: 3.2 Consensus size: 185
7159685 TTGACGGTGC
* * * * *
7159695 CTTCTAGTGCAAAATGTCTTCAATATTTTACTACTCAAATTTTAAGA-CGATTAGTGAAGGCGTT
1 CTTCTAGTGAAAAATGCCTTCAATATTTCACTACTCAAA-TTTAAGATAG-TTAGTGAAGGCGCT
* * * *
7159759 TATTGTAGAAAAATACCTTCACTAATTTCTTTTAATTTATGTACATAATTATTGTAGGTATTTTT
64 TATTCTAAAAAAATACCTTCACTAATTCCTTTTAATTTATGTACATAATTATTGAAGGTATTTTT
* * *
7159824 TGAGAACAAACGCATTCAATAA--TTTTTTAATACAATTTTTGATATTATTAAAGGCGT
129 TGAGAACAAATGCCTTCAATAATTTTTTTTAA-A-AATTTTTGAGATTATTAAAGGCGT
* ****
7159881 CTTCTAGTGAAAAATGCCTTCAATATTTCACAACTCAAATTTTTTTTACGGTTAGTGAA-GC-CA
1 CTTCTAGTGAAAAATGCCTTCAATATTTCACTACTCAAATTTAAGATA--GTTAGTGAAGGCGC-
* * * *
7159944 TT-TTCT-AGAAAATCGCCTTCACTGATTCCATTTAATTTATGTACATAATTATTGAAGGTATTT
63 TTATTCTAAAAAAAT-ACCTTCACTAATTCCTTTTAATTTATGTACATAATTATTGAAGGTATTT
* * *
7160007 TTTAAGAACAAATGCCTTCAATAATTTCATTTTAAAAATTTTT-AGGATTATTAAAGGTGT
127 TTTGAGAACAAATGCCTTCAATAATTT-TTTTTAAAAATTTTTGA-GATTATTAAAGGCGT
** * *
7160067 CTTCTAGTGAAAAATGCCTTCAATATACCAGTACTTAAATTTGAAGATAGTTAGTGAAGGCGCTT
1 CTTCTAGTGAAAAATGCCTTCAATATTTCACTACTCAAATTT-AAGATAGTTAGTGAAGGCGCTT
* * * *
7160132 ATTCTAAAAAAATACCTTTAATAATTCCTTTTAAATTT-TGTACATAATTATGGAAGGCATTTTT
65 ATTCTAAAAAAATACCTTCACTAATTCCTTTT-AATTTATGTACATAATTATTGAAGGTATTTTT
* * *
7160196 TGATAACAAATGCCTTCAATAATTTTTCTTTAAAATTTTTTGAGTTTATTAAAGGCGT
129 TGAGAACAAATGCCTTCAATAATTTTT-TTTAAAAATTTTTGAGATTATTAAAGGCGT
* * * *
7160254 ATTCTACTAAAAAATGCCTTTAATAATTTC
1 CTTCTAGTGAAAAATGCCTTCAAT-ATTTC
7160284 TTTTAAAAGT
Statistics
Matches: 332, Mismatches: 53, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
184 5 0.02
185 81 0.24
186 101 0.30
187 123 0.37
188 22 0.07
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (185 bp):
CTTCTAGTGAAAAATGCCTTCAATATTTCACTACTCAAATTTAAGATAGTTAGTGAAGGCGCTTA
TTCTAAAAAAATACCTTCACTAATTCCTTTTAATTTATGTACATAATTATTGAAGGTATTTTTTG
AGAACAAATGCCTTCAATAATTTTTTTTAAAAATTTTTGAGATTATTAAAGGCGT
Found at i:7160287 original size:124 final size:123
Alignment explanation
Indices: 7160131--7160402 Score: 343
Period size: 124 Copynumber: 2.2 Consensus size: 123
7160121 TGAAGGCGCT
* ** *
7160131 TATTCTA-AAAAAATACCTTTAATAATTCCTTTTAAATTTTGTACAT-AATTATGGAAGGCATTT
1 TATTCTATAAAAAATGCCTTTAATAATTCCTTTTAAAAGTTGGA-ATGAATTATGGAAGGCATTT
* * *
7160194 TTTGATAACAAATGCCTTCAATAATTTT-TCTTTAAAATTTTTTGAGTTTATTAAAGGCG
65 TTTGATAACAAATGCCTTCAATAATTTTCTC-CTAAAAATTTTTGAGATTATTAAAGGCG
* * * *
7160253 TATTCTACTAAAAAATGCCTTTAATAATTTCTTTTAAAAGTTGGAATGGATTATTGAAGGTATTT
1 TATTCTA-TAAAAAATGCCTTTAATAATTCCTTTTAAAAGTTGGAATGAATTATGGAAGGCATTT
* *
7160318 TTTTATAACAAATGCCTTTAATAATTTTCTCCTAAAAATTTTTGAGATTATTAAAGGCG
65 TTTGATAACAAATGCCTTCAATAATTTTCTCCTAAAAATTTTTGAGATTATTAAAGGCG
* * *
7160377 TCTTCTATTGAAAAATGCCTTGAATA
1 TATTCTA-TAAAAAATGCCTTTAATA
7160403 TACCGATACT
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
122 7 0.05
123 2 0.02
124 118 0.91
125 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (123 bp):
TATTCTATAAAAAATGCCTTTAATAATTCCTTTTAAAAGTTGGAATGAATTATGGAAGGCATTTT
TTGATAACAAATGCCTTCAATAATTTTCTCCTAAAAATTTTTGAGATTATTAAAGGCG
Found at i:7160393 original size:62 final size:62
Alignment explanation
Indices: 7160203--7160402 Score: 185
Period size: 62 Copynumber: 3.2 Consensus size: 62
7160193 TTTTGATAAC
* * * *
7160203 AAATGCCTTCAATAATTTT-TCTTTAAAATTTTTTGAGTTTATTAAAGGCGTATTCTACTAAA
1 AAATGCCTTTAATAATTTTCTC-TTAAAAATTTTTGAGATTATTAAAGGCGTATTCTATTAAA
* * ** * * *
7160265 AAATGCCTTTAATAA-TTTCTTTTAAAAGTTGGAATG-GATTATTGAA-G-GTATTTTTTTATAA
1 AAATGCCTTTAATAATTTTCTCTTAAAAATT--TTTGAGATTATTAAAGGCGTATTCTATTA-AA
* * *
7160326 CAAATGCCTTTAATAATTTTCTCCTAAAAATTTTTGAGATTATTAAAGGCGTCTTCTATTGAA
1 -AAATGCCTTTAATAATTTTCTCTTAAAAATTTTTGAGATTATTAAAGGCGTATTCTATTAAA
*
7160389 AAATGCCTTGAATA
1 AAATGCCTTTAATA
7160403 TACCGATACT
Statistics
Matches: 108, Mismatches: 21, Indels: 18
0.73 0.14 0.12
Matches are distributed among these distances:
60 8 0.07
61 16 0.15
62 60 0.56
63 17 0.16
64 7 0.06
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (62 bp):
AAATGCCTTTAATAATTTTCTCTTAAAAATTTTTGAGATTATTAAAGGCGTATTCTATTAAA
Found at i:7160456 original size:311 final size:311
Alignment explanation
Indices: 7159991--7160581 Score: 807
Period size: 311 Copynumber: 1.9 Consensus size: 311
7159981 TATGTACATA
**
7159991 ATTATTGAAGGTATTTTTTAAGAACAAATGCCTTCAATAATTTCATTTTAAAAATTTTTAGGATT
1 ATTATTGAAGGTATTTTTTAAGAACAAATGCCTTCAATAATTTCATCCTAAAAATTTTTAGGATT
* * * *
7160056 ATTAAAGGTGTCTTCTAGTGAAAAATGCCTTCAATATACCAGTACTTAAATTTGAAGATAGTTAG
66 ATTAAAGGCGTCTTCTAGTGAAAAATGCCTTCAATATACCAGTACTCAAATTTGAAGAAAGTTAA
* * * * * *
7160121 TGAAGGCGCTTATTCTAAAAAAATACCTTTAATAATTCCTTTTAAATTTTGTACATAATTATGGA
131 TAAAGGCACTTAATCCAAAAAAATACCTTTAATAATTCCTTTTAAATGTTGTACATAATTATGAA
* * *
7160186 AGGCATTTTTTGATAACAAATGCCTTCAATAATTTTTCTTT--AAAATTTTTTGAGTTTATTAAA
196 AGGCATTTTTTGATAACAAACGCCTTCAATAATTTTT-TTTAAAAAATTTTTAG-GATTATTAAA
* *
7160249 GGCGTATTCTACTAAAAAATGCCTTTAATAATTTCTTTTAAAAGTTGGAATGG
259 AGCATATTCTACTAAAAAATGCCTTTAATAATTTCTTTTAAAAGTTGGAATGG
* * *
7160302 ATTATTGAAGGTATTTTTTTATAACAAATGCCTTTAATAATTTTC-TCCTAAAAATTTTT-GAGA
1 ATTATTGAAGGTATTTTTTAAGAACAAATGCCTTCAATAA-TTTCATCCTAAAAATTTTTAG-GA
* * *
7160365 TTATTAAAGGCGTCTTCTATTGAAAAATGCCTTGAATATACC-GATACTCAAATTTTATA-AAAG
64 TTATTAAAGGCGTCTTCTAGTGAAAAATGCCTTCAATATACCAG-TACTCAAATTTGA-AGAAAG
* * *
7160428 TTAATAAAGGCATTTAATCCAGAAAAATACCTTTAATAATTTCTTTTAAATGTTGTACATAATTA
127 TTAATAAAGGCACTTAATCCAAAAAAATACCTTTAATAATTCCTTTTAAATGTTGTACATAATTA
* **
7160493 TTAAAGGTGTTTTTTGATAACAAACGCCTTCAATAATTTTTTTTAAAAAATTTTTAGGATTATTA
192 TGAAAGGCATTTTTTGATAACAAACGCCTTCAATAATTTTTTTTAAAAAATTTTTAGGATTATTA
* *
7160558 AAAGCATCTTCTACTGAAAAATGC
257 AAAGCATATTCTACTAAAAAATGC
7160582 TTTTGATATA
Statistics
Matches: 243, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
310 5 0.02
311 223 0.92
312 15 0.06
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (311 bp):
ATTATTGAAGGTATTTTTTAAGAACAAATGCCTTCAATAATTTCATCCTAAAAATTTTTAGGATT
ATTAAAGGCGTCTTCTAGTGAAAAATGCCTTCAATATACCAGTACTCAAATTTGAAGAAAGTTAA
TAAAGGCACTTAATCCAAAAAAATACCTTTAATAATTCCTTTTAAATGTTGTACATAATTATGAA
AGGCATTTTTTGATAACAAACGCCTTCAATAATTTTTTTTAAAAAATTTTTAGGATTATTAAAAG
CATATTCTACTAAAAAATGCCTTTAATAATTTCTTTTAAAAGTTGGAATGG
Found at i:7160604 original size:187 final size:186
Alignment explanation
Indices: 7160263--7160751 Score: 551
Period size: 187 Copynumber: 2.6 Consensus size: 186
7160253 TATTCTACTA
* * *
7160263 AAAAATGCCTTTAATAATTTCTTTTAAAAGTTGGA-ATGGATTATTGAAGGTATTTTTTTATAAC
1 AAAAATGCCTTTAATAATTTCTTTTAAATGTTGTACAT-AATTATTGAAGGTA-TTTTTTATAAC
* * ** * *
7160327 AAATGCCTTTAATAATTTTCTCCT-AAAAATTTTT-GAGATTATTAAAGGCGTCTTCTATTGAAA
64 AAACGCCTTCAATAATTTT-TTTTAAAAAATTTTTAG-GATTATTAAAGGCATCTTCTACTGAAA
*
7160390 AATGCCTTGAATATACCGATACTCAAATTTTATA-AAAGTTAATAAAGGCATTTAATCCAG
127 AATGCCTTGAATATACAGATACTCAAATTTTA-AGAAAGTTAATAAAGGCATTTAATCCAG
* * *
7160450 AAAAATACCTTTAATAATTTCTTTTAAATGTTGTACATAATTATTAAAGGTGTTTTTTGATAACA
1 AAAAATGCCTTTAATAATTTCTTTTAAATGTTGTACATAATTATTGAAGGTATTTTTT-ATAACA
*
7160515 AACGCCTTCAATAATTTTTTTTAAAAAATTTTTAGGATTATTAAAAGCATCTTCTACTGAAAAAT
65 AACGCCTTCAATAATTTTTTTTAAAAAATTTTTAGGATTATTAAAGGCATCTTCTACTGAAAAAT
* * * * * * * *
7160580 GCTTTTG-ATATACTAG-TGCTCAAATTTTAAGATAGTTAGTGAAGGCGTTTATTCTAG
130 GC-CTTGAATATAC-AGATACTCAAATTTTAAGAAAGTTAATAAAGGCATTTAATCCAG
* * * * * * * *
7160637 GAAAATGCCTTCACTAA-TTCATTTTAATTTTTTTACATAATTATTGAAGGTAATTTTTAGAACA
1 AAAAATGCCTTTAATAATTTC-TTTTAAATGTTGTACATAATTATTGAAGGTATTTTTTATAACA
* *
7160701 AACGCCTTCAATAATTTCCTTTTAAAAAATTTTTAGTATTATTAAAGGCAT
65 AACGCCTTCAATAATTT-TTTTTAAAAAATTTTTAGGATTATTAAAGGCAT
7160752 TTTTTAATAT
Statistics
Matches: 257, Mismatches: 36, Indels: 18
0.83 0.12 0.06
Matches are distributed among these distances:
186 34 0.13
187 216 0.84
188 7 0.03
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (186 bp):
AAAAATGCCTTTAATAATTTCTTTTAAATGTTGTACATAATTATTGAAGGTATTTTTTATAACAA
ACGCCTTCAATAATTTTTTTTAAAAAATTTTTAGGATTATTAAAGGCATCTTCTACTGAAAAATG
CCTTGAATATACAGATACTCAAATTTTAAGAAAGTTAATAAAGGCATTTAATCCAG
Found at i:7161605 original size:25 final size:24
Alignment explanation
Indices: 7161575--7161645 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 24
7161565 GAATCGTATG
7161575 CTGAATGTTATGCTGAATGGTGTTT
1 CTGAATGTT-TGCTGAATGGTGTTT
* *
7161600 CTGAATGATTTGTTGAACGGTGTTT
1 CTGAATG-TTTGCTGAATGGTGTTT
*
7161625 CTGAATAGTTTGCTGATTGGT
1 CTGAAT-GTTTGCTGAATGGT
7161646 TTGTTAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 36 0.92
26 3 0.08
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (24 bp):
CTGAATGTTTGCTGAATGGTGTTT
Found at i:7166162 original size:14 final size:14
Alignment explanation
Indices: 7166145--7166175 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7166135 AAAAATCAAC
7166145 ATAATTATAAGATA
1 ATAATTATAAGATA
*
7166159 ATAATTATGAGATA
1 ATAATTATAAGATA
7166173 ATA
1 ATA
7166176 TATATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (14 bp):
ATAATTATAAGATA
Found at i:7167899 original size:10 final size:9
Alignment explanation
Indices: 7167874--7167913 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
7167864 CATCTGAGGG
*
7167874 TTTTTGGGA
1 TTTTTGGGT
7167883 TTTTTGGGT
1 TTTTTGGGT
7167892 TTTCTTGGGT
1 TTT-TTGGGT
7167902 TTTTTGGTGT
1 TTTTTGG-GT
7167912 TT
1 TT
7167914 GTGTTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.03, C:0.03, G:0.30, T:0.65
Consensus pattern (9 bp):
TTTTTGGGT
Found at i:7168225 original size:20 final size:19
Alignment explanation
Indices: 7168202--7168253 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
7168192 GGTTGTTCTA
7168202 AGATTTTCTAGGTTAATCT
1 AGATTTTCTAGGTTAATCT
* *
7168221 CAGATTTTCTGGGTTAGTCT
1 -AGATTTTCTAGGTTAATCT
7168241 AGGATTTTCTAGG
1 A-GATTTTCTAGG
7168254 ATTGGGATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (19 bp):
AGATTTTCTAGGTTAATCT
Found at i:7168729 original size:19 final size:19
Alignment explanation
Indices: 7168702--7168738 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7168692 TAGATTTTTT
* *
7168702 TTATTTTTACTTATTATTA
1 TTATCTTTAATTATTATTA
7168721 TTATCTTTAATTATTATT
1 TTATCTTTAATTATTATT
7168739 TTGCTCATCA
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:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATCTTTAATTATTATTA
Found at i:7172823 original size:3 final size:3
Alignment explanation
Indices: 7172815--7172858 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7172805 AACATCCATT
7172815 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7172859 TTAATTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7185970 original size:49 final size:48
Alignment explanation
Indices: 7185913--7186006 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 48
7185903 TTGAGAAAAG
** *
7185913 ATGAAATTTTTAAAATTGTAGAGCCTTTACTTAGAGGAGCTTTTTCAAA
1 ATGAAATTTTTAAAATTGTAGAGCCTCGACTTAAAGGAG-TTTTTCAAA
*
7185962 ATGAAATTTTTAAAGTTGTAGAGCCTCGACTTAAAGGAGTTTTTC
1 ATGAAATTTTTAAAATTGTAGAGCCTCGACTTAAAGGAGTTTTTC
7186007 CAAGATGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 6 0.15
49 35 0.85
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (48 bp):
ATGAAATTTTTAAAATTGTAGAGCCTCGACTTAAAGGAGTTTTTCAAA
Found at i:7187588 original size:20 final size:21
Alignment explanation
Indices: 7187541--7187592 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
7187531 TAAAACTAAA
7187541 AATAATAAATAATAAAAATTATT
1 AATAA-AAATAATAAAAA-TATT
*
7187564 AATAAAAATAATAAGAA-ATT
1 AATAAAAATAATAAAAATATT
*
7187584 GATAAAAAT
1 AATAAAAAT
7187593 GTAAGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
22 11 0.41
23 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
AATAAAAATAATAAAAATATT
Found at i:7189896 original size:44 final size:45
Alignment explanation
Indices: 7189823--7189954 Score: 159
Period size: 44 Copynumber: 3.0 Consensus size: 45
7189813 TAAAGCCATA
* * *
7189823 AATTTTTCAAA-A-AAACCTTTGAAACTTTGAATGTGAATTTTC-
1 AATTTTTCAAATATGAATCTTTGAAACTTTGAATGTGAATTCTCT
* *
7189865 AATTTTTCAAATGTGAATCTTTGAAAATTTGAATGTGAA-TCTCT
1 AATTTTTCAAATATGAATCTTTGAAACTTTGAATGTGAATTCTCT
*
7189909 AATTTTTCAACTATGAATCTTT-AAGACTTTGAATGTGAA-TCTCT
1 AATTTTTCAAATATGAATCTTTGAA-ACTTTGAATGTGAATTCTCT
7189953 AA
1 AA
7189955 AAATTTTTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
42 11 0.14
43 5 0.06
44 62 0.79
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (45 bp):
AATTTTTCAAATATGAATCTTTGAAACTTTGAATGTGAATTCTCT
Found at i:7189899 original size:22 final size:21
Alignment explanation
Indices: 7189839--7189956 Score: 76
Period size: 22 Copynumber: 5.4 Consensus size: 21
7189829 TCAAAAAAAC
*
7189839 CTTTGAAACTTTGAATGTGAAT
1 CTTT-AAAATTTGAATGTGAAT
** *
7189861 -TTTCAATTTTTCAAATGTGAAT
1 CTTT-AAAATTT-GAATGTGAAT
7189883 CTTTGAAAATTTGAATGTGAAT
1 CTTT-AAAATTTGAATGTGAAT
* ** * *
7189905 CTCTAATTTTTCAACTATGAAT
1 CTTTAAAATTTGAA-TGTGAAT
*
7189927 CTTTAAGACTTTGAATGTGAAT
1 CTTTAA-AATTTGAATGTGAAT
*
7189949 CTCTAAAA
1 CTTTAAAA
7189957 ATTTTTTAAA
Statistics
Matches: 72, Mismatches: 20, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
21 16 0.22
22 43 0.60
23 13 0.18
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (21 bp):
CTTTAAAATTTGAATGTGAAT
Found at i:7190073 original size:46 final size:47
Alignment explanation
Indices: 7189865--7190085 Score: 156
Period size: 46 Copynumber: 4.8 Consensus size: 47
7189855 GTGAATTTTC
* * * * *
7189865 AATTTTTCAAATGTGAATCTTTGAAAATTTGAATGTGAATCT-CT--
1 AATTTTTCAAATATGAATCTTTGAAATTTTGGATATGAAACTCCTAA
* * * * *
7189909 AATTTTTCAACTATGAATCTTT-AAGACTTTGAATGTGAATCT-CTAAA
1 AATTTTTCAAATATGAATCTTTGAA-ATTTTGGATATGAAACTCCT-AA
* * * *
7189956 AATTTTTTAAAGTA--AATATTTGAAAATTTGGAT-GGAAACTCCTAA
1 AATTTTTCAAA-TATGAATCTTTGAAATTTTGGATATGAAACTCCTAA
* *
7190001 AATTTTTTAAATATGAATCATTGAAATTTTGGATATGAAAC-CCTAA
1 AATTTTTCAAATATGAATCTTTGAAATTTTGGATATGAAACTCCTAA
* * * *
7190047 TATTTTTCAGATGA-GAATCTTTGAAATTTTTGTTATGAA
1 AATTTTTCAAAT-ATGAATCTTTGAAATTTTGGATATGAA
7190086 TTGTTAAAGT
Statistics
Matches: 146, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.01
44 40 0.27
45 18 0.12
46 67 0.46
47 17 0.12
48 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.42
Consensus pattern (47 bp):
AATTTTTCAAATATGAATCTTTGAAATTTTGGATATGAAACTCCTAA
Found at i:7190121 original size:23 final size:22
Alignment explanation
Indices: 7190061--7190122 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
7190051 TTTCAGATGA
*
7190061 GAATCTTTGAAATTTTTGTTAT
1 GAATTTTTGAAATTTTTGTTAT
*
7190083 GAATTGTT-AAAGTTTTTGAATT-T
1 GAATTTTTGAAA-TTTTTG--TTAT
7190106 GAATTTTTGAAATTTTT
1 GAATTTTTGAAATTTTT
7190123 TATGTGAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 3 0.09
22 12 0.36
23 13 0.39
24 5 0.15
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (22 bp):
GAATTTTTGAAATTTTTGTTAT
Found at i:7190130 original size:22 final size:23
Alignment explanation
Indices: 7190061--7190131 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 23
7190051 TTTCAGATGA
*
7190061 GAATCTTTGAAATTTTTGT-TAT
1 GAATTTTTGAAATTTTTGTATAT
* * *
7190083 GAATTGTT-AAAGTTTTTGAATTT
1 GAATTTTTGAAA-TTTTTGTATAT
*
7190106 GAATTTTTGAAATTTTT-TATGT
1 GAATTTTTGAAATTTTTGTATAT
7190128 GAAT
1 GAAT
7190132 CTCTAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
21 3 0.08
22 19 0.49
23 14 0.36
24 3 0.08
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (23 bp):
GAATTTTTGAAATTTTTGTATAT
Found at i:7190213 original size:37 final size:35
Alignment explanation
Indices: 7190155--7190237 Score: 82
Period size: 37 Copynumber: 2.3 Consensus size: 35
7190145 GAATAGAAAT
* *
7190155 ATATAACTTTTGAATAGGAATC-TCTAAAATTTTTGGA
1 ATATAAATCTTGAATAGGAATCGT-T-AAATTTTT-GA
7190192 ATATAAATCTTGAAT-GTGAATCGTTAAATTTTTGA
1 ATATAAATCTTGAATAG-GAATCGTTAAATTTTTGA
7190227 ATGA-AAATCTT
1 AT-ATAAATCTT
7190238 TAACTTTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
35 11 0.27
36 10 0.24
37 19 0.46
38 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (35 bp):
ATATAAATCTTGAATAGGAATCGTTAAATTTTTGA
Found at i:7190235 original size:22 final size:21
Alignment explanation
Indices: 7190201--7190278 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
7190191 AATATAAATC
**
7190201 TTGAATGTGAATCGTTAAATTT
1 TTGAATGAAAATC-TTAAATTT
* *
7190223 TTGAATGAAAATCTTTAACTT
1 TTGAATGAAAATCTTAAATTT
** *
7190244 TTGGGTGTAAATCTCTAAAATTT
1 TTGAATGAAAATCT-T-AAATTT
7190267 TTGAATGAAAAT
1 TTGAATGAAAAT
7190279 ATTTGAATAG
Statistics
Matches: 42, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
21 17 0.40
22 12 0.29
23 13 0.31
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (21 bp):
TTGAATGAAAATCTTAAATTT
Found at i:7191141 original size:65 final size:65
Alignment explanation
Indices: 7191072--7191194 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 65
7191062 CTCGATCCAG
* * *
7191072 GTCATTTTATTTT-TCTGACCTACGATTCAATCTTGGTCACTCATCTTCT-ACCTTGACTTGGTC
1 GTCATTTTATTTTGT-TGACCTACGACTCAATCTCGATCACTCAT-TTCTGACCTTGACTTGGTC
7191135 AA
64 AA
* * *
7191137 GTCATTTTATTTTGTTGACCTATGGCTCAATCTCGATCACTCATTTTTGACCTTGACT
1 GTCATTTTATTTTGTTGACCTACGACTCAATCTCGATCACTCATTTCTGACCTTGACT
7191195 CAGTCCAGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
64 3 0.06
65 46 0.92
66 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.44
Consensus pattern (65 bp):
GTCATTTTATTTTGTTGACCTACGACTCAATCTCGATCACTCATTTCTGACCTTGACTTGGTCAA
Found at i:7191221 original size:25 final size:25
Alignment explanation
Indices: 7191188--7191240 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
7191178 CATTTTTGAC
7191188 CTTGACTCAGTCCAGGTTATTTTAT
1 CTTGACTCAGTCCAGGTTATTTTAT
*
7191213 CTTGGCTCAGTCCAGGTTATTTTAT
1 CTTGACTCAGTCCAGGTTATTTTAT
7191238 CTT
1 CTT
7191241 AATGAGCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (25 bp):
CTTGACTCAGTCCAGGTTATTTTAT
Found at i:7192913 original size:23 final size:25
Alignment explanation
Indices: 7192878--7192929 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
7192868 TTTCATCCTA
*
7192878 TTTTCTATGTTGA-TTTGATTTGAT
1 TTTTCTATGTTGATTTTCATTTGAT
*
7192902 TTTTTTAT-TTGATTTTCATTTGAT
1 TTTTCTATGTTGATTTTCATTTGAT
7192926 TTTT
1 TTTT
7192930 AGATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.15, C:0.04, G:0.12, T:0.69
Consensus pattern (25 bp):
TTTTCTATGTTGATTTTCATTTGAT
Found at i:7192935 original size:24 final size:23
Alignment explanation
Indices: 7192887--7192935 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
7192877 ATTTTCTATG
* **
7192887 TTGATTTGATTTGATTTTTTTAT
1 TTGATTTCATTTGATTTTTAGAT
7192910 TTGATTTTCATTTGATTTTTAGAT
1 TTGA-TTTCATTTGATTTTTAGAT
7192934 TT
1 TT
7192936 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.18, C:0.02, G:0.12, T:0.67
Consensus pattern (23 bp):
TTGATTTCATTTGATTTTTAGAT
Found at i:7192957 original size:16 final size:19
Alignment explanation
Indices: 7192938--7192979 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
7192928 TTAGATTTTT
7192938 TTATTTTTA-C-TT-ATTA
1 TTATTTTTATCTTTAATTA
7192954 TTATTTTTATCTTTAATTA
1 TTATTTTTATCTTTAATTA
7192973 TTATTTT
1 TTATTTT
7192980 GCTCATTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.39
17 1 0.04
18 2 0.09
19 11 0.48
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTTTTATCTTTAATTA
Found at i:7192960 original size:22 final size:22
Alignment explanation
Indices: 7192935--7192977 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7192925 TTTTTAGATT
* *
7192935 TTTTTATTTTTACTTATTATTA
1 TTTTTATCTTTAATTATTATTA
7192957 TTTTTATCTTTAATTATTATT
1 TTTTTATCTTTAATTATTATT
7192978 TTGCTCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTTATCTTTAATTATTATTA
Found at i:7201106 original size:36 final size:36
Alignment explanation
Indices: 7201050--7201122 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
7201040 AATAAAAAAA
*
7201050 TTACAGGCAACAATACACACATACAAATCGTGGCAC
1 TTACAGGCAACAATACACACATACAAATCATGGCAC
* *
7201086 TTACAGGCAATAATATACACATACAAATCATGGCAC
1 TTACAGGCAACAATACACACATACAAATCATGGCAC
7201122 T
1 T
7201123 CAATCTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (36 bp):
TTACAGGCAACAATACACACATACAAATCATGGCAC
Found at i:7206636 original size:18 final size:19
Alignment explanation
Indices: 7206604--7206641 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
7206594 ACGTAGTTCC
7206604 TCATTTGTTTATTTA-CTT
1 TCATTTGTTTATTTATCTT
7206622 TCATTT-TTTATTTTATCTT
1 TCATTTGTTTA-TTTATCTT
7206641 T
1 T
7206642 TAATTAGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.71
Consensus pattern (19 bp):
TCATTTGTTTATTTATCTT
Found at i:7207522 original size:16 final size:16
Alignment explanation
Indices: 7207502--7207539 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7207492 CCTTTTTTAC
7207502 TTTTTTGATTTTT-TT
1 TTTTTTGATTTTTATT
*
7207517 TGTTTTAGATTTTTATT
1 T-TTTTTGATTTTTATT
7207534 TTTTTT
1 TTTTTT
7207540 AAAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.79
17 3 0.16
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (16 bp):
TTTTTTGATTTTTATT
Found at i:7207522 original size:23 final size:22
Alignment explanation
Indices: 7207496--7207539 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
7207486 TTTATTCCTT
*
7207496 TTTTACTTTTTTGATTTTTTTTG
1 TTTTACATTTTT-ATTTTTTTTG
*
7207519 TTTTAGATTTTTATTTTTTTT
1 TTTTACATTTTTATTTTTTTT
7207540 AAAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (22 bp):
TTTTACATTTTTATTTTTTTTG
Found at i:7209358 original size:8 final size:8
Alignment explanation
Indices: 7209324--7209487 Score: 109
Period size: 8 Copynumber: 20.5 Consensus size: 8
7209314 TACTATTGTA
7209324 TTATTTATT
1 TTATTTA-T
7209333 TTATTTAT
1 TTATTTAT
7209341 TATATTTAT
1 T-TATTTAT
*
7209350 TTGTTTAT
1 TTATTTAT
7209358 TTA-TTAGT
1 TTATTTA-T
7209366 TTA-TTAGT
1 TTATTTA-T
7209374 TTATTT-T
1 TTATTTAT
7209381 ATTA-TTAT
1 -TTATTTAT
7209389 TTA--TAT
1 TTATTTAT
*
7209395 TTA-TTAG
1 TTATTTAT
7209402 TTATTTAGT
1 TTATTTA-T
7209411 TTA-TTAGT
1 TTATTTA-T
7209419 TTATTTTAT
1 TTA-TTTAT
7209428 TTATTTAT
1 TTATTTAT
7209436 TTA-TTAT
1 TTATTTAT
*
7209443 TTATTTGT
1 TTATTTAT
7209451 TTATTT-T
1 TTATTTAT
7209458 ATTAGTTTAT
1 -TTA-TTTAT
7209468 TT-TATTA-
1 TTAT-TTAT
7209475 TTATATTAT
1 TTAT-TTAT
7209484 TTAT
1 TTAT
7209488 AGATATTTAT
Statistics
Matches: 133, Mismatches: 5, Indels: 34
0.77 0.03 0.20
Matches are distributed among these distances:
6 6 0.05
7 25 0.19
8 65 0.49
9 33 0.25
10 4 0.03
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (8 bp):
TTATTTAT
Found at i:7209377 original size:37 final size:35
Alignment explanation
Indices: 7209317--7209485 Score: 128
Period size: 32 Copynumber: 4.9 Consensus size: 35
7209307 TGTTTTTTAC
7209317 TATTGTATTATTTATTTTATTTATTATATTTATTTGTT
1 TATT-TATTATTTA--TTATTTATTATATTTATTTGTT
* *
7209355 TATTTATTAGTTTATTA-GT-TTAT-TTTA-TT-AT
1 TATTTATTA-TTTATTATTTATTATATTTATTTGTT
* *
7209386 TATTTA-TATTTATTAGTTATT-TAGTTTATTAGTT
1 TATTTATTATTTATTATTTATTATA-TTTATTTGTT
7209420 TA-TT-TTATTTATTTATTTATTA--TTTATTTGTT
1 TATTTATTATTTA-TTATTTATTATATTTATTTGTT
*
7209452 TATTTTATTAGTTTATTTTATTATTATA-TTATTT
1 TA-TTTATTA-TTTATTAT-TTATTATATTTATTT
7209486 ATAGATATTT
Statistics
Matches: 106, Mismatches: 8, Indels: 35
0.71 0.05 0.23
Matches are distributed among these distances:
29 7 0.07
30 4 0.04
31 9 0.08
32 17 0.16
33 13 0.12
34 17 0.16
35 7 0.07
36 13 0.12
37 11 0.10
38 8 0.08
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (35 bp):
TATTTATTATTTATTATTTATTATATTTATTTGTT
Found at i:7209388 original size:45 final size:46
Alignment explanation
Indices: 7209305--7209485 Score: 202
Period size: 45 Copynumber: 4.1 Consensus size: 46
7209295 ACGATTTGCT
*
7209305 TTTGTTT-TTTACTA-TTGTATTA-TTTATTTTATTTATTATATTTA
1 TTTGTTTATTTATTAGTT-TATTAGTTTATTTTATTTATTATATTTA
7209349 TTTGTTTATTTATTAGTTTATTAGTTTATTTTA-TTATTAT-TTATA
1 TTTGTTTATTTATTAGTTTATTAGTTTATTTTATTTATTATATT-TA
* *
7209394 TTT-ATTAGTTATTTAGTTTATTAGTTTATTTTATTTATT-TATTTA
1 TTTGTTTATTTA-TTAGTTTATTAGTTTATTTTATTTATTATATTTA
* * *
7209439 -TTATTTATTTGTTTATTTTATTAGTTTATTTTA-TTATTATA-TTA
1 TTTGTTTATTT-ATTAGTTTATTAGTTTATTTTATTTATTATATTTA
7209483 TTT
1 TTT
7209486 ATAGATATTT
Statistics
Matches: 119, Mismatches: 7, Indels: 21
0.81 0.05 0.14
Matches are distributed among these distances:
44 25 0.21
45 76 0.64
46 18 0.15
ACGTcount: A:0.24, C:0.01, G:0.06, T:0.70
Consensus pattern (46 bp):
TTTGTTTATTTATTAGTTTATTAGTTTATTTTATTTATTATATTTA
Found at i:7209528 original size:16 final size:18
Alignment explanation
Indices: 7209495--7209548 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
7209485 TATAGATATT
7209495 TATTTAAATATAATTTAA
1 TATTTAAATATAATTTAA
7209513 TATTT-AATAT-ATTTAA
1 TATTTAAATATAATTTAA
*
7209529 TATATAAAT-TAATTTCAA
1 TATTTAAATATAATTT-AA
7209547 TA
1 TA
7209549 AATATCTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 11 0.34
17 12 0.38
18 9 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTAAATATAATTTAA
Found at i:7209642 original size:19 final size:19
Alignment explanation
Indices: 7209618--7209699 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
7209608 AACTGACACG
* *
7209618 AAAATAATAAATAATTAAT
1 AAAATAAGAAATAAATAAT
7209637 AAAATAAGAAATAAATAAT
1 AAAATAAGAAATAAATAAT
* * *
7209656 GAAATATAGTAATAAAT-AC
1 AAAATA-AGAAATAAATAAT
* *
7209675 AAAATATAGTAATAACTAA-
1 AAAATA-AGAAATAAATAAT
7209694 AAAATA
1 AAAATA
7209700 TAGTAATGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 44 0.81
20 10 0.19
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
AAAATAAGAAATAAATAAT
Found at i:7209700 original size:19 final size:19
Alignment explanation
Indices: 7209627--7209713 Score: 95
Period size: 19 Copynumber: 4.5 Consensus size: 19
7209617 GAAAATAATA
* *
7209627 AATAATTAATAAAATA-AGA
1 AATAAATAA-AAAATATAGT
*
7209646 AATAAATAATGAAATATAGT
1 AATAAATAA-AAAATATAGT
*
7209666 AATAAATACAAAATATAGT
1 AATAAATAAAAAATATAGT
*
7209685 AATAACTAAAAAATATAGT
1 AATAAATAAAAAATATAGT
*
7209704 AATGAATAAA
1 AATAAATAAA
7209714 TCATACAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 48 0.83
20 10 0.17
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (19 bp):
AATAAATAAAAAATATAGT
Found at i:7209730 original size:17 final size:17
Alignment explanation
Indices: 7209708--7209741 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7209698 TATAGTAATG
*
7209708 AATAAATCATACAATAT
1 AATAAATAATACAATAT
7209725 AATAAATAATACAATAT
1 AATAAATAATACAATAT
7209742 TAACAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAATAATACAATAT
Found at i:7209760 original size:15 final size:15
Alignment explanation
Indices: 7209740--7209789 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 15
7209730 ATAATACAAT
7209740 ATTAACAATATTAAA
1 ATTAACAATATTAAA
7209755 ATTAACAACAATATTAAA
1 ATT---AACAATATTAAA
7209773 ATTAACAATATTAAA
1 ATTAACAATATTAAA
7209788 AT
1 AT
7209790 AATCATTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 17 0.53
18 15 0.47
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAACAATATTAAA
Found at i:7209766 original size:18 final size:18
Alignment explanation
Indices: 7209743--7209780 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
7209733 ATACAATATT
7209743 AACAATATTAAAATTAAC
1 AACAATATTAAAATTAAC
7209761 AACAATATTAAAATTAAC
1 AACAATATTAAAATTAAC
7209779 AA
1 AA
7209781 TATTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (18 bp):
AACAATATTAAAATTAAC
Found at i:7209902 original size:25 final size:25
Alignment explanation
Indices: 7209874--7209925 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
7209864 TCCAACTCCT
*
7209874 AATCATTCGAAGACTGTAAACTAAA
1 AATCATTCGAAGACGGTAAACTAAA
7209899 AATCATTCGAAGACGGTAAACTAAA
1 AATCATTCGAAGACGGTAAACTAAA
7209924 AA
1 AA
7209926 AATAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.21
Consensus pattern (25 bp):
AATCATTCGAAGACGGTAAACTAAA
Found at i:7209987 original size:19 final size:17
Alignment explanation
Indices: 7209963--7210012 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
7209953 AAAAAATTAT
7209963 TAAAAAAATAAGAACTAAA
1 TAAAAAAAT-AGAA-TAAA
7209982 TAAAAAAATAGAATAAA
1 TAAAAAAATAGAATAAA
7209999 -AAAATAAA-AGAATA
1 TAAAA-AAATAGAATA
7210013 TTGATACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.33
17 7 0.23
18 4 0.13
19 9 0.30
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (17 bp):
TAAAAAAATAGAATAAA
Found at i:7209998 original size:13 final size:13
Alignment explanation
Indices: 7209980--7210004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7209970 ATAAGAACTA
7209980 AATAAAAAAATAG
1 AATAAAAAAATAG
7209993 AATAAAAAAATA
1 AATAAAAAAATA
7210005 AAAGAATATT
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAAAAAATAG
Found at i:7210007 original size:18 final size:19
Alignment explanation
Indices: 7209964--7210007 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
7209954 AAAAATTATT
*
7209964 AAAAAAATAAGAACTAAAT
1 AAAAAAATAAGAACTAAAA
7209983 AAAAAAAT-AGAA-TAAAA
1 AAAAAAATAAGAACTAAAA
7210000 AAATAAAA
1 AAA-AAAA
7210008 GAATATTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 8 0.35
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAAAATAAGAACTAAAA
Found at i:7210208 original size:26 final size:27
Alignment explanation
Indices: 7210174--7210234 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
7210164 TAGTATTAGT
*
7210174 TATATATTTA-TCTAACTA-ATTATATAC
1 TATATATTTACT-TAA-TATATTATATAA
7210201 T-TATATTTACTTAATATATTATATAA
1 TATATATTTACTTAATATATTATATAA
7210227 TATATATT
1 TATATATT
7210235 ATTATATCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.07
26 20 0.67
27 8 0.27
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (27 bp):
TATATATTTACTTAATATATTATATAA
Done.