Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 87 of 129
Found at i:13916180 original size:41 final size:41
Alignment explanation
Indices: 13916123--13916361 Score: 356
Period size: 41 Copynumber: 5.8 Consensus size: 41
13916113 TTTGACTAAA
* * * * *
13916123 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
13916164 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
13916205 GCTCCTCTAAACAGAGGCA--ACGAAACTTTGGGAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGGAAAGTAAATT
* *
13916246 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
13916287 GCTCCTCTAAACAGAGACACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
13916328 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAA
13916362 CCACGACTTT
Statistics
Matches: 180, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
41 174 0.97
43 3 0.02
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:13916342 original size:123 final size:123
Alignment explanation
Indices: 13916123--13916346 Score: 412
Period size: 123 Copynumber: 1.8 Consensus size: 123
13916113 TTTGACTAAA
* * *
13916123 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGACACCACG
13916188 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTGGGAAGTAAATT
66 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTGGGAAGTAAATT
*
13916246 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGACACCACG
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGACACCACG
13916311 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA
66 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA
13916347 CCACAACTTT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 97 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (123 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGACACCACG
ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTGGGAAGTAAATT
Found at i:13916370 original size:15 final size:15
Alignment explanation
Indices: 13916346--13916376 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13916336 AAACAGAGGC
13916346 ACCACAACTTTGGAA
1 ACCACAACTTTGGAA
*
13916361 ACCACGACTTTGGAA
1 ACCACAACTTTGGAA
13916376 A
1 A
13916377 GTAAATTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (15 bp):
ACCACAACTTTGGAA
Found at i:13916411 original size:56 final size:56
Alignment explanation
Indices: 13916305--13916417 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
13916295 AAACAGAGAC
*
13916305 ACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAA
1 ACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTAGAA
*
13916361 ACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA-AACTTTAGAA
1 ACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGC-ACCACAACTTTAGAA
13916417 A
1 A
13916418 GTAAATTGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
56 51 0.94
57 3 0.06
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (56 bp):
ACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACAACTTTAGAA
Found at i:13916424 original size:41 final size:41
Alignment explanation
Indices: 13916367--13916448 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
13916357 GGAAACCACG
*
13916367 ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 ACTTTAGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
*
13916408 ACTTTAGAAAGTAAATTGCTCCTCTAAATAGAGGCAACGAA
1 ACTTTAGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
13916449 CTGGGAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (41 bp):
ACTTTAGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
Found at i:13916430 original size:97 final size:96
Alignment explanation
Indices: 13916264--13916443 Score: 281
Period size: 97 Copynumber: 1.9 Consensus size: 96
13916254 AAACAGAGGC
*
13916264 ACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGACACCACGACTTTGGAAAGTAAATTG
1 ACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGACA-CACGACTTTAGAAAGTAAATTG
13916329 CTCCTCTAAACAGAGGCACCACAACTTTGGAA
65 CTCCTCTAAACAGAGGCACCACAACTTTGGAA
* * *
13916361 ACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA-ACGAAACTTTAGAAAGTAAATT
1 ACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGACACACG--ACTTTAGAAAGTAAATT
*
13916425 GCTCCTCTAAATAGAGGCA
64 GCTCCTCTAAACAGAGGCA
13916444 ACGAACTGGG
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
95 3 0.04
97 73 0.96
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (96 bp):
ACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGACACACGACTTTAGAAAGTAAATTGC
TCCTCTAAACAGAGGCACCACAACTTTGGAA
Found at i:13921540 original size:6 final size:6
Alignment explanation
Indices: 13921529--13921557 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13921519 TAATTAAGGA
13921529 AAAATC AAAATC AAAATC AAAATC AAAAT
1 AAAATC AAAATC AAAATC AAAATC AAAAT
13921558 AGAAAGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:13921661 original size:61 final size:62
Alignment explanation
Indices: 13921592--13921895 Score: 370
Period size: 61 Copynumber: 5.0 Consensus size: 62
13921582 TCTTGTGTAG
**
13921592 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TCCCTTTTTTGAAATTTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATCTTTTTTTTGAAATTTTATTTTTTAA
* * **
13921653 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTTTGAAACTTTGA-TTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATCTTTTTTTTGAAA-TTTTATTTTTTAA
* * *
13921714 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATCTTTTTTTTTTTAAA-TTTATTTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATCTTTTTTTTGAAATTTTA-TTTTTTAA
* * * * *
13921776 GAAAAATTGATACTTTCAACTTTTCCTC-AAAA-ACCTTTTTTTTAAAATTTT-TTTTTAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATCTTTTTTTTGAAATTTTATTTTTTAA
* * *
13921835 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTTGGAAATTTTGATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATCTTTTTTTT-GAAATTTT-ATTTTT
13921896 ATTTAAAGAA
Statistics
Matches: 206, Mismatches: 26, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
59 31 0.15
60 18 0.09
61 98 0.48
62 54 0.26
64 5 0.02
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (62 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATCTTTTTTTTGAAATTTTATTTTTTAA
Found at i:13921744 original size:122 final size:121
Alignment explanation
Indices: 13921592--13921895 Score: 414
Period size: 123 Copynumber: 2.5 Consensus size: 121
13921582 TCTTGTGTAG
*** *
13921592 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-TCCCTTTTTTGAAATTTTATTTTTTAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTATTTTTTAAGAA
* * *
13921656 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
66 AAATTGATACTTTCAACTTTTCCTCAAAAA-ACTTTTTTTT-AAAATTTGATTTCAAA
* *
13921714 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATCTTTTTTTTTTTAAA-TTTATTTTTTTAAGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTA-TTTTTTAAGA
* ** *
13921778 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTAAAATTTTTTTTTAAA
65 AAAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTTAAAATTTGATTTCAAA
* *
13921835 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTTGGAAATTTTGATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTT-GAAATTTT-ATTTTT
13921896 ATTTAAAGAA
Statistics
Matches: 161, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
121 53 0.33
122 49 0.30
123 58 0.36
124 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (121 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTATTTTTTAAGAA
AAATTGATACTTTCAACTTTTCCTCAAAAAACTTTTTTTTAAAATTTGATTTCAAA
Found at i:13923008 original size:8 final size:8
Alignment explanation
Indices: 13922979--13923113 Score: 57
Period size: 8 Copynumber: 17.6 Consensus size: 8
13922969 GAGAAGAAAA
*
13922979 AATAATAA
1 AATAATAT
13922987 AAT-A-AT
1 AATAATAT
13922993 AATAATAT
1 AATAATAT
13923001 AATAATAT
1 AATAATAT
13923009 ATATAACTAT
1 A-ATAA-TAT
*
13923019 -ATAAATAC
1 AAT-AATAT
13923027 AATACATAT
1 AATA-ATAT
13923036 -A-AATAT
1 AATAATAT
*
13923042 --TAATAG
1 AATAATAT
13923048 AA-AATA-
1 AATAATAT
13923054 AATAA-AT
1 AATAATAT
13923061 AAATAA-AT
1 -AATAATAT
13923069 AA-AGATAT
1 AATA-ATAT
13923077 ACAT-ATATT
1 A-ATAATA-T
13923086 AAT-ATAT
1 AATAATAT
13923093 AATAATAAT
1 AATAAT-AT
13923102 AATAA-AT
1 AATAATAT
13923109 AATAA
1 AATAA
13923114 AATACAAAAA
Statistics
Matches: 103, Mismatches: 4, Indels: 41
0.70 0.03 0.28
Matches are distributed among these distances:
6 16 0.16
7 23 0.22
8 40 0.39
9 21 0.20
10 3 0.03
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (8 bp):
AATAATAT
Found at i:13923117 original size:56 final size:57
Alignment explanation
Indices: 13922980--13923126 Score: 135
Period size: 56 Copynumber: 2.6 Consensus size: 57
13922970 AGAAGAAAAA
* * **
13922980 ATAATAA-AATAAT-AATAATATAATAATATATATAACTATATAAATACAATACATAT
1 ATAATAATAATAATAAATAATAAAATAA-ATAAATAAAGATATAAATACAATACATAT
* * * *
13923036 A-AATATTAATAGA-AAATAA-ATAAATAAATAAATAAAGATATACATATATTA-ATAT
1 ATAATAATAATA-ATAAATAATA-AAATAAATAAATAAAGATATAAATACAATACATAT
*
13923091 ATAATAATAATAATAAATAATAAAATACAAAAAATA
1 ATAATAATAATAATAAATAATAAAATA-AATAAATA
13923127 CAAAAAAGAA
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
55 10 0.14
56 44 0.60
57 19 0.26
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (57 bp):
ATAATAATAATAATAAATAATAAAATAAATAAATAAAGATATAAATACAATACATAT
Found at i:13924453 original size:45 final size:44
Alignment explanation
Indices: 13924382--13924489 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
13924372 AAAACTTGAT
** * * *
13924382 CAAAGCTCCTCTAATTAAAGGTTCAACGACTTTTGAAAATATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGAC-TTTGAAAAGATAAA
*
13924427 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGGAAAGATAAA
1 CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAGATAAA
* *
13924471 CAAAGCTCATCAAAGCAGA
1 CAAAGCTCCTCTAAGCAGA
13924490 AACATCACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 29 0.53
45 26 0.47
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (44 bp):
CAAAGCTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAGATAAA
Found at i:13924637 original size:44 final size:45
Alignment explanation
Indices: 13924551--13924637 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
13924541 CTTTTGGAAA
*
13924551 AAATAAAGGCAACCACGACTTTGGAAAAAAATAGATTACTCCTCT
1 AAATAAAGGCAACCACGACTTTGGAAAAAAATAAATTACTCCTCT
* *
13924596 AAATAGAGGCAACCACGACTTT-GAAAAAAATAAATTGCTCCT
1 AAATAAAGGCAACCACGACTTTGGAAAAAAATAAATTACTCCT
13924638 TGACAATCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.22
Consensus pattern (45 bp):
AAATAAAGGCAACCACGACTTTGGAAAAAAATAAATTACTCCTCT
Found at i:13924913 original size:20 final size:20
Alignment explanation
Indices: 13924885--13924925 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13924875 CACATCCAGA
* *
13924885 AGTTTAAAGCTTCTCATTTG
1 AGTTCAAAGCTTCACATTTG
*
13924905 AGTTCAAAGGTTCACATTTG
1 AGTTCAAAGCTTCACATTTG
13924925 A
1 A
13924926 TAAATTTGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (20 bp):
AGTTCAAAGCTTCACATTTG
Found at i:13925058 original size:106 final size:106
Alignment explanation
Indices: 13924855--13925049 Score: 239
Period size: 106 Copynumber: 1.8 Consensus size: 106
13924845 TCAAAGAGTC
* * ** * *
13924855 TCATTTGAATTTTGGAGATTCACATCCAGAAGTTTAAAGCTTCTCATTTGAGTTCAAAGGTTCAC
1 TCATTCGAATTTTGGAGATTCACATCCAGAAGTTCAAAGCTTCTCATTCAAGTTCAAAAGCTCAC
*** ***
13924920 ATTTGATAAATTTGGGGTTCACATCCAAAAGTTTAAGCTTT
66 ATGCAATAAATTAAAGGTTCACATCCAAAAGTTTAAGCTTT
13924961 TCATTCGAATTTTGGAGATTCACATCCA-ATAGTTCAAAGCTTCTCATTCAAGTTCAAAAGCTCA
1 TCATTCGAATTTTGGAGATTCACATCCAGA-AGTTCAAAGCTTCTCATTCAAGTTCAAAAGCTCA
*
13925025 CATGCAATAAAACTTAAAGTTTCAC
65 CATGCAAT-AAA-TTAAAGGTTCAC
13925050 TTCTAAGTTC
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
105 1 0.01
106 61 0.84
107 3 0.04
108 8 0.11
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (106 bp):
TCATTCGAATTTTGGAGATTCACATCCAGAAGTTCAAAGCTTCTCATTCAAGTTCAAAAGCTCAC
ATGCAATAAATTAAAGGTTCACATCCAAAAGTTTAAGCTTT
Found at i:13926374 original size:9 final size:8
Alignment explanation
Indices: 13926362--13926443 Score: 53
Period size: 9 Copynumber: 9.6 Consensus size: 8
13926352 CTTTTTCTCC
13926362 TTTCATCTT
1 TTTCAT-TT
13926371 TTTCATTTTT
1 TTTCA--TTT
13926381 TTTCATTT
1 TTTCATTT
*
13926389 TTTCTCTTT
1 TTTC-ATTT
13926398 TTTCATTTTT
1 TTTCA--TTT
13926408 TTTCATTT
1 TTTCATTT
13926416 GTTT--TTT
1 -TTTCATTT
13926423 TTT-ATTT
1 TTTCATTT
*
13926430 TCTTCATTC
1 T-TTCATTT
13926439 TTTCA
1 TTTCA
13926444 CCAATTATAG
Statistics
Matches: 61, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
6 3 0.05
7 7 0.11
8 16 0.26
9 19 0.31
10 15 0.25
11 1 0.02
ACGTcount: A:0.10, C:0.15, G:0.01, T:0.74
Consensus pattern (8 bp):
TTTCATTT
Found at i:13926389 original size:17 final size:17
Alignment explanation
Indices: 13926379--13926415 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13926369 TTTTTCATTT
*
13926379 TTTTTCATTTTTTCTCT
1 TTTTTCATTTTTTCTCA
*
13926396 TTTTTCATTTTTTTTCA
1 TTTTTCATTTTTTCTCA
13926413 TTT
1 TTT
13926416 GTTTTTTTTT
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:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCATTTTTTCTCA
Found at i:13926392 original size:27 final size:27
Alignment explanation
Indices: 13926369--13926430 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
13926359 TCCTTTCATC
13926369 TTTTTCATTTTTTTTCATTTTTTCTCT
1 TTTTTCATTTTTTTTCATTTTTTCTCT
*
13926396 TTTTTCATTTTTTTTCATTTGTT-T-T
1 TTTTTCATTTTTTTTCATTTTTTCTCT
13926421 TTTTT-ATTTT
1 TTTTTCATTTT
13926431 CTTCATTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 5 0.15
25 6 0.18
26 1 0.03
27 22 0.65
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.81
Consensus pattern (27 bp):
TTTTTCATTTTTTTTCATTTTTTCTCT
Found at i:13926430 original size:10 final size:10
Alignment explanation
Indices: 13926369--13926421 Score: 67
Period size: 10 Copynumber: 5.5 Consensus size: 10
13926359 TCCTTTCATC
13926369 TTTTTCATTT
1 TTTTTCATTT
13926379 TTTTTCA--T
1 TTTTTCATTT
*
13926387 TTTTTC-TCT
1 TTTTTCATTT
13926396 TTTTTCATTT
1 TTTTTCATTT
13926406 TTTTTCATTT
1 TTTTTCATTT
13926416 GTTTTT
1 -TTTTT
13926422 TTTTATTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 7 0.18
9 7 0.18
10 19 0.50
11 5 0.13
ACGTcount: A:0.08, C:0.11, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:13933827 original size:3 final size:3
Alignment explanation
Indices: 13933802--13933924 Score: 111
Period size: 3 Copynumber: 42.7 Consensus size: 3
13933792 AAAAGAAAAG
13933802 ATA A-A ATA ATA A-A ATA A-A A-A ATA ATA ATA A-A A-A ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * *
13933842 ATG ATA ATA ATA ATAA ATA ATAA ACA ATA ATA ATA ATA ATA ATG CTA
1 ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
13933889 ATA ATA ATA ATA ATAA ATA A-A ATA A-A ATA A-A ATA AT
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT
13933925 GTGGGTCTAT
Statistics
Matches: 101, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
2 18 0.18
3 72 0.71
4 11 0.11
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:13933831 original size:26 final size:28
Alignment explanation
Indices: 13933802--13933924 Score: 107
Period size: 26 Copynumber: 4.4 Consensus size: 28
13933792 AAAAGAAAAG
13933802 ATAAAATAATAA-AATAA-AAAATAATA
1 ATAAAATAATAACAATAATAAAATAATA
*
13933828 ATAAAA-AAT-A-AATAATGATAATAATA
1 ATAAAATAATAACAATAAT-AAAATAATA
13933854 AT-AAATAATAAACAATAATAATAATAATA
1 ATAAAATAAT-AACAATAATAA-AATAATA
*
13933883 ATGCTAATAATAATAATAATAAATAAAATAA-A
1 A---TAA-AATAATAACAAT-AATAAAATAATA
13933915 ATAAAATAAT
1 ATAAAATAAT
13933925 GTGGGTCTAT
Statistics
Matches: 81, Mismatches: 3, Indels: 24
0.75 0.03 0.22
Matches are distributed among these distances:
24 6 0.07
25 6 0.07
26 19 0.23
28 8 0.10
29 17 0.21
32 3 0.04
33 11 0.14
34 11 0.14
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (28 bp):
ATAAAATAATAACAATAATAAAATAATA
Found at i:13936000 original size:2 final size:2
Alignment explanation
Indices: 13935993--13936027 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
13935983 TTGGGGGAGA
*
13935993 AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13936028 GCAGGTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:13937013 original size:4 final size:4
Alignment explanation
Indices: 13937004--13937041 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
13936994 TAAAATCACA
13937004 TTAT TTAT TTAT TTAT TTAT TTAT TTATT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT T
13937042 GTACTCATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:13937374 original size:14 final size:15
Alignment explanation
Indices: 13937357--13937389 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13937347 TATATTTATA
*
13937357 TAATTATA-ATATTT
1 TAATTATATATAATT
13937371 TAATTATATATAATT
1 TAATTATATATAATT
13937386 TAAT
1 TAAT
13937390 AAGGTTACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTATATATAATT
Found at i:13937705 original size:2 final size:2
Alignment explanation
Indices: 13937698--13937727 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13937688 TTGTTTCATA
13937698 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13937728 TCTTAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13938220 original size:2 final size:2
Alignment explanation
Indices: 13938213--13938238 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13938203 AAATCTTTCG
13938213 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
13938239 GTTATCTTAA
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:13943139 original size:21 final size:21
Alignment explanation
Indices: 13943115--13943157 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13943105 CAATTACACG
*
13943115 TATGATAAGATGATTTTTTTT
1 TATGATAAGATAATTTTTTTT
13943136 TATGATAAGATAATTTTTTTT
1 TATGATAAGATAATTTTTTTT
13943157 T
1 T
13943158 GTTATATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (21 bp):
TATGATAAGATAATTTTTTTT
Found at i:13943795 original size:26 final size:24
Alignment explanation
Indices: 13943766--13943813 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 24
13943756 TTTTAATTAA
13943766 TTATTTAATTATATATATTTATATAT
1 TTATTTAATT-T-TATATTTATATAT
13943792 TTATTTAATTTTATATTTATAT
1 TTATTTAATTTTATATTTATAT
13943814 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.50
25 1 0.05
26 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATTTAATTTTATATTTATATAT
Found at i:13943828 original size:19 final size:19
Alignment explanation
Indices: 13943804--13943855 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
13943794 ATTTAATTTT
13943804 ATATTTATATTAAAAAATA
1 ATATTTATATTAAAAAATA
*
13943823 ATATTTTATATTTAAAAATTA
1 ATA-TTTATA-TTAAAAAATA
13943844 ATATTT-TATTAA
1 ATATTTATATTAA
13943856 TTTCAAGTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.13
19 5 0.17
20 9 0.30
21 12 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTTATATTAAAAAATA
Found at i:13943832 original size:20 final size:21
Alignment explanation
Indices: 13943807--13943852 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
13943797 TAATTTTATA
13943807 TTTATA-TTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
*
13943827 TTTATATTTAAAAATTAATAT
1 TTTATATTTAAAAAATAATAT
13943848 TTTAT
1 TTTAT
13943853 TAATTTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:13950691 original size:4 final size:4
Alignment explanation
Indices: 13950676--13950707 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
13950666 GTTCAGTTGT
13950676 TTTA TGTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTT
13950708 TTGAGTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:13962741 original size:16 final size:16
Alignment explanation
Indices: 13962699--13962760 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
13962689 ATAAGTTTTC
13962699 ATAAAAAAAGATTTTAA
1 ATAAAAAAA-ATTTTAA
*
13962716 ACAAAAAAAAATTTTAA
1 A-TAAAAAAAATTTTAA
13962733 ATAATAAAAAA-TTTAA
1 ATAA-AAAAAATTTTAA
*
13962749 TTAAAAAAAATT
1 ATAAAAAAAATT
13962761 ACTATGTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 6 0.15
16 11 0.28
17 15 0.38
18 7 0.18
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
ATAAAAAAAATTTTAA
Found at i:13970036 original size:18 final size:18
Alignment explanation
Indices: 13970010--13970109 Score: 73
Period size: 18 Copynumber: 5.7 Consensus size: 18
13970000 TTTTGTTCTT
13970010 GATACATTTGAGGTAGAG
1 GATACATTTGAGGTAGAG
* *
13970028 GATATATTTGA-G--GAT
1 GATACATTTGAGGTAGAG
* *
13970043 GATACATTTGTGGTGGAG
1 GATACATTTGAGGTAGAG
* * *
13970061 GGTACATTTGTGGTA-ACT
1 GATACATTTGAGGTAGA-G
* *
13970079 AATACATTTGAGGTGGAG
1 GATACATTTGAGGTAGAG
*
13970097 GATATATTTGAGG
1 GATACATTTGAGG
13970110 AGGTGGATGA
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
15 11 0.18
16 1 0.02
17 2 0.03
18 47 0.76
19 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.34
Consensus pattern (18 bp):
GATACATTTGAGGTAGAG
Found at i:13970051 original size:33 final size:34
Alignment explanation
Indices: 13970009--13970110 Score: 125
Period size: 33 Copynumber: 3.0 Consensus size: 34
13969999 CTTTTGTTCT
*
13970009 TGATACATTTGAGGTAGAGGATATATTTGAGGA-
1 TGATACATTTGAGGTGGAGGATATATTTGAGGAC
* * * *
13970042 TGATACATTTGTGGTGGAGGGTACATTTGTGGTAAC
1 TGATACATTTGAGGTGGAGGATATATTTGAGG--AC
*
13970078 TAATACATTTGAGGTGGAGGATATATTTGAGGA
1 TGATACATTTGAGGTGGAGGATATATTTGAGGA
13970111 GGTGGATGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
33 27 0.48
34 1 0.02
35 1 0.02
36 27 0.48
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.34
Consensus pattern (34 bp):
TGATACATTTGAGGTGGAGGATATATTTGAGGAC
Found at i:13970131 original size:18 final size:18
Alignment explanation
Indices: 13970080--13970135 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
13970070 GTGGTAACTA
* *
13970080 ATACATTTGAGGTGGAGG
1 ATACATTTAAGGTGGATG
*
13970098 ATATATTTGAGGAGGTGGATG
1 ATACATTT-A--AGGTGGATG
13970119 ATACATTTAAGGTGGAT
1 ATACATTTAAGGTGGAT
13970136 AATAACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 15 0.48
20 1 0.03
21 15 0.48
ACGTcount: A:0.30, C:0.04, G:0.34, T:0.32
Consensus pattern (18 bp):
ATACATTTAAGGTGGATG
Found at i:13970489 original size:6 final size:6
Alignment explanation
Indices: 13970478--13970520 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
13970468 CCAAAATTCG
* *
13970478 CACCAT CACCAT CACCAT CACCAT CTCCAT CACCAT CATCAT C
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT C
13970521 TGGACTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.21
Consensus pattern (6 bp):
CACCAT
Found at i:13973607 original size:25 final size:25
Alignment explanation
Indices: 13973578--13973640 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
13973568 TTAATTTTTT
*
13973578 TATAACAAATAACT-TTAAATAATTA
1 TATAA-AAATAAATCTTAAATAATTA
*
13973603 TATAATAAATACAATCTTCAATAATTA
1 TATAA-AAATA-AATCTTAAATAATTA
*
13973630 CATAAAAATAA
1 TATAAAAATAA
13973641 TAAGAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 11 0.34
26 7 0.22
27 14 0.44
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (25 bp):
TATAAAAATAAATCTTAAATAATTA
Found at i:13973958 original size:25 final size:28
Alignment explanation
Indices: 13973923--13973974 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
13973913 TTTCAAAAAT
13973923 TAAAAGTTTTCAAA-CT-TATTTTTTAA
1 TAAAAGTTTTCAAACCTATATTTTTTAA
13973949 TAAAA-TTTTCAAACCTATATTTTTTA
1 TAAAAGTTTTCAAACCTATATTTTTTA
13973975 TTTTTTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 8 0.33
26 7 0.29
27 9 0.38
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (28 bp):
TAAAAGTTTTCAAACCTATATTTTTTAA
Found at i:13974218 original size:19 final size:20
Alignment explanation
Indices: 13974196--13974233 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13974186 AAACAACAAA
*
13974196 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
13974215 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
13974234 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:13974505 original size:40 final size:38
Alignment explanation
Indices: 13974461--13974544 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
13974451 CCACCCCCAT
* * *
13974461 CAATCCCTCTCCACCTTCCCCCCCAACATCCCACCACACC
1 CAATCCATCCCCACCTT--CCCCCAACACCCCACCACACC
* *
13974501 CAATCCATCCCCACCTTCTCCCAACGCCCCACCACACC
1 CAATCCATCCCCACCTTCCCCCAACACCCCACCACACC
13974539 C-ATCCA
1 CAATCCA
13974545 CAGCCAATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 5 0.13
38 19 0.49
40 15 0.38
ACGTcount: A:0.24, C:0.61, G:0.01, T:0.14
Consensus pattern (38 bp):
CAATCCATCCCCACCTTCCCCCAACACCCCACCACACC
Found at i:13974546 original size:48 final size:48
Alignment explanation
Indices: 13974490--13974591 Score: 152
Period size: 48 Copynumber: 2.1 Consensus size: 48
13974480 CCCCCAACAT
* *
13974490 CCCA-CCACACCCAATCCATCCCCACCTTCTCCCAACGCCCCACCACA
1 CCCATCCACACCCAATCCATCCCCACATTCCCCCAACGCCCCACCACA
* *
13974537 CCCATCCACAGCCAATCCCTCCCCACATTCCCCCAACGCCCCACCACA
1 CCCATCCACACCCAATCCATCCCCACATTCCCCCAACGCCCCACCACA
*
13974585 CCAATCC
1 CCCATCC
13974592 TCCCCACCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 4 0.08
48 45 0.92
ACGTcount: A:0.25, C:0.61, G:0.03, T:0.11
Consensus pattern (48 bp):
CCCATCCACACCCAATCCATCCCCACATTCCCCCAACGCCCCACCACA
Found at i:13974596 original size:18 final size:20
Alignment explanation
Indices: 13974575--13974614 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
13974565 TCCCCCAACG
13974575 CCCCACCACA-CCAATC-CT
1 CCCCACCACATCCAATCTCT
*
13974593 CCCCACCCCATCCAATCTCT
1 CCCCACCACATCCAATCTCT
13974613 CC
1 CC
13974615 ACGTGCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 6 0.32
20 4 0.21
ACGTcount: A:0.23, C:0.62, G:0.00, T:0.15
Consensus pattern (20 bp):
CCCCACCACATCCAATCTCT
Found at i:13975136 original size:18 final size:20
Alignment explanation
Indices: 13975102--13975139 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
13975092 TGATTTGGCT
13975102 TTTATTTTTACTTTTGCAGG
1 TTTATTTTTACTTTTGCAGG
13975122 TTTA-TTTTA-TTTTGCAGG
1 TTTATTTTTACTTTTGCAGG
13975140 CATAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 5 0.28
20 4 0.22
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.61
Consensus pattern (20 bp):
TTTATTTTTACTTTTGCAGG
Found at i:13976335 original size:34 final size:34
Alignment explanation
Indices: 13976234--13976340 Score: 142
Period size: 34 Copynumber: 3.1 Consensus size: 34
13976224 CTAGGATTAG
* * * *
13976234 GATTAAACCACGAATCAAAGAATAAAGAGATCGG
1 GATTAAACCGCGAATCAGAGAATAAAGAGACCGA
* *
13976268 GATTAAACCGTGAACCAGAGAATAAAGAGACCGA
1 GATTAAACCGCGAATCAGAGAATAAAGAGACCGA
*
13976302 GATTAAATCGCGAATCAGAGAATAAAGAGACCGA
1 GATTAAACCGCGAATCAGAGAATAAAGAGACCGA
*
13976336 AATTA
1 GATTA
13976341 CATTTTTTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (34 bp):
GATTAAACCGCGAATCAGAGAATAAAGAGACCGA
Found at i:13977730 original size:26 final size:26
Alignment explanation
Indices: 13977702--13977750 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
13977692 TAAAAAATAA
* *
13977702 AAAATCTAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
13977727 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
13977751 ATTTTTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:13985726 original size:13 final size:13
Alignment explanation
Indices: 13985702--13985741 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
13985692 AAAGTTTTAA
13985702 AAAAGATTTAGGGT
1 AAAAG-TTTAGGGT
13985716 AAAAGTTTAGGGT
1 AAAAGTTTAGGGT
**
13985729 TTAAGTTTAGGGT
1 AAAAGTTTAGGGT
13985742 TTGGGGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (13 bp):
AAAAGTTTAGGGT
Found at i:13985742 original size:13 final size:13
Alignment explanation
Indices: 13985708--13985743 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
13985698 TTAAAAAAGA
**
13985708 TTTAGGGTAAAAG
1 TTTAGGGTTTAAG
13985721 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
13985734 TTTAGGGTTT
1 TTTAGGGTTT
13985744 GGGGTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (13 bp):
TTTAGGGTTTAAG
Found at i:13986505 original size:28 final size:28
Alignment explanation
Indices: 13986447--13986507 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
13986437 CGCGGATCCT
** **
13986447 CTATGCTTGAAACGACGTCATTTTGGTC
1 CTATGCTCAAAACGACGTCATTTTGCCC
*
13986475 CTATGCTCAAAACGACGTCGTTTTGCCC
1 CTATGCTCAAAACGACGTCATTTTGCCC
13986503 CTATG
1 CTATG
13986508 TTTTCTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (28 bp):
CTATGCTCAAAACGACGTCATTTTGCCC
Found at i:13987284 original size:8 final size:8
Alignment explanation
Indices: 13987271--13987298 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
13987261 TCTGTTTCTC
13987271 TTTTTTGT
1 TTTTTTGT
13987279 TTTTTTGT
1 TTTTTTGT
13987287 TTTTTTGT
1 TTTTTTGT
13987295 TTTT
1 TTTT
13987299 CTTTATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTTTGT
Found at i:13987346 original size:3 final size:3
Alignment explanation
Indices: 13987338--13987379 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
13987328 AAATATATAT
13987338 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13987380 AATTAAAATA
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):
TTA
Found at i:13989610 original size:12 final size:12
Alignment explanation
Indices: 13989595--13989636 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
13989585 TATTTTTAAT
13989595 TATTTATTTATA
1 TATTTATTTATA
*
13989607 TATTTATATAT-
1 TATTTATTTATA
13989618 TATTTAATTT-TA
1 TATTT-ATTTATA
13989630 TATTTAT
1 TATTTAT
13989637 ATTAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTATTTATA
Found at i:13989624 original size:31 final size:32
Alignment explanation
Indices: 13989578--13989638 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
13989568 GATTTGATCA
13989578 TATATATTATTTTTAATTATT-TATTTATATATT
1 TATATATTA-TTTTAATT-TTATATTTATATATT
13989611 TATATATTA-TTTAATTTTATATTTATAT
1 TATATATTATTTTAATTTTATATTTATAT
13989639 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 2 0.07
31 16 0.59
33 9 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (32 bp):
TATATATTATTTTAATTTTATATTTATATATT
Found at i:13989634 original size:23 final size:23
Alignment explanation
Indices: 13989580--13989638 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
13989570 TTTGATCATA
*
13989580 TATATTATTTTTA-ATTATTTATT
1 TATA-TATTTATATATTATTTATT
13989603 TATATATTTATATATTATTTAATT
1 TATATATTTATATATTATTT-ATT
13989627 T-TATATTTATAT
1 TATATATTTATAT
13989639 TAAAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 7 0.21
23 22 0.67
24 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATATATTTATATATTATTTATT
Found at i:13991895 original size:134 final size:134
Alignment explanation
Indices: 13991593--13992254 Score: 795
Period size: 138 Copynumber: 5.0 Consensus size: 134
13991583 GTGTTACGGG
*
13991593 CCAGTGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCAG
1 CCAGAGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCAG
*
13991658 TATTATACTATAGTATTTTTTTTTTTTTAAATTCCTAATCTACCATTATCCCCCTACCCTACTAC
66 TATTATACTATAGTA----TTTTTTTTTAAATTCCTAATCTACCCTTATCCCCCTACCCTACTAC
13991723 TTACCTGC
127 TTACCTGC
13991731 CCAGAGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCAG
1 CCAGAGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCAG
13991796 TATTATACTATAGTATTTTTTTTTAAATTCCTAATCTACCCTTATCCCCCTACCCTACTACTTAC
66 TATTATACTATAGTATTTTTTTTTAAATTCCTAATCTACCCTTATCCCCCTACCCTACTACTTAC
13991861 CTGC
131 CTGC
*
13991865 CCAGAGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTG-T---TACA-
1 CCAGAGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCAG
* * * * ** * * * * * * *** **** *
13991925 TA--A-GCTCT--T-GTTATAATCAAGTTACTATAT-TTCTTCTGAT--TAATAAAAAACGT-GT
66 TATTATACTATAGTATTTTTTTTTAAATTCCTA-ATCTAC-CCTTATCCCCCTACCCTAC-TACT
* *
13991980 TA-CGGG
128 TACCTGC
* *
13991986 CCAGTGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCGG
1 CCAGAGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCAG
* *
13992051 TATTATACTATAGTATTTTTTTTTTTTAAATTCCTAATCAACCATTATCCCCCTACCCCTACTAC
66 TATTATACTATAGTA---TTTTTTTTTAAATTCCTAATCTACCCTTATCCCCCTA-CCCTACTAC
13992116 TTACCTGC
127 TTACCTGC
*
13992124 CCAGAGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCGG
1 CCAGAGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCAG
* *
13992189 TATTAAACT-T--TATGTTTTTTTTAAATTCCTAATCTACCCTTACCCCCCTACCCTACTACTTA
66 TATTATACTATAGTAT-TTTTTTTTAAATTCCTAATCTACCCTTATCCCCCTACCCTACTACTTA
13992251 CCTG
130 CCTG
13992255 GCTGAAGAGA
Statistics
Matches: 443, Mismatches: 57, Indels: 54
0.80 0.10 0.10
Matches are distributed among these distances:
121 56 0.13
122 8 0.02
123 14 0.03
124 7 0.02
125 2 0.00
126 5 0.01
127 1 0.00
128 1 0.00
129 5 0.01
130 3 0.01
131 1 0.00
132 17 0.04
133 34 0.08
134 113 0.26
135 14 0.03
136 3 0.01
137 6 0.01
138 153 0.35
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (134 bp):
CCAGAGCCAGAGTATACTGAAGCTGGGCTAATGAATTAGCAAAACCTAACTGTTGATGAGTCCAG
TATTATACTATAGTATTTTTTTTTAAATTCCTAATCTACCCTTATCCCCCTACCCTACTACTTAC
CTGC
Found at i:13999211 original size:21 final size:22
Alignment explanation
Indices: 13999175--13999238 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 22
13999165 ACAAAAATTT
13999175 TATAAAAAGTATCATGCAATAATA
1 TATAAAAA--ATCATGCAATAATA
13999199 T-TAAAAAATCATGC-A-AATA
1 TATAAAAAATCATGCAATAATA
*
13999218 TATAATAAATCATG-AATAATA
1 TATAAAAAATCATGCAATAATA
13999239 AATCATGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 5 0.14
20 13 0.36
21 11 0.31
23 6 0.17
24 1 0.03
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (22 bp):
TATAAAAAATCATGCAATAATA
Found at i:13999226 original size:23 final size:22
Alignment explanation
Indices: 13999176--13999226 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
13999166 CAAAAATTTT
13999176 ATAAAAAGTATCATGCAATAATA
1 ATAAAAAG-ATCATGCAATAATA
*
13999199 TTAAAAA-ATCATGCAAATATATA
1 ATAAAAAGATCATGC-AATA-ATA
13999222 ATAAA
1 ATAAA
13999227 TCATGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 7 0.29
22 4 0.17
23 13 0.54
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (22 bp):
ATAAAAAGATCATGCAATAATA
Found at i:13999252 original size:27 final size:28
Alignment explanation
Indices: 13999235--13999326 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 28
13999225 AATCATGAAT
13999235 AATAAATCATGCAAAT-AATAAATAATA
1 AATAAATCATGCAAATAAATAAATAATA
13999262 AATAAATCATGCAAATATTAA-ATAATGCAATA
1 AATAAATCATGCAAATA--AATA-AAT--AATA
* *
13999294 ATATTAATCATGTAAAT-AATAAATAATA
1 A-ATAAATCATGCAAATAAATAAATAATA
13999322 AATAA
1 AATAA
13999327 CAAAAAGACA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
27 19 0.35
28 5 0.09
29 1 0.02
30 10 0.19
31 1 0.02
32 5 0.09
33 13 0.24
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (28 bp):
AATAAATCATGCAAATAAATAAATAATA
Found at i:13999259 original size:7 final size:7
Alignment explanation
Indices: 13999214--13999266 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
13999204 AAATCATGCA
*
13999214 AATATAT
1 AATAAAT
13999221 AATAAAT
1 AATAAAT
* *
13999228 CATGAAT
1 AATAAAT
13999235 AATAAAT
1 AATAAAT
*
13999242 CATGCAAAT
1 AAT--AAAT
13999251 AATAAAT
1 AATAAAT
13999258 AATAAAT
1 AATAAAT
13999265 AA
1 AA
13999267 ATCATGCAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 31 0.84
9 6 0.16
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (7 bp):
AATAAAT
Found at i:13999259 original size:34 final size:32
Alignment explanation
Indices: 13999204--13999320 Score: 113
Period size: 33 Copynumber: 3.7 Consensus size: 32
13999194 TAATATTAAA
13999204 AAATCATGCAAAT-ATATAATAAATCATGAATAAT
1 AAATCATGCAAATAATA-AAT-AATCAT-AATAAT
13999238 AAATCATGCAAATAATAAAT-A--AT-A-AAT
1 AAATCATGCAAATAATAAATAATCATAATAAT
*
13999265 AAATCATGCAAATATTAAATAATGCAATAAT-AT
1 AAATCATGCAAATAATAAATAAT-C-ATAATAAT
* *
13999298 TAATCATGTAAATAATAAATAAT
1 AAATCATGCAAATAATAAATAAT
13999321 AAATAACAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 17
0.77 0.04 0.18
Matches are distributed among these distances:
27 22 0.31
28 2 0.03
30 2 0.03
32 3 0.04
33 23 0.32
34 16 0.23
35 3 0.04
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (32 bp):
AAATCATGCAAATAATAAATAATCATAATAAT
Found at i:13999319 original size:60 final size:61
Alignment explanation
Indices: 13999195--13999326 Score: 175
Period size: 60 Copynumber: 2.2 Consensus size: 61
13999185 ATCATGCAAT
*
13999195 AATATTAAA-AAATCATGCAAATATATAATAAATCATGAATAATAAATCATGCAAATAATA
1 AATAATAAATAAATCATGCAAATATATAATAAATCATGAATAATAAATCATGCAAATAATA
* *
13999255 AATAATAAATAAATCATGCAAATAT-TAA-ATAATGCAAT-AAT-ATTAATCATGTAAATAATA
1 AATAATAAATAAATCATGCAAATATATAATA-AAT-C-ATGAATAATAAATCATGCAAATAATA
13999315 AATAATAAATAA
1 AATAATAAATAA
13999327 CAAAAAGACA
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
59 1 0.02
60 43 0.66
61 19 0.29
62 2 0.03
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (61 bp):
AATAATAAATAAATCATGCAAATATATAATAAATCATGAATAATAAATCATGCAAATAATA
Found at i:14007155 original size:24 final size:22
Alignment explanation
Indices: 14007106--14007157 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
14007096 TTTTTAATAT
*
14007106 ATTAA-ATATTAAATAATATTA
1 ATTAATATATTAAAAAATATTA
14007127 A--AATATATGTAAAAAATAATTA
1 ATTAATATAT-TAAAAAAT-ATTA
14007149 ATTAATATA
1 ATTAATATA
14007158 CTTTTAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 4 0.16
21 8 0.32
22 5 0.20
24 6 0.24
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTAATATATTAAAAAATATTA
Found at i:14013999 original size:14 final size:14
Alignment explanation
Indices: 14013980--14014010 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14013970 TTTACACACC
14013980 TACTAAGTAAATAA
1 TACTAAGTAAATAA
14013994 TACTAAGTAAATAA
1 TACTAAGTAAATAA
14014008 TAC
1 TAC
14014011 GATGAGAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (14 bp):
TACTAAGTAAATAA
Found at i:14017705 original size:177 final size:176
Alignment explanation
Indices: 14017409--14017759 Score: 578
Period size: 177 Copynumber: 2.0 Consensus size: 176
14017399 AAGTCAATAT
* *
14017409 ATTCATGTTTCAAACTAGTATGAAATTCAAAAATTTTCAAAATTTTAAAGCACATCCTCCATCAT
1 ATTCATGTTTCAAACTAGCATGAAATTCAAAAATTTTCAAAATTCTAAAGCACATCCTCCATCAT
* *
14017474 TTAACATATGAACTTCCACAATTACTAGTTGAGCTATTATGCTTAGATCCATGTCAGATTAAACT
66 TTAACATATGAACTTCCAAAATTACTAGTTGAGCTATTACGCTTAGATCCATGTCAGATTAAACT
*
14017539 AGTTTTCACTAAAATCCTAACTATGGATAAATTATTTTCTAATCCTA
131 AGTTTTCACTAAAATCCTAACTATAGATAAATTA-TTTCTAATCCTA
*
14017586 ATTCATGTTTCAAACTAGCATGCAAA-TCAAAATTTTTCAAAATTCTAAAGCACATCCTCCATCA
1 ATTCATGTTTCAAACTAGCATG-AAATTCAAAAATTTTCAAAATTCTAAAGCACATCCTCCATCA
**
14017650 TTTAACATATGAACTTCCAAAATTACTAGTTGATTTATTACGCTTAGATCCATGTCAGATTAAAC
65 TTTAACATATGAACTTCCAAAATTACTAGTTGAGCTATTACGCTTAGATCCATGTCAGATTAAAC
* * *
14017715 TAGTTTTCATTAAAATCCTAACTCTAGATCAATTATTTCTAATCC
130 TAGTTTTCACTAAAATCCTAACTATAGATAAATTATTTCTAATCC
14017760 AAAAAACTAT
Statistics
Matches: 162, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
176 10 0.06
177 149 0.92
178 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (176 bp):
ATTCATGTTTCAAACTAGCATGAAATTCAAAAATTTTCAAAATTCTAAAGCACATCCTCCATCAT
TTAACATATGAACTTCCAAAATTACTAGTTGAGCTATTACGCTTAGATCCATGTCAGATTAAACT
AGTTTTCACTAAAATCCTAACTATAGATAAATTATTTCTAATCCTA
Found at i:14018446 original size:16 final size:16
Alignment explanation
Indices: 14018381--14018446 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
14018371 TTTAGATTTA
*
14018381 AATTTAAGT-TATTATT
1 AATTTAAATATATTA-T
* *
14018397 AATTTAAATTTATTGAA
1 AATTTAAATATATT-AT
* *
14018414 AATTT-AATAAATCAT
1 AATTTAAATATATTAT
14018429 AATTTAAATATATTAT
1 AATTTAAATATATTAT
14018445 AA
1 AA
14018447 ATATTAACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
15 6 0.15
16 23 0.59
17 9 0.23
18 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (16 bp):
AATTTAAATATATTAT
Found at i:14018464 original size:32 final size:32
Alignment explanation
Indices: 14018395--14018468 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
14018385 TAAGTTATTA
* *
14018395 TTAATTTAAATTTATTGAAAATTTAATAAATC
1 TTAATTTAAATATATTGAAAATTTAACAAATC
*
14018427 ATAATTTAAATATATT-ATAAATATTAACAAAT-
1 TTAATTTAAATATATTGA-AAAT-TTAACAAATC
14018459 TTAA-TTAAAT
1 TTAATTTAAAT
14018469 CACTTATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 7 0.19
32 21 0.58
33 8 0.22
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (32 bp):
TTAATTTAAATATATTGAAAATTTAACAAATC
Found at i:14018621 original size:60 final size:61
Alignment explanation
Indices: 14018511--14018641 Score: 176
Period size: 60 Copynumber: 2.1 Consensus size: 61
14018501 TTTTATCTAG
* * *
14018511 TAAAATTTTATAAATTTTCATCGTAACTAATGAAATTATGGAATACATAAAACTTAATAAAT
1 TAAAA-TTCATAAATTTTCATCGTAACTAATGAAATTATGAAATACATAAAACTTAATAAAC
* * *
14018573 TAAAATTCATAAATTTTCATC-TAAAC-AATGAAATTATGAAATATATAAAATTTAGTAAAC
1 TAAAATTCATAAATTTTCATCGT-AACTAATGAAATTATGAAATACATAAAACTTAATAAAC
14018633 TAAAATTCA
1 TAAAATTCA
14018642 AACATCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
60 39 0.63
61 18 0.29
62 5 0.08
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.36
Consensus pattern (61 bp):
TAAAATTCATAAATTTTCATCGTAACTAATGAAATTATGAAATACATAAAACTTAATAAAC
Found at i:14018907 original size:15 final size:15
Alignment explanation
Indices: 14018887--14018933 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
14018877 TAAATCTCAT
14018887 AAATAATATATTTAA
1 AAATAATATATTTAA
*
14018902 AAATAATA-ATATAA
1 AAATAATATATTTAA
*
14018916 AAATTAAT-TAGTTAA
1 AAA-TAATATATTTAA
14018931 AAA
1 AAA
14018934 AGATAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
AAATAATATATTTAA
Found at i:14018918 original size:14 final size:15
Alignment explanation
Indices: 14018887--14018919 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14018877 TAAATCTCAT
*
14018887 AAATAATATATTTAA
1 AAATAATATATATAA
14018902 AAATAATA-ATATAA
1 AAATAATATATATAA
14018916 AAAT
1 AAAT
14018920 TAATTAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAATATATATAA
Found at i:14035798 original size:52 final size:52
Alignment explanation
Indices: 14035739--14035864 Score: 182
Period size: 52 Copynumber: 2.4 Consensus size: 52
14035729 CAAGAAAAAG
* * *
14035739 AGGATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAGAATTCTAAAAGGA-A
1 AGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAAAATTCTAAAAGGAGA
* *
14035790 AGGAATTCTTAATAGGCAAGTTTGACTTACAGGAGAAAAATTCTAAGAGGAGA
1 AGG-ATTCTTAATAGGCAAGTTTGACTTACAAGAGAAAAATTCTAAAAGGAGA
*
14035843 AGGATTCTTAATGGGCAAGTTT
1 AGGATTCTTAATAGGCAAGTTT
14035865 ATATGGTTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.04
52 60 0.90
53 4 0.06
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (52 bp):
AGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAAAATTCTAAAAGGAGA
Found at i:14036025 original size:25 final size:25
Alignment explanation
Indices: 14035991--14036040 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14035981 TGGGTGTGTA
14035991 TGTTTGTTTGTGAGTGGACTAGAGG
1 TGTTTGTTTGTGAGTGGACTAGAGG
14036016 TGTTTGTTTGTGAGTGGACTAGAGG
1 TGTTTGTTTGTGAGTGGACTAGAGG
14036041 AGATTAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.04, G:0.40, T:0.40
Consensus pattern (25 bp):
TGTTTGTTTGTGAGTGGACTAGAGG
Found at i:14041590 original size:8 final size:8
Alignment explanation
Indices: 14041583--14041618 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
14041573 TTCTGTCTCG
*
14041583 CACACTCG
1 CACACTCA
14041591 CACACTCA
1 CACACTCA
14041599 CACACTCA
1 CACACTCA
14041607 CACACTCA
1 CACACTCA
14041615 CACA
1 CACA
14041619 TACACGCATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.36, C:0.50, G:0.03, T:0.11
Consensus pattern (8 bp):
CACACTCA
Found at i:14047187 original size:27 final size:25
Alignment explanation
Indices: 14047139--14047204 Score: 62
Period size: 27 Copynumber: 2.6 Consensus size: 25
14047129 ATATTTGATA
* *
14047139 ATTTAAAATAAATATTACAAATAGTAT
1 ATTTAAAAT-AATTTTACAAATAAT-T
*
14047166 ATTTAAAATAATTTTAATAAATAATT
1 ATTTAAAATAATTTT-ACAAATAATT
*
14047192 ATTTATAA-AATTT
1 ATTTAAAATAATTT
14047205 AAATTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 5 0.15
26 13 0.38
27 16 0.47
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTTAAAATAATTTTACAAATAATT
Found at i:14047763 original size:13 final size:13
Alignment explanation
Indices: 14047740--14047771 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
14047730 TTCAATCAAA
14047740 AGCATACCCTTTGG
1 AGCA-ACCCTTTGG
14047754 AGCAACCCTTTGG
1 AGCAACCCTTTGG
14047767 AGCAA
1 AGCAA
14047772 ATCAACCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (13 bp):
AGCAACCCTTTGG
Found at i:14050384 original size:24 final size:24
Alignment explanation
Indices: 14050351--14050402 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 24
14050341 TTTTTTACTA
14050351 ATTTAATATATTAATTTAAAAATTTAT
1 ATTT-ATATA-TAA-TTAAAAATTTAT
*
14050378 ATTTATATATAATTAAAATTTTAT
1 ATTTATATATAATTAAAAATTTAT
14050402 A
1 A
14050403 AATAATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 12 0.50
25 3 0.12
26 5 0.21
27 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTATATATAATTAAAAATTTAT
Found at i:14050429 original size:14 final size:14
Alignment explanation
Indices: 14050388--14050434 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
14050378 ATTTATATAT
14050388 AATTAAAATT-TTA
1 AATTAAAATTATTA
* *
14050401 TAAATAATA-TATTA
1 -AATTAAAATTATTA
14050415 AATTAAAATTATTA
1 AATTAAAATTATTA
14050429 AATTAA
1 AATTAA
14050435 TTTCATACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTAAAATTATTA
Found at i:14050649 original size:19 final size:19
Alignment explanation
Indices: 14050625--14050661 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14050615 ACGATAATAC
*
14050625 AATATAAATATAATATAAA
1 AATATAAAAATAATATAAA
14050644 AATATAAAAATAATATAA
1 AATATAAAAATAATATAA
14050662 TTTAAAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATATAAAAATAATATAAA
Found at i:14051231 original size:9 final size:9
Alignment explanation
Indices: 14051217--14051267 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
14051207 AAATTTTAAA
14051217 TTATATTATT
1 TTATATTA-T
14051227 TATATATTAT
1 T-TATATTAT
14051237 TTATATTAT
1 TTATATTAT
*
14051246 TTCATATAAT
1 TT-ATATTAT
14051256 ATTATA-TAT
1 -TTATATTAT
14051265 TTA
1 TTA
14051268 AAAATAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 3 0.08
9 12 0.33
10 12 0.33
11 9 0.25
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (9 bp):
TTATATTAT
Found at i:14051232 original size:11 final size:10
Alignment explanation
Indices: 14051218--14051265 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
14051208 AATTTTAAAT
14051218 TATATTATTTA
1 TATATTA-TTA
14051229 TATATTATT-
1 TATATTATTA
14051238 TATATTATTTCA
1 TATATTA-TT-A
*
14051250 TATAATATTA
1 TATATTATTA
14051260 TATATT
1 TATATT
14051266 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 7 0.22
10 10 0.31
11 9 0.28
12 6 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATTATTA
Found at i:14051242 original size:20 final size:21
Alignment explanation
Indices: 14051217--14051265 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
14051207 AAATTTTAAA
*
14051217 TTATATTATTT-ATATATTAT
1 TTATATTATTTCATATAATAT
14051237 TTATATTATTTCATATAATAT
1 TTATATTATTTCATATAATAT
14051258 TATATATT
1 T-TATATT
14051266 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 11 0.42
21 9 0.35
22 6 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATATTATTTCATATAATAT
Found at i:14051628 original size:25 final size:25
Alignment explanation
Indices: 14051594--14051674 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
14051584 CAATTTTTGT
14051594 TTTTATTAGTTTAATATTATAATTA
1 TTTTATTAGTTTAATATTATAATTA
14051619 TTTTATTAGTTTAATA-TA-AA-TA
1 TTTTATTAGTTTAATATTATAATTA
* * *
14051641 TTTTTATTAATTTACTATAATAATTA
1 -TTTTATTAGTTTAATATTATAATTA
14051667 TTTTATTA
1 TTTTATTA
14051675 ATTTTTAACA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
22 2 0.04
23 16 0.33
24 3 0.06
25 26 0.53
26 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTATTAGTTTAATATTATAATTA
Found at i:14051755 original size:18 final size:19
Alignment explanation
Indices: 14051732--14051784 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
14051722 TTTATTTAAA
14051732 AATAATTTAATAATTTT-T
1 AATAATTTAATAATTTTAT
*
14051750 AATAATTTATTAATTTTAT
1 AATAATTTAATAATTTTAT
*
14051769 AA-ATATTAAATAATTT
1 AATA-ATTTAATAATTT
14051785 AATTTTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATAATTTAATAATTTTAT
Found at i:14055591 original size:2 final size:2
Alignment explanation
Indices: 14055584--14055626 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
14055574 TTTCTGGTGC
* * *
14055584 AT AT AT AT AT AT AT AT AT AT AC AC AC 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 AT AT AT
14055626 A
1 A
14055627 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:14055956 original size:22 final size:22
Alignment explanation
Indices: 14055917--14055965 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
14055907 AAAATTATTA
* *
14055917 AATTTAAAAAATATATTACTTT
1 AATTTAAAAAATACATTAATTT
*
14055939 GATTTAAATAAAT-CATTAATTT
1 AATTTAAA-AAATACATTAATTT
14055961 AATTT
1 AATTT
14055966 TGATATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTTAAAAAATACATTAATTT
Found at i:14058744 original size:21 final size:22
Alignment explanation
Indices: 14058720--14058764 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
14058710 AATTATTATT
*
14058720 ATTATTTTTAATT-TTATCAAA
1 ATTAATTTTAATTATTATCAAA
* *
14058741 ATTAATTTTATTTATTATCTAA
1 ATTAATTTTAATTATTATCAAA
14058763 AT
1 AT
14058765 GAATAATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTAATTTTAATTATTATCAAA
Found at i:14064558 original size:18 final size:18
Alignment explanation
Indices: 14064524--14064561 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14064514 CTCATTTTCA
*
14064524 TATTTTTTATATTATATT
1 TATTTTTTATATCATATT
14064542 TATTTTTT-TAGTCATATT
1 TATTTTTTATA-TCATATT
14064560 TA
1 TA
14064562 ACGAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTTTTTATATCATATT
Found at i:14064712 original size:18 final size:19
Alignment explanation
Indices: 14064691--14064731 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
14064681 ATATATTTAG
14064691 ATTTTTTT-ATAAAAATAT
1 ATTTTTTTAATAAAAATAT
14064709 ATTTTTTTCAATAAAAATAT
1 ATTTTTTT-AATAAAAATAT
14064729 ATT
1 ATT
14064732 AATTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTTTTAATAAAAATAT
Found at i:14065855 original size:19 final size:19
Alignment explanation
Indices: 14065831--14065883 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
14065821 ATGAATAATA
*
14065831 TAATATTATAATATTATTT
1 TAATATTAAAATATTATTT
*
14065850 TAATATTAAAATTTTATTT
1 TAATATTAAAATATTATTT
* *
14065869 TCA-ATCAAAATATTA
1 TAATATTAAAATATTA
14065884 ATACATCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTAAAATATTATTT
Found at i:14067240 original size:34 final size:35
Alignment explanation
Indices: 14067202--14067270 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
14067192 ATTGAAATAC
14067202 TTATAAACTTTGGTTT-AAAAAATAAAATATAAAA
1 TTATAAACTTTGGTTTAAAAAAATAAAATATAAAA
14067236 TTATAAACTTTGGTTTAAAAAAATAAAATATAAAA
1 TTATAAACTTTGGTTTAAAAAAATAAAATATAAAA
14067271 AAATAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 16 0.47
35 18 0.53
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.35
Consensus pattern (35 bp):
TTATAAACTTTGGTTTAAAAAAATAAAATATAAAA
Found at i:14067633 original size:29 final size:29
Alignment explanation
Indices: 14067601--14067660 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
14067591 GATATACATG
** * *
14067601 AATAGATATGACTAATACGGATATAAACA
1 AATAGATACAACTAACACGAATATAAACA
*
14067630 AATAGATACAACTAACACGAATATATACA
1 AATAGATACAACTAACACGAATATAAACA
14067659 AA
1 AA
14067661 AACATAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.22
Consensus pattern (29 bp):
AATAGATACAACTAACACGAATATAAACA
Found at i:14067740 original size:25 final size:24
Alignment explanation
Indices: 14067719--14067766 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
14067709 AATAAATTTA
*
14067719 GCATATTAATAATATAAAAAATACTT
1 GCATATTAA-AAAATAAAAAATA-TT
14067745 GCATATTAAAAAATAAAAAATA
1 GCATATTAAAAAATAAAAAATA
14067767 ATTTAATACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (24 bp):
GCATATTAAAAAATAAAAAATATT
Found at i:14068545 original size:24 final size:24
Alignment explanation
Indices: 14068518--14068568 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
14068508 GATAATTTTT
* *
14068518 TTAAAATTAT-AATTAAGTAATATA
1 TTAAAATAATCAATTAA-TAATAAA
*
14068542 TTAATATAATCAATTAATAATAAA
1 TTAAAATAATCAATTAATAATAAA
14068566 TTA
1 TTA
14068569 TTATATTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TTAAAATAATCAATTAATAATAAA
Found at i:14068626 original size:17 final size:17
Alignment explanation
Indices: 14068604--14068636 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14068594 CTGAATAATC
14068604 AATTAA-AATATTAAAAA
1 AATTAACAA-ATTAAAAA
14068621 AATTAACAAATTAAAA
1 AATTAACAAATTAAAA
14068637 CATAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AATTAACAAATTAAAAA
Found at i:14069102 original size:21 final size:20
Alignment explanation
Indices: 14069065--14069104 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14069055 TAATAAAAAT
14069065 AATTAAATTAATAAATTTAA
1 AATTAAATTAATAAATTTAA
* *
14069085 AATTTAATTCAATTAATTTA
1 AATTAAATT-AATAAATTTA
14069105 TATAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTAAATTAATAAATTTAA
Found at i:14069337 original size:30 final size:28
Alignment explanation
Indices: 14069303--14069374 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
14069293 TAGAAAATAT
14069303 AAAGAGAAAAAAAAGAAAGTAGCT-AAAAAA
1 AAAGAGAAAAAAAAGAAA-TA--TAAAAAAA
*
14069333 AAAGA-AAAAAATAGAAATATAAAAAAA
1 AAAGAGAAAAAAAAGAAATATAAAAAAA
14069360 AGAAGAGAAAAAAAA
1 A-AAGAGAAAAAAAA
14069375 AAGAGATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
26 1 0.03
27 7 0.19
28 6 0.16
29 18 0.49
30 5 0.14
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.07
Consensus pattern (28 bp):
AAAGAGAAAAAAAAGAAATATAAAAAAA
Found at i:14069339 original size:28 final size:28
Alignment explanation
Indices: 14069303--14069377 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 28
14069293 TAGAAAATAT
14069303 AAAG-AGAAAAAAAAGAAAGTAGCT-AAAA
1 AAAGAAGAAAAAAAAGAAAGTA--TAAAAA
14069331 AAA-AAGAAAAAAATAGAAA-TATAAAAA
1 AAAGAAGAAAAAAA-AGAAAGTATAAAAA
14069358 AAAGAAGAGAAAAAAA-AAAG
1 AAAGAAGA-AAAAAAAGAAAG
14069378 AGATTATCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
26 1 0.02
27 10 0.24
28 19 0.46
29 11 0.27
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (28 bp):
AAAGAAGAAAAAAAAGAAAGTATAAAAA
Found at i:14069370 original size:13 final size:13
Alignment explanation
Indices: 14069303--14069380 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 13
14069293 TAGAAAATAT
14069303 AAAGAGAAAAAAAA
1 AAAGAG-AAAAAAA
*
14069317 GAAAGTAGCTAAAAAA
1 -AAAG-AG-AAAAAAA
14069333 AAAGA-AAAAAATA
1 AAAGAGAAAAAA-A
* *
14069346 GAAATATAAAAAAA
1 -AAAGAGAAAAAAA
14069360 AGAAGAGAAAAAAA
1 A-AAGAGAAAAAAA
14069374 AAAGAGA
1 AAAGAGA
14069381 TTATCTTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
12 5 0.10
13 8 0.15
14 17 0.33
15 14 0.27
16 8 0.15
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.06
Consensus pattern (13 bp):
AAAGAGAAAAAAA
Found at i:14069375 original size:15 final size:14
Alignment explanation
Indices: 14069303--14069375 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 14
14069293 TAGAAAATAT
14069303 AAAGAGAAAAAAAAG
1 AAAGA-AAAAAAAAG
**
14069318 AAAGTAGCTAAAAAA-
1 AAAG-A-AAAAAAAAG
*
14069333 AAAGAAAAAAATAG
1 AAAGAAAAAAAAAG
*
14069347 AAATATAAAAAAAAG
1 AAAGA-AAAAAAAAG
14069362 AAGAGAAAAAAAAA
1 AA-AGAAAAAAAAA
14069376 AGAGATTATC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
13 5 0.11
14 5 0.11
15 26 0.57
16 10 0.22
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:14069873 original size:6 final size:6
Alignment explanation
Indices: 14069862--14069886 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14069852 TTTTATAAAC
14069862 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
14069887 CGCAAGGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:14084938 original size:2 final size:2
Alignment explanation
Indices: 14084933--14084957 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14084923 TACACACACA
14084933 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
14084958 GAGAGAGAGA
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:14084962 original size:2 final size:2
Alignment explanation
Indices: 14084957--14084985 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14084947 ATATATATAT
14084957 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14084986 ATGAAACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14087544 original size:31 final size:30
Alignment explanation
Indices: 14087500--14087581 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
14087490 TATAAAATGT
* * * * *
14087500 TAAAATTTTTATATTCATATTTTATTTTATA
1 TAAAAATTATATATT-ATAATTTATATCATA
*
14087531 TAAAAATTATATATTATAATTTGTATCATA
1 TAAAAATTATATATTATAATTTATATCATA
* *
14087561 TAAAAA-TATAAAATATAATTT
1 TAAAAATTATATATTATAATTT
14087582 TTTATTTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 13 0.30
30 17 0.40
31 13 0.30
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (30 bp):
TAAAAATTATATATTATAATTTATATCATA
Found at i:14087647 original size:19 final size:18
Alignment explanation
Indices: 14087625--14087676 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
14087615 TAAATTTTAA
*
14087625 ATTATATATATTTATTTTT
1 ATTATATATATTTA-TATT
14087644 ATTATAT-TCATATTATATT
1 ATTATATAT-AT-TTATATT
14087663 ATTATATCATATTT
1 ATTATAT-ATATTT
14087677 TAAATTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 1 0.04
19 21 0.75
20 5 0.18
21 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATATATTTATATT
Found at i:14087655 original size:54 final size:54
Alignment explanation
Indices: 14087582--14087684 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
14087572 AATATAATTT
*
14087582 TTTATTTTATTAAACTCATA-TATAATTATTAT-TTAAATTTTAAATTATATATA
1 TTTATTTTATTAAACTCATATTAT-ATTATTATATCAAATTTTAAATTATATATA
* * *
14087635 TTTATTTTTATTATATTCATATTATATTATTATATCATATTTTAAATTAT
1 TTTA-TTTTATTAAACTCATATTATATTATTATATCAAATTTTAAATTAT
14087685 CACATTTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 4 0.09
54 22 0.51
55 17 0.40
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (54 bp):
TTTATTTTATTAAACTCATATTATATTATTATATCAAATTTTAAATTATATATA
Found at i:14088758 original size:11 final size:11
Alignment explanation
Indices: 14088744--14088783 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
14088734 AAATTTTAGA
14088744 TTATATTATTT
1 TTATATTATTT
14088755 TTATATTATTT
1 TTATATTATTT
14088766 ATTCATA-TATTT
1 -TT-ATATTATTT
14088778 TTATAT
1 TTATAT
14088784 CATACCGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.12
11 13 0.50
12 7 0.27
13 3 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATATTATTT
Found at i:14094610 original size:17 final size:17
Alignment explanation
Indices: 14094578--14094614 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14094568 TTTTTCTCAA
14094578 CTTTTTCCTTCGTTGTT
1 CTTTTTCCTTCGTTGTT
14094595 CTTTCTTCCTTC-TTGTT
1 CTTT-TTCCTTCGTTGTT
14094612 CTT
1 CTT
14094615 CCTCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.00, C:0.27, G:0.08, T:0.65
Consensus pattern (17 bp):
CTTTTTCCTTCGTTGTT
Found at i:14094862 original size:33 final size:34
Alignment explanation
Indices: 14094819--14094884 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
14094809 AATAACTTTC
*
14094819 AAAAAGCTTTT-AAACATTTATTTTTAAAAATTTT
1 AAAAAGCTTTTGAAA-ATCTATTTTTAAAAATTTT
*
14094853 AAAAA-CTTTTGAAAATCTATTTTTGAAAATTT
1 AAAAAGCTTTTGAAAATCTATTTTTAAAAATTT
14094885 CGAATCGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 21 0.72
34 8 0.28
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (34 bp):
AAAAAGCTTTTGAAAATCTATTTTTAAAAATTTT
Found at i:14099111 original size:21 final size:20
Alignment explanation
Indices: 14099076--14099124 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
14099066 GAAAAACCCA
*
14099076 ATTTTCTTACTCTTATATATAT
1 ATTTTTTTACTCTTA-ATAT-T
14099098 ATTTTTTTA-TCTTAATATT
1 ATTTTTTTACTCTTAATATT
*
14099117 CTTTTTTT
1 ATTTTTTT
14099125 TTATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 5 0.20
22 8 0.32
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTTTTACTCTTAATATT
Found at i:14099115 original size:22 final size:20
Alignment explanation
Indices: 14099076--14099132 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
14099066 GAAAAACCCA
*
14099076 ATTTTCTTACTCTTATATATAT
1 ATTTTTTTA-TCTTATAT-TAT
*
14099098 ATTTTTTTATCTTAATATTCT
1 ATTTTTTTATCTT-ATATTAT
*
14099119 TTTTTTTTAT-TTAT
1 ATTTTTTTATCTTAT
14099133 TTCTTTCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 2 0.06
20 2 0.06
21 15 0.48
22 12 0.39
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTTTTTATCTTATATTAT
Found at i:14118649 original size:27 final size:23
Alignment explanation
Indices: 14118562--14118638 Score: 127
Period size: 23 Copynumber: 3.3 Consensus size: 23
14118552 ATAAAAATAT
* *
14118562 TCGAACTCGATTCGATCGATTAA
1 TCGAACTAGATTCGATCGATGAA
14118585 TCGAACTAGATTCGATCGATGAA
1 TCGAACTAGATTCGATCGATGAA
*
14118608 TCGAACTAGATTCGATCGATGAG
1 TCGAACTAGATTCGATCGATGAA
14118631 TCGAACTA
1 TCGAACTA
14118639 TTCGAGTTCG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (23 bp):
TCGAACTAGATTCGATCGATGAA
Found at i:14120656 original size:2 final size:2
Alignment explanation
Indices: 14120649--14120682 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14120639 TTGCTGCAAA
14120649 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14120683 CATATGTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:14122558 original size:29 final size:28
Alignment explanation
Indices: 14122526--14122613 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
14122516 TTAATAAGTT
14122526 TTTATGCTTTTATTGTATTTAAATAAACA
1 TTTAT-CTTTTATTGTATTTAAATAAACA
* **
14122555 TTTAACTTTTAATATGTATTTAAATAAATT
1 TTTATCTTTT-AT-TGTATTTAAATAAACA
* * *
14122585 TTTAATCGTTAATTGTACTTAAATAAACA
1 TTT-ATCTTTTATTGTATTTAAATAAACA
14122614 CTTAATCTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
28 5 0.11
29 19 0.40
30 19 0.40
31 4 0.09
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (28 bp):
TTTATCTTTTATTGTATTTAAATAAACA
Found at i:14122618 original size:29 final size:30
Alignment explanation
Indices: 14122537--14122621 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 30
14122527 TTATGCTTTT
*
14122537 ATTGTATTTAAATAAACATTTAA-CTTTTA
1 ATTGTATTTAAATAAACATTTAATCTGTTA
**
14122566 ATATGTATTTAAATAAATTTTTAATC-GTTA
1 AT-TGTATTTAAATAAACATTTAATCTGTTA
* *
14122596 ATTGTACTTAAATAAACACTTAATCT
1 ATTGTATTTAAATAAACATTTAATCT
14122622 AAATCAATCT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 21 0.46
30 24 0.52
31 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (30 bp):
ATTGTATTTAAATAAACATTTAATCTGTTA
Found at i:14126335 original size:15 final size:15
Alignment explanation
Indices: 14126315--14126345 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14126305 GCTGTCACTT
14126315 GAAGTGGAGGTAAGG
1 GAAGTGGAGGTAAGG
14126330 GAAGTGGAGGTAAGG
1 GAAGTGGAGGTAAGG
14126345 G
1 G
14126346 CCATGGGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.55, T:0.13
Consensus pattern (15 bp):
GAAGTGGAGGTAAGG
Found at i:14128515 original size:12 final size:12
Alignment explanation
Indices: 14128489--14128525 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14128479 CTGATATATA
14128489 TAATTATTT-TT
1 TAATTATTTATT
14128500 TAATTATTTATT
1 TAATTATTTATT
14128512 TAATT-TTATATT
1 TAATTATT-TATT
14128524 TA
1 TA
14128526 TATATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 13 0.54
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAATTATTTATT
Found at i:14128533 original size:18 final size:17
Alignment explanation
Indices: 14128504--14128547 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 17
14128494 ATTTTTTAAT
14128504 TATTTAT-TTAATTTTA
1 TATTTATATTAATTTTA
14128520 TATTTATATATAATTTTA
1 TATTTATAT-TAATTTTA
14128538 TATTTATATT
1 TATTTATATT
14128548 TAAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.27
17 2 0.08
18 17 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTATATTAATTTTA
Found at i:14128556 original size:24 final size:26
Alignment explanation
Indices: 14128508--14128586 Score: 82
Period size: 22 Copynumber: 3.3 Consensus size: 26
14128498 TTTAATTATT
* * *
14128508 TATTTAAT-TTTATATTTATATAT-A
1 TATTTTATATTTATATTTAAAAATAA
14128532 -ATTTTATATTTATATTTAAAAATAA
1 TATTTTATATTTATATTTAAAAATAA
14128557 TATTTTATATTT-TA---AAAAATAA
1 TATTTTATATTTATATTTAAAAATAA
14128579 TATTTTAT
1 TATTTTAT
14128587 TAATTTCGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
22 16 0.33
23 6 0.12
24 13 0.27
25 3 0.06
26 11 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTTTATATTTATATTTAAAAATAA
Found at i:14135540 original size:12 final size:12
Alignment explanation
Indices: 14135525--14135556 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
14135515 AATTTTAAGT
14135525 TATATTTTTTTA
1 TATATTTTTTTA
14135537 TATATTTTTTTA
1 TATATTTTTTTA
14135549 -ATATTTTT
1 TATATTTTT
14135557 CTATCATGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATATTTTTTTA
Found at i:14136589 original size:28 final size:29
Alignment explanation
Indices: 14136535--14136605 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
14136525 TATAATGAAA
*
14136535 TATTCAATATAATAT-TCAGATTTTAAAAAT
1 TATT-AATATAATATATCAGATTAT-AAAAT
* *
14136565 T-TTAATATAATATATGA-ATTATAAATT
1 TATTAATATAATATATCAGATTATAAAAT
14136592 TATTAAT-TAATATA
1 TATTAATATAATATA
14136606 ATATATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 12 0.33
28 19 0.53
29 4 0.11
30 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (29 bp):
TATTAATATAATATATCAGATTATAAAAT
Found at i:14142689 original size:31 final size:31
Alignment explanation
Indices: 14142651--14142713 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
14142641 TTTCGTGATA
14142651 CTAGCACATGCAACCGTTTCTTATTTGATTT
1 CTAGCACATGCAACCGTTTCTTATTTGATTT
14142682 CTAGCACATGCAACCGTTTCTTATTTGATTT
1 CTAGCACATGCAACCGTTTCTTATTTGATTT
14142713 C
1 C
14142714 GTGACAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (31 bp):
CTAGCACATGCAACCGTTTCTTATTTGATTT
Found at i:14145972 original size:24 final size:23
Alignment explanation
Indices: 14145936--14145991 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
14145926 TTACTTTTAT
*
14145936 AAAAAAAATAAAATAAT-AATAAG
1 AAAAATAATAAAATAATGAA-AAG
* *
14145959 AAAAATAATAAAAATGATGAAAGG
1 AAAAATAAT-AAAATAATGAAAAG
14145983 AAAAATAAT
1 AAAAATAAT
14145992 CCTTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.29
24 18 0.64
25 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (23 bp):
AAAAATAATAAAATAATGAAAAG
Done.