Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 99 of 129
Found at i:17944831 original size:20 final size:20
Alignment explanation
Indices: 17944792--17944831 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17944782 AAAATATGGG
* *
17944792 TAAAAATAAATAAATTAAAA
1 TAAAAATAAAAAAATAAAAA
17944812 TAAAAATAAAAAAATAAAAA
1 TAAAAATAAAAAAATAAAAA
17944832 AAGAAAAACT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAAAATAAAAA
Found at i:17945674 original size:9 final size:9
Alignment explanation
Indices: 17945661--17945726 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 9
17945651 GAAAAGAAAT
17945661 AAATAA-AA
1 AAATAATAA
*
17945669 ACAATAATGA
1 A-AATAATAA
*
17945679 TAATAATAA
1 AAATAATAA
* *
17945688 TAATAGTAA
1 AAATAATAA
*
17945697 AAACAATAA
1 AAATAATAA
*
17945706 TAATAATAA
1 AAATAATAA
*
17945715 TAATAATAA
1 AAATAATAA
17945724 AAA
1 AAA
17945727 CACCTAATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
8 1 0.02
9 44 0.96
10 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (9 bp):
AAATAATAA
Found at i:17945686 original size:3 final size:3
Alignment explanation
Indices: 17945671--17945723 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
17945661 AAATAAAAAC
* * * *
17945671 AAT AAT GAT AAT AAT AAT AAT AGT AAA AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17945719 AAT AA
1 AAT AA
17945724 AAACACCTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:17945698 original size:30 final size:30
Alignment explanation
Indices: 17945664--17945722 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
17945654 AAGAAATAAA
*
17945664 TAAAAACAATAATGATAATAATAATAATAG
1 TAAAAACAATAATAATAATAATAATAATAG
17945694 TAAAAACAATAATAATAATAATAATAATA
1 TAAAAACAATAATAATAATAATAATAATA
17945723 AAAACACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (30 bp):
TAAAAACAATAATAATAATAATAATAATAG
Found at i:17945796 original size:26 final size:26
Alignment explanation
Indices: 17945761--17945825 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
17945751 AAAATGAACC
* *
17945761 CAGATCAAAATGGATCTAATCAAATT
1 CAGACCAAAATGGACCTAATCAAATT
* * * **
17945787 CGGACTAAAATAGACCTAATTGAATT
1 CAGACCAAAATGGACCTAATCAAATT
17945813 CAGACCAAAATGG
1 CAGACCAAAATGG
17945826 GTATCTATAA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (26 bp):
CAGACCAAAATGGACCTAATCAAATT
Found at i:17951974 original size:23 final size:23
Alignment explanation
Indices: 17951925--17951977 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
17951915 GTTTAATTAA
* **
17951925 ATTAAACGAGCTCCTTCGTGAAC
1 ATTAAACAAGCTCCTTCACGAAC
* *
17951948 ATTAAACAAGCTTCTTCACGAAT
1 ATTAAACAAGCTCCTTCACGAAC
17951971 ATTAAAC
1 ATTAAAC
17951978 GAACATATTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (23 bp):
ATTAAACAAGCTCCTTCACGAAC
Found at i:17951993 original size:12 final size:12
Alignment explanation
Indices: 17951976--17952009 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17951966 CGAATATTAA
17951976 ACGAACATATTC
1 ACGAACATATTC
*
17951988 ACGAACATGTTC
1 ACGAACATATTC
*
17952000 ATGAACATAT
1 ACGAACATAT
17952010 ATAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (12 bp):
ACGAACATATTC
Found at i:17956421 original size:17 final size:18
Alignment explanation
Indices: 17956400--17956460 Score: 72
Period size: 17 Copynumber: 3.4 Consensus size: 18
17956390 TCATACAATA
17956400 AAATATAATATATCATGC
1 AAATATAATATATCATGC
17956418 -AATAATAATA-ATCATGC
1 AAAT-ATAATATATCATGC
*
17956435 AAAAATAATATAATCATGC
1 AAATATAATAT-ATCATGC
*
17956454 TAATATA
1 AAATATA
17956461 TTAATTGTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 16 0.44
18 8 0.22
19 12 0.33
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATATAATATATCATGC
Found at i:17956701 original size:14 final size:14
Alignment explanation
Indices: 17956659--17956701 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
17956649 TATTTAACAT
17956659 AATAAATAT-TAAA
1 AATAAATATATAAA
*
17956672 ATATAAATGTA-AAA
1 A-ATAAATATATAAA
17956686 AATAAATATATAAA
1 AATAAATATATAAA
17956700 AA
1 AA
17956702 AAGAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AATAAATATATAAA
Found at i:17956738 original size:15 final size:16
Alignment explanation
Indices: 17956720--17956757 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
17956710 TAAAAGCAAC
17956720 AAAAAAAAAACAAAT-
1 AAAAAAAAAACAAATG
* *
17956735 AAAAAGAAAATAAATG
1 AAAAAAAAAACAAATG
17956751 AAAAAAA
1 AAAAAAA
17956758 GAAAAGGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.84, C:0.03, G:0.05, T:0.08
Consensus pattern (16 bp):
AAAAAAAAAACAAATG
Found at i:17958109 original size:43 final size:43
Alignment explanation
Indices: 17958043--17958169 Score: 164
Period size: 43 Copynumber: 3.0 Consensus size: 43
17958033 AATAAATCAG
* *
17958043 GAAATGGGCTCCTCTAAACAGAGGCTAAACAACTTTGAAATGA
1 GAAATGGGCTCATCTAAAAAGAGGCTAAACAACTTTGAAATGA
* *
17958086 GCAGTGGGCTCATCTAAAAAGAGGCTAAACAACTTTGAAATGA
1 GAAATGGGCTCATCTAAAAAGAGGCTAAACAACTTTGAAATGA
* * * * * *
17958129 GAAATGAGCTCTTCCAAATAGAGGCTCAACAACTTTAAAAT
1 GAAATGGGCTCATCTAAAAAGAGGCTAAACAACTTTGAAAT
17958170 AAGTGATAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (43 bp):
GAAATGGGCTCATCTAAAAAGAGGCTAAACAACTTTGAAATGA
Found at i:17958319 original size:22 final size:22
Alignment explanation
Indices: 17958291--17958337 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
17958281 AAAGTTTTAA
17958291 AGATCATAC-TCGGATGTCTTAT
1 AGATCAT-CTTCGGATGTCTTAT
* *
17958313 AGATCATCTTCGTATGTCTTTT
1 AGATCATCTTCGGATGTCTTAT
17958335 AGA
1 AGA
17958338 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (22 bp):
AGATCATCTTCGGATGTCTTAT
Found at i:17958730 original size:17 final size:17
Alignment explanation
Indices: 17958651--17958733 Score: 87
Period size: 18 Copynumber: 4.7 Consensus size: 17
17958641 ATAAGATTTT
*
17958651 AGATTTGCAAGAGGTTTC
1 AGATTTGCAA-AGGTTCC
*
17958669 AGAGTTGCAAAGGTTCC
1 AGATTTGCAAAGGTTCC
17958686 AGATTTGCAAAAGGTTCC
1 AGATTTGC-AAAGGTTCC
* *
17958704 AAGTTTTGCAAAGGTCCC
1 -AGATTTGCAAAGGTTCC
17958722 ACG-TTTGCAAAG
1 A-GATTTGCAAAG
17958734 ATTTAGAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
17 23 0.40
18 27 0.47
19 7 0.12
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (17 bp):
AGATTTGCAAAGGTTCC
Found at i:17959129 original size:22 final size:22
Alignment explanation
Indices: 17959104--17959164 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 22
17959094 ATTTTTATTA
17959104 GAAAAATTAGAGATTCACATCC
1 GAAAAATTAGAGATTCACATCC
* * ** *
17959126 G-AAATTTCAAAGATTCTTATTC
1 GAAAAATT-AGAGATTCACATCC
*
17959148 AAAAAATTAGAGATTCA
1 GAAAAATTAGAGATTCA
17959165 TATATAAAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
21 5 0.18
22 18 0.64
23 5 0.18
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (22 bp):
GAAAAATTAGAGATTCACATCC
Found at i:17959175 original size:44 final size:44
Alignment explanation
Indices: 17959029--17959197 Score: 150
Period size: 44 Copynumber: 3.8 Consensus size: 44
17959019 GATTTCAAGG
* * *
17959029 TTCATAGCCAAAA-TTCAAAGATT-TTAATTCAAAAAATTTCA-AGTT
1 TTCATATCTAAAATTTCAAAGATTCTT-ATTCAAAAAA-TT-AGAG-A
* * *
17959074 TTAATATCTAAAGTTTC-AAGATTTTTATT-AGAAAAATTAGAGA
1 TTCATATCTAAAATTTCAAAGATTCTTATTCA-AAAAATTAGAGA
* **
17959117 TTCACATCCGAAATTTCAAAGATTCTTATTCAAAAAATTAGAGA
1 TTCATATCTAAAATTTCAAAGATTCTTATTCAAAAAATTAGAGA
* * *
17959161 TTCATATATAAAATTTCAAGGATTCTCATTCAAAAAA
1 TTCATATCTAAAATTTCAAAGATTCTTATTCAAAAAA
17959198 AAAAATTTTG
Statistics
Matches: 101, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
43 13 0.13
44 59 0.58
45 24 0.24
46 5 0.05
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (44 bp):
TTCATATCTAAAATTTCAAAGATTCTTATTCAAAAAATTAGAGA
Found at i:17959269 original size:95 final size:95
Alignment explanation
Indices: 17959117--17959290 Score: 226
Period size: 95 Copynumber: 1.8 Consensus size: 95
17959107 AAATTAGAGA
* * *
17959117 TTCACATCCGAAATTTCAAAGATTCTTATTCAAAAAATTAGAGATTCATATATAAAATTTCAAGG
1 TTCACATCCGAAATTTCAAAGATTCTCATTCAAAAAATTAGAGATTCACATATAAAATTTCAAAG
*
17959182 ATTCTCATTCAAAAAAAAAAATTTTGGGGT
66 ATTCACATTCAAAAAAAAAAATTTTGGGGT
* * * * * *
17959212 TTCACATCC-AAATTTTAAAGATTCTCATTTAAAAGATTTTGGGATTCACAT-TCAAAATTTTAA
1 TTCACATCCGAAATTTCAAAGATTCTCATTCAAAA-AATTAGAGATTCACATAT-AAAATTTCAA
17959275 AGATTCACATTCAAAA
64 AGATTCACATTCAAAA
17959291 TTTTTTTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
94 23 0.34
95 44 0.66
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (95 bp):
TTCACATCCGAAATTTCAAAGATTCTCATTCAAAAAATTAGAGATTCACATATAAAATTTCAAAG
ATTCACATTCAAAAAAAAAAATTTTGGGGT
Found at i:17959270 original size:45 final size:45
Alignment explanation
Indices: 17959197--17959290 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
17959187 CATTCAAAAA
* * * *
17959197 AAAAAATTTTGGGGTTTCACATCCAAATTTTAAAGATTCTCATTT
1 AAAAAATTTTGGGGATTCACATCAAAATTTTAAAGATTCACATTC
*
17959242 AAAAGATTTT-GGGATTCACATTCAAAATTTTAAAGATTCACATTC
1 AAAAAATTTTGGGGATTCACA-TCAAAATTTTAAAGATTCACATTC
17959287 AAAA
1 AAAA
17959291 TTTTTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 9 0.21
45 34 0.79
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (45 bp):
AAAAAATTTTGGGGATTCACATCAAAATTTTAAAGATTCACATTC
Found at i:17959282 original size:22 final size:22
Alignment explanation
Indices: 17959212--17959294 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
17959202 ATTTTGGGGT
*
17959212 TTCACA-TCCAAATTTTAAAGA
1 TTCACATTCAAAATTTTAAAGA
* * **
17959233 TTCTCATTTAAAAGATTTT-GGGA
1 TTCACA-TTCAAA-ATTTTAAAGA
17959256 TTCACATTCAAAATTTTAAAGA
1 TTCACATTCAAAATTTTAAAGA
17959278 TTCACATTCAAAATTTT
1 TTCACATTCAAAATTTT
17959295 TTTTTTGAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
21 10 0.20
22 24 0.49
23 10 0.20
24 5 0.10
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (22 bp):
TTCACATTCAAAATTTTAAAGA
Found at i:17960413 original size:11 final size:11
Alignment explanation
Indices: 17960396--17960434 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
17960386 TCAGTTTAAG
17960396 TTTTTTTTT-T
1 TTTTTTTTTCT
*
17960406 TCTTTTTTTCT
1 TTTTTTTTTCT
*
17960417 TTTTTTTTCCT
1 TTTTTTTTTCT
17960428 TTTTTTT
1 TTTTTTT
17960435 ACATTTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:17960419 original size:19 final size:19
Alignment explanation
Indices: 17960397--17960433 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17960387 CAGTTTAAGT
*
17960397 TTTTTTTTTTCTTTTTTTC
1 TTTTTTTTTCCTTTTTTTC
17960416 TTTTTTTTTCCTTTTTTT
1 TTTTTTTTTCCTTTTTTT
17960434 TACATTTTTT
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:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (19 bp):
TTTTTTTTTCCTTTTTTTC
Found at i:17960441 original size:11 final size:9
Alignment explanation
Indices: 17960399--17960457 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 9
17960389 GTTTAAGTTT
17960399 TTTTTTTTC
1 TTTTTTTTC
17960408 -TTTTTTTC
1 TTTTTTTTC
17960416 TTTTTTTTTCC
1 -TTTTTTTT-C
17960427 TTTTTTTTAC
1 TTTTTTTT-C
*
17960437 ATTTTTTCATC
1 -TTTTTT-TTC
17960448 TTTTTTTTC
1 TTTTTTTTC
17960457 T
1 T
17960458 CCTTCCCCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
8 8 0.19
9 3 0.07
10 22 0.52
11 8 0.19
12 1 0.02
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:17963325 original size:22 final size:21
Alignment explanation
Indices: 17963276--17963325 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
17963266 GAGGTTAGTA
* *
17963276 AACATGATATATACAAAGAAC
1 AACATAATATATACAAAAAAC
*
17963297 AATATAATATATACAAAAAAAC
1 AACATAATATATAC-AAAAAAC
17963319 AACATAA
1 AACATAA
17963326 AGGGTTAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.64, C:0.12, G:0.04, T:0.20
Consensus pattern (21 bp):
AACATAATATATACAAAAAAC
Found at i:17964591 original size:16 final size:16
Alignment explanation
Indices: 17964549--17964659 Score: 57
Period size: 20 Copynumber: 6.4 Consensus size: 16
17964539 TAAAATCATA
17964549 ATGCAA-AA-ATTATC
1 ATGCAATAATATTATC
17964563 ATGCAATAAAATATTATC
1 ATGCAAT--AATATTATC
* *
17964581 ATGCAATAATAATAGTT
1 ATGCAATAATATTA-TC
* *
17964598 ATACAAAAATAATATAATC
1 ATGC---AATAATATTATC
17964617 ATGCAAATATATTAATTATC
1 ATGC-AATA-A-T-ATTATC
*
17964637 ATGCAATTAA-ATAATC
1 ATGCAA-TAATATTATC
17964653 ATGCAAT
1 ATGCAAT
17964660 TATGCAAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
14 6 0.08
15 1 0.01
16 17 0.22
17 11 0.14
18 14 0.18
19 8 0.11
20 19 0.25
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.32
Consensus pattern (16 bp):
ATGCAATAATATTATC
Found at i:17964660 original size:16 final size:17
Alignment explanation
Indices: 17964611--17964662 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 17
17964601 CAAAAATAAT
17964611 ATAATCATGCAAATATATTA
1 ATAATCATGC-AAT-TA-TA
*
17964631 ATTATCATGCAATTA-A
1 ATAATCATGCAATTATA
17964647 ATAATCATGCAATTAT
1 ATAATCATGCAATTAT
17964663 GCAAAATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 15 0.52
18 2 0.07
19 3 0.10
20 9 0.31
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.37
Consensus pattern (17 bp):
ATAATCATGCAATTATA
Found at i:17964749 original size:29 final size:30
Alignment explanation
Indices: 17964715--17964771 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17964705 ATAAAAAGAG
* * *
17964715 TCATGCAAATAT-ATTAAATTCATAAAACA
1 TCATGCAAAAATAAATAAATACATAAAACA
17964744 TCATGCAAAAATAAATAAATACATAAAA
1 TCATGCAAAAATAAATAAATACATAAAA
17964772 ATAAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.58, C:0.12, G:0.04, T:0.26
Consensus pattern (30 bp):
TCATGCAAAAATAAATAAATACATAAAACA
Found at i:17964895 original size:18 final size:18
Alignment explanation
Indices: 17964874--17964912 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17964864 AAAAATCAAC
* *
17964874 AAAAATTAAA-AAAAATG
1 AAAAAATAAATAAAAAAG
17964891 AAAAAATAAATAAAAAAG
1 AAAAAATAAATAAAAAAG
17964909 AAAA
1 AAAA
17964913 GGGAATATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAAAATAAATAAAAAAG
Found at i:17969745 original size:3 final size:3
Alignment explanation
Indices: 17969737--17969784 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
17969727 TCAATTTTTG
* *
17969737 TTA TTA TTA TTA TTA TTA GTA TTA TT- TTA -TA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17969783 TT
1 TT
17969785 TGTATGATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:17969770 original size:22 final size:22
Alignment explanation
Indices: 17969744--17969785 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17969734 TTGTTATTAT
*
17969744 TATTATTATTAGTATTATTTTA
1 TATTATTAATAGTATTATTTTA
*
17969766 TATTATTAATATTATTATTT
1 TATTATTAATAGTATTATTT
17969786 GTATGATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTATTAATAGTATTATTTTA
Found at i:17969799 original size:28 final size:29
Alignment explanation
Indices: 17969735--17969799 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 29
17969725 GATCAATTTT
* *
17969735 TGTTATTATTATTATTATTAGTATTATTTTA
1 TGTTATTAATATTATTATTAGTATGA--TTA
* *
17969766 TATTATTAATATTATTATTTGTATGA-TA
1 TGTTATTAATATTATTATTAGTATGATTA
17969794 TGTTAT
1 TGTTAT
17969800 CACAATATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 7 0.24
31 22 0.76
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (29 bp):
TGTTATTAATATTATTATTAGTATGATTA
Found at i:17970655 original size:6 final size:6
Alignment explanation
Indices: 17970644--17970707 Score: 62
Period size: 6 Copynumber: 10.8 Consensus size: 6
17970634 TGATCGTAGG
* * *
17970644 TTTTTA TTTTTA -TTTTA TTTTCTA ATTTTA TTTTATA TTTTGA TTTTGA
1 TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTT-TA TTTTTA TTTTTA
17970693 -TTTTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTTT
17970708 CAAAATTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 14 0.28
6 25 0.50
7 11 0.22
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:17970673 original size:13 final size:11
Alignment explanation
Indices: 17970645--17970706 Score: 72
Period size: 13 Copynumber: 5.4 Consensus size: 11
17970635 GATCGTAGGT
17970645 TTTTATTTTTA
1 TTTTATTTTTA
17970656 TTTTATTTTCTAA
1 TTTTATTTT-T-A
17970669 TTTTATTTTATA
1 TTTTATTTT-TA
*
17970681 TTTTGATTTTGA
1 TTTT-ATTTTTA
17970693 TTTTA-TTTTA
1 TTTTATTTTTA
17970703 TTTT
1 TTTT
17970707 TCAAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
10 8 0.18
11 10 0.22
12 11 0.24
13 16 0.36
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:17970674 original size:18 final size:17
Alignment explanation
Indices: 17970644--17970701 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 17
17970634 TGATCGTAGG
*
17970644 TTTTTATTTTTATTTTA
1 TTTTTAATTTTATTTTA
17970661 TTTTCTAATTTTATTTTA
1 TTTT-TAATTTTATTTTA
*
17970679 TATTTTGATTTTGATTTTA
1 T-TTTTAATTTT-ATTTTA
17970698 TTTT
1 TTTT
17970702 ATTTTTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 4 0.11
18 22 0.61
19 10 0.28
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTAATTTTATTTTA
Found at i:17970677 original size:24 final size:23
Alignment explanation
Indices: 17970645--17970706 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
17970635 GATCGTAGGT
17970645 TTTTATTTTTATTTT-ATTTTCTAA
1 TTTTATTTTTATTTTGA-TTT-TAA
*
17970669 TTTTATTTTATATTTTGATTTTGA
1 TTTTATTTT-TATTTTGATTTTAA
17970693 TTTTA-TTTTATTTT
1 TTTTATTTTTATTTT
17970707 TCAAAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
22 6 0.17
23 3 0.09
24 16 0.46
25 9 0.26
26 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (23 bp):
TTTTATTTTTATTTTGATTTTAA
Found at i:17970731 original size:43 final size:42
Alignment explanation
Indices: 17970651--17970733 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 42
17970641 AGGTTTTTAT
* **
17970651 TTTTATTTTATTTTCTAATTTTATTTTATATTTTGATTTTGA
1 TTTTATTTTATTTTCAAATTTTATTTTATATACTGATTTTGA
17970693 TTTTATTTTATTTTTCAAAATTTT-TTTTACT-TACTGATTTT
1 TTTTATTTTA-TTTTC-AAATTTTATTTTA-TATACTGATTTT
17970734 TATTATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
42 10 0.29
43 18 0.51
44 7 0.20
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.70
Consensus pattern (42 bp):
TTTTATTTTATTTTCAAATTTTATTTTATATACTGATTTTGA
Found at i:17970915 original size:52 final size:55
Alignment explanation
Indices: 17970812--17970921 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 55
17970802 TTTGTAAAAC
* * * **
17970812 AACAAAAAAAAAGCAAAAACTAAAAAAGAAATTTCTTTTCAAATAGGTTTAT-GA
1 AACAAAAAAAAAACAAAAAATAAAAAAGAAATCTCTTTTCAAATAAATTTATAGA
* *
17970866 AACAAAAAAAAAATAAAAAAT-AAAAATAAATCT-TTTTCAAATAAATTTATAGA
1 AACAAAAAAAAAACAAAAAATAAAAAAGAAATCTCTTTTCAAATAAATTTATAGA
17970919 AAC
1 AAC
17970922 CACTAAACTA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 15 0.31
53 15 0.31
54 18 0.38
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.25
Consensus pattern (55 bp):
AACAAAAAAAAAACAAAAAATAAAAAAGAAATCTCTTTTCAAATAAATTTATAGA
Found at i:17971303 original size:21 final size:20
Alignment explanation
Indices: 17971279--17971328 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
17971269 ACTATTGGGG
*
17971279 CAATTTTAAGACTAATTTTT
1 CAATTTTAAAACTAATTTTT
17971299 ACAATTTTAAAACTAATTTTT
1 -CAATTTTAAAACTAATTTTT
17971320 -AATTTTAAA
1 CAATTTTAAA
17971329 TATTTTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 9 0.32
21 19 0.68
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (20 bp):
CAATTTTAAAACTAATTTTT
Found at i:17973653 original size:14 final size:12
Alignment explanation
Indices: 17973618--17973648 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17973608 ATTAAGTTAA
*
17973618 ACGAACATGTTC
1 ACGAACATATTC
17973630 ACGAACATATTC
1 ACGAACATATTC
17973642 ACGAACA
1 ACGAACA
17973649 CATATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (12 bp):
ACGAACATATTC
Found at i:17973696 original size:15 final size:14
Alignment explanation
Indices: 17973676--17973749 Score: 51
Period size: 15 Copynumber: 5.0 Consensus size: 14
17973666 CATGAATAAT
*
17973676 AAACAAACCATAACC
1 AAACAAA-CATAAAC
**
17973691 AAACAAATTTAAAC
1 AAACAAACATAAAC
*
17973705 AAACAAACCTTAAAC
1 AAACAAA-CATAAAC
*
17973720 AAACATAAACA-AACCC
1 AAAC--AAACATAA-AC
17973736 AAACAAACATAAAC
1 AAACAAACATAAAC
17973750 GAACCTTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
14 17 0.36
15 21 0.45
16 6 0.13
17 3 0.06
ACGTcount: A:0.64, C:0.26, G:0.00, T:0.11
Consensus pattern (14 bp):
AAACAAACATAAAC
Found at i:17973703 original size:25 final size:25
Alignment explanation
Indices: 17973674--17973739 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
17973664 TTCATGAATA
*
17973674 ATAAACAAACCATAACC-AAACAAAT
1 ATAAACAAACCA-AACCTAAACAAAC
*
17973699 TTAAACAAA-CAAACCTTAAACAAAC
1 ATAAACAAACCAAACC-TAAACAAAC
17973724 ATAAACAAACCCAAAC
1 ATAAACAAA-CCAAAC
17973740 AAACATAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 4 0.12
24 2 0.06
25 23 0.68
27 5 0.15
ACGTcount: A:0.62, C:0.26, G:0.00, T:0.12
Consensus pattern (25 bp):
ATAAACAAACCAAACCTAAACAAAC
Found at i:17973707 original size:14 final size:15
Alignment explanation
Indices: 17973676--17973724 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
17973666 CATGAATAAT
* *
17973676 AAACAAACCATAACC
1 AAACAAACCTTAAAC
*
17973691 AAACAAA-TTTAAAC
1 AAACAAACCTTAAAC
17973705 AAACAAACCTTAAAC
1 AAACAAACCTTAAAC
17973720 AAACA
1 AAACA
17973725 TAAACAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.63, C:0.24, G:0.00, T:0.12
Consensus pattern (15 bp):
AAACAAACCTTAAAC
Found at i:17973730 original size:10 final size:10
Alignment explanation
Indices: 17973705--17973749 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
17973695 AAATTTAAAC
*
17973705 AAACAAACCTT
1 AAACAAA-CAT
17973716 AAACAAACAT
1 AAACAAACAT
**
17973726 AAACAAACCC
1 AAACAAACAT
17973736 AAACAAACAT
1 AAACAAACAT
17973746 AAAC
1 AAAC
17973750 GAACCTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 22 0.76
11 7 0.24
ACGTcount: A:0.64, C:0.27, G:0.00, T:0.09
Consensus pattern (10 bp):
AAACAAACAT
Found at i:17973741 original size:20 final size:21
Alignment explanation
Indices: 17973705--17973755 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
17973695 AAATTTAAAC
*
17973705 AAACAAACCTTAAACAAACAT
1 AAACAAACCTCAAACAAACAT
17973726 AAACAAACC-CAAACAAACAT
1 AAACAAACCTCAAACAAACAT
*
17973746 AAACGAACCT
1 AAACAAACCT
17973756 TAAAATAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.61, C:0.27, G:0.02, T:0.10
Consensus pattern (21 bp):
AAACAAACCTCAAACAAACAT
Found at i:17981213 original size:21 final size:22
Alignment explanation
Indices: 17981181--17981226 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
17981171 ATAGAATGCT
*
17981181 AAATTTATAATTTCAATGATTA
1 AAATTTATAATTTCAATAATTA
*
17981203 AAATTTA-AATTTTAATAATTA
1 AAATTTATAATTTCAATAATTA
17981224 AAA
1 AAA
17981227 AAAATTGCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AAATTTATAATTTCAATAATTA
Found at i:17985854 original size:78 final size:78
Alignment explanation
Indices: 17985700--17985861 Score: 254
Period size: 78 Copynumber: 2.1 Consensus size: 78
17985690 GTTTATAACT
* * * *
17985700 TACAAAACAGGAGACTTTGGTTGCATTAAGATGAAAAATAGAGTGTGTCACAGATTATTAGTATT
1 TACAAAACAAGAGACTTTGGTTGCATCAAGATGAAAAAAAGAGTGTGTCACAGATTATTAGGATT
17985765 GGTGATATTATTG
66 GGTGATATTATTG
* *
17985778 TACAAAGCAAGAGACTTTGGTTGTATCAAGATGAAAAAGAAGAGTGTGTCACAGATTATTAGGAT
1 TACAAAACAAGAGACTTTGGTTGCATCAAGATGAAAAA-AAGAGTGTGTCACAGATTATTAGGAT
17985843 TGGTGAT-TTATTG
65 TGGTGATATTATTG
17985856 TACAAA
1 TACAAA
17985862 TTAGTATGGG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 46 0.60
79 31 0.40
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.31
Consensus pattern (78 bp):
TACAAAACAAGAGACTTTGGTTGCATCAAGATGAAAAAAAGAGTGTGTCACAGATTATTAGGATT
GGTGATATTATTG
Found at i:17990795 original size:22 final size:22
Alignment explanation
Indices: 17990750--17990792 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
17990740 ATAATTATTT
17990750 TATATATAAAAATCTATTTAAA
1 TATATATAAAAATCTATTTAAA
17990772 TATAT-TAAAAAT-TATATTAAA
1 TATATATAAAAATCTAT-TTAAA
17990793 ATAATATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.15
21 12 0.60
22 5 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATATAAAAATCTATTTAAA
Found at i:17991847 original size:19 final size:19
Alignment explanation
Indices: 17991806--17991841 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17991796 TTGTTTTAGC
17991806 TTTAGTTTATTTTCTTTAA
1 TTTAGTTTATTTTCTTTAA
17991825 TTTAGTTTA-TTTCTTTA
1 TTTAGTTTATTTTCTTTA
17991842 TTTTTATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (19 bp):
TTTAGTTTATTTTCTTTAA
Found at i:17992901 original size:48 final size:47
Alignment explanation
Indices: 17992782--17992942 Score: 134
Period size: 48 Copynumber: 3.5 Consensus size: 47
17992772 AACTAGAGGA
* *
17992782 ATTGAAACTTTAAAAATT-AAAA--AAAAAA--AATCTAACCAAAGGC
1 ATTGAAACTTTAAAAATTCAAAACCAAAAAACTCATCTAA-CAAAAGC
* * * * *
17992825 AATGAAACTTTATAAATACAAAACCAAAAAGCTCATCTAACTAAAGAC
1 ATTGAAACTTTAAAAATTCAAAACCAAAAAACTCATCTAACAAAAG-C
** * * * *
17992873 ATTGAAACTTTAAAAATTTTAAAGCAAAAAATTCTTTTAATCAAAAGC
1 ATTGAAACTTTAAAAATTCAAAACCAAAAAACTCATCTAA-CAAAAGC
*
17992921 TTTGAAACTTTAAAAATTCAAA
1 ATTGAAACTTTAAAAATTCAAA
17992943 TGAGCTACTC
Statistics
Matches: 90, Mismatches: 21, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
43 15 0.17
44 4 0.04
46 5 0.06
47 4 0.04
48 57 0.63
49 5 0.06
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (47 bp):
ATTGAAACTTTAAAAATTCAAAACCAAAAAACTCATCTAACAAAAGC
Found at i:17994551 original size:32 final size:32
Alignment explanation
Indices: 17994510--17994572 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
17994500 TTATTTCATA
* *
17994510 CATGTGTGTGGCTCTAATACCATTGTGAACAG
1 CATGTGTGTGGCTCAAATACCATTATGAACAG
17994542 CATGTGTGTGGCTCAAATACCATTATGAACA
1 CATGTGTGTGGCTCAAATACCATTATGAACA
17994573 AGTAAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (32 bp):
CATGTGTGTGGCTCAAATACCATTATGAACAG
Found at i:17995237 original size:29 final size:30
Alignment explanation
Indices: 17995185--17995244 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
17995175 AGTTAATAGA
* * *
17995185 TTTATAATTTAGATATCATATTAAA-ATTT
1 TTTAAAATTTAGATACCACATTAAATATTT
*
17995214 TTTAAAATTTAGATACCACGTTAAATATTT
1 TTTAAAATTTAGATACCACATTAAATATTT
17995244 T
1 T
17995245 ACTATACTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTAAAATTTAGATACCACATTAAATATTT
Found at i:17995920 original size:16 final size:16
Alignment explanation
Indices: 17995899--17995965 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 16
17995889 ATTATCATTT
17995899 ATATTAATAAATTATA
1 ATATTAATAAATTATA
*
17995915 ATATTAATAATTTA-A
1 ATATTAATAAATTATA
* *
17995930 TATCATTTAATATTATTATC
1 -AT-A-TTAATA-AATTATA
17995950 ATATTAATAATATTAT
1 ATATTAATAA-ATTAT
17995966 TTTAAATAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 1 0.03
16 15 0.38
17 12 0.30
18 7 0.17
19 5 0.12
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATTAATAAATTATA
Found at i:18002469 original size:3 final size:3
Alignment explanation
Indices: 18002461--18002486 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18002451 ATTATAATAT
18002461 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
18002487 TAATTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18002524 original size:13 final size:13
Alignment explanation
Indices: 18002464--18002522 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
18002454 ATAATATTTA
*
18002464 TTATTATTATTATT
1 TTATTATT-TAATT
18002478 ATTATTATTTAATT
1 -TTATTATTTAATT
**
18002492 TTATTCCTTAATT
1 TTATTATTTAATT
18002505 TTATT-TTTAAATT
1 TTATTATTT-AATT
18002518 TTATT
1 TTATT
18002523 TTACTCCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
12 2 0.05
13 25 0.64
14 4 0.10
15 8 0.21
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTATTTAATT
Found at i:18003396 original size:27 final size:25
Alignment explanation
Indices: 18003335--18003414 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 25
18003325 AGATTTGGTT
*
18003335 TTTTCTTTT-TTCATTTTATTTTTG
1 TTTTCTTTTATTTATTTTATTTTTG
*
18003359 TTTATATTTTTATTTATTTTATTTTTAG
1 TTT-T-CTTTTATTTATTTTATTTTT-G
*
18003387 ATTTTCTTTTA-TTATTATTATTGTTG
1 -TTTTCTTTTATTTATT-TTATTTTTG
18003413 TT
1 TT
18003415 GTTGTTATTG
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
24 3 0.07
25 3 0.07
26 10 0.22
27 25 0.54
28 2 0.04
29 3 0.07
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTTCTTTTATTTATTTTATTTTTG
Found at i:18006167 original size:45 final size:45
Alignment explanation
Indices: 18006103--18006188 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
18006093 CAAGTTTTAG
* * *
18006103 CAATGTATGATACTACAAATAATTCATTATTCGGTAAAATTGAAA
1 CAATGTAAGATACCACAAATAATTCATTATTCAGTAAAATTGAAA
* *
18006148 CAATGTAAGGTACCACAAATAATTCATTATTTAGTAAAATT
1 CAATGTAAGATACCACAAATAATTCATTATTCAGTAAAATT
18006189 CAAGCTTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (45 bp):
CAATGTAAGATACCACAAATAATTCATTATTCAGTAAAATTGAAA
Found at i:18018067 original size:14 final size:15
Alignment explanation
Indices: 18018050--18018079 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18018040 ATTCTCAATT
18018050 CATTTG-CCAAAAAA
1 CATTTGCCCAAAAAA
18018064 CATTTGCCCAAAAAA
1 CATTTGCCCAAAAAA
18018079 C
1 C
18018080 CATCAATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.20
Consensus pattern (15 bp):
CATTTGCCCAAAAAA
Found at i:18019042 original size:183 final size:183
Alignment explanation
Indices: 18018734--18019097 Score: 613
Period size: 183 Copynumber: 2.0 Consensus size: 183
18018724 AAAATGTCAC
* * *
18018734 TAATCTAATCTATAAAATTTTAATTTGAGCAAAGGAAAGTGATTTGAATCAAGCCAATTTCACTA
1 TAATCTAATCTATAAAATCTTAATTTGAACAAAGGAAAGTGATTTGAATCAAGCCAATTCCACTA
*
18018799 AAGCAATGATAATTTTTATTTGGTGTGTCGTAGGTGACAAGTCATTATCACAAACAAATCATAAA
66 AAACAATGATAATTTTTATTTGGTGTGTCGTAGGTGACAAGTCATTATCACAAACAAATCATAAA
* *
18018864 CTAATTCCGTCATATAATGTTAGAAAGATAATATATTTAATTTAAACTATTAT
131 ATAATTCCGTCATACAATGTTAGAAAGATAATATATTTAATTTAAACTATTAT
*
18018917 TAATCTAATCTATAAAATCTTAATTTGAATAAAGGAAAGTGATTTGAATCAAGCCAATTCCACTA
1 TAATCTAATCTATAAAATCTTAATTTGAACAAAGGAAAGTGATTTGAATCAAGCCAATTCCACTA
* *
18018982 AAACAATGAT-ATTTTTGGTTTGGTGTGTCGTAGGTGGCAAGTCATTATCACAAACAAATCATAA
66 AAACAATGATAATTTTT-ATTTGGTGTGTCGTAGGTGACAAGTCATTATCACAAACAAATCATAA
* *
18019046 AATAATTCTGTGATACAATGTTAGAAAGATAATATATTTAATTTAAACTATT
130 AATAATTCCGTCATACAATGTTAGAAAGATAATATATTTAATTTAAACTATT
18019098 GTTATTATAG
Statistics
Matches: 169, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
182 6 0.04
183 163 0.96
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (183 bp):
TAATCTAATCTATAAAATCTTAATTTGAACAAAGGAAAGTGATTTGAATCAAGCCAATTCCACTA
AAACAATGATAATTTTTATTTGGTGTGTCGTAGGTGACAAGTCATTATCACAAACAAATCATAAA
ATAATTCCGTCATACAATGTTAGAAAGATAATATATTTAATTTAAACTATTAT
Found at i:18019575 original size:17 final size:17
Alignment explanation
Indices: 18019536--18019576 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
18019526 TTATATACAA
18019536 TATTTTTA-ATATATAT
1 TATTTTTACATATATAT
18019552 T-TTTTTACATAT-TAT
1 TATTTTTACATATATAT
18019567 TGATTTTTAC
1 T-ATTTTTAC
18019577 GTTGAACTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.45
16 5 0.23
17 7 0.32
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTTTTACATATATAT
Found at i:18020478 original size:24 final size:27
Alignment explanation
Indices: 18020437--18020510 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 27
18020427 TTTCTAATTT
* * *
18020437 TATACTATAATATTATATATTATTTATA
1 TATA-TATAACATAATATATTATATATA
* *
18020465 T-TA-ATAA-ATCATATAATATATATA
1 TATATATAACATAATATATTATATATA
18020489 TATATATAACATAATATATTAT
1 TATATATAACATAATATATTAT
18020511 GCTTCAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 15 0.39
25 6 0.16
26 4 0.11
27 12 0.32
28 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
TATATATAACATAATATATTATATATA
Found at i:18021372 original size:29 final size:29
Alignment explanation
Indices: 18021332--18021409 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
18021322 TATGTATATA
*
18021332 AAATC-TATATTTTTA-TTACACTT-AAAT
1 AAATCTTAAATTTTTATTTACA-TTCAAAT
*
18021359 AAACTCTTAAATTTTAATTTACATTCAAAT
1 AAA-TCTTAAATTTTTATTTACATTCAAAT
* *
18021389 AAATTTTTAATTTTTAATTTA
1 AAATCTTAAATTTTT-ATTTA
18021410 TATCTAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
27 3 0.07
28 2 0.05
29 19 0.46
30 17 0.41
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (29 bp):
AAATCTTAAATTTTTATTTACATTCAAAT
Found at i:18021389 original size:30 final size:30
Alignment explanation
Indices: 18021347--18021422 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
18021337 TATATTTTTA
18021347 TTACACTT-AAATAAACTCTTAAATTTTAAT
1 TTACA-TTCAAATAAACTCTTAAATTTTAAT
* * *
18021377 TTACATTCAAATAAATTTTTAATTTTTAAT
1 TTACATTCAAATAAACTCTTAAATTTTAAT
*
18021407 TTATA-TCTAAATAAAC
1 TTACATTC-AAATAAAC
18021423 GCCTAACTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 4 0.10
30 35 0.90
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (30 bp):
TTACATTCAAATAAACTCTTAAATTTTAAT
Found at i:18021534 original size:28 final size:29
Alignment explanation
Indices: 18021478--18021552 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
18021468 AATTTTGTTT
* *
18021478 AAAATAAATATTTGTTTGAATACAAATAA
1 AAAATAAAAATTTATTTGAATACAAATAA
18021507 AAAATAAAAATTTATTTGAATAC-AATAA
1 AAAATAAAAATTTATTTGAATACAAATAA
18021535 AAACATAAAAATTTATTT
1 AAA-ATAAAAATTTATTT
18021553 TAAAAAATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 8 0.19
29 35 0.81
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATAAAAATTTATTTGAATACAAATAA
Found at i:18021914 original size:2 final size:2
Alignment explanation
Indices: 18021907--18021931 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18021897 GAATTTCACT
18021907 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 T
18021932 TACAATATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18023900 original size:14 final size:14
Alignment explanation
Indices: 18023881--18023908 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18023871 TAGGACAAAA
18023881 CCGTGAGGTCAGGG
1 CCGTGAGGTCAGGG
18023895 CCGTGAGGTCAGGG
1 CCGTGAGGTCAGGG
18023909 GGCCAGAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.50, T:0.14
Consensus pattern (14 bp):
CCGTGAGGTCAGGG
Found at i:18027338 original size:62 final size:61
Alignment explanation
Indices: 18027254--18027566 Score: 201
Period size: 62 Copynumber: 5.0 Consensus size: 61
18027244 TTCTGGCCAT
* * * *
18027254 AAACACCTTCAATAATCTCTTTAAATTTTTATGAGATGATTATTCAAGGTATTTTTGTC-AA
1 AAACGCCTTGAATAATCCCTTTAAATTTTTATGAGA-GATTATTCAAGGCATTTTTGTCTAA
* **
18027315 AAACGCCTTGAATAATTCCCTTT-AATTTTATATTG-GAGATTATTCGAGGTGTTTTT-TCCTAG
1 AAACGCCTTGAATAA-TCCCTTTAAATTTT-TA-TGAGAGATTATTCAAGGCATTTTTGT-CTA-
18027377 A
61 A
* * * * ** * * *
18027378 AAATGCCTTGAATAATTCACTCATAAAATTGAAT-A-AGGTTATTCAAAGCATTTTTGGCTAA
1 AAACGCCTTGAATAA-TCCCT-TTAAATTTTTATGAGAGATTATTCAAGGCATTTTTGTCTAA
* * * * * *
18027439 AAAGGCCTTTAATAAT-CCTCTTCAATTTTTATTAGGAGATTACTCAAGGGATTTTTGATC-AA
1 AAACGCCTTGAATAATCCCT-TTAAATTTTTATGA-GAGATTATTCAAGGCATTTTTG-TCTAA
* * * * * *
18027501 AAATGCCTTGAATAATCCCTTCTAATTTTTTATTAGTGATTATTCAATGCATTTTTGCCTAGA
1 AAACGCCTTGAATAATCCCTT-TAAATTTTTATGAGAGATTATTCAAGGCATTTTTGTCTA-A
18027564 AAA
1 AAA
18027567 TACCTTAAAT
Statistics
Matches: 195, Mismatches: 39, Indels: 34
0.73 0.15 0.13
Matches are distributed among these distances:
59 10 0.05
60 3 0.02
61 52 0.27
62 82 0.42
63 42 0.22
64 2 0.01
65 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (61 bp):
AAACGCCTTGAATAATCCCTTTAAATTTTTATGAGAGATTATTCAAGGCATTTTTGTCTAA
Found at i:18027392 original size:124 final size:123
Alignment explanation
Indices: 18027259--18027566 Score: 279
Period size: 124 Copynumber: 2.5 Consensus size: 123
18027249 GCCATAAACA
* * * * *
18027259 CCTTCAATAATCTCTTTAAATTTTTATGAGATGATTATTCAAGGTATTTTTGTC-AAAAACGCCT
1 CCTTGAATAATCACTTTAAATTTTTAT-AGATGATTATTCAAAGCATTTTTGGCTAAAAACGCCT
* * * * *
18027323 TGAATAATTCC-CTTTAATTTTATATT-GGAGATTATTCGAGGTGTTTTTTCCT-AGAAAATG
65 TGAATAA-TCCTCTTCAATTTT-TATTAGGAGATTACTCAAGG-GATTTTTCATCA-AAAATG
* * ** * *
18027383 CCTTGAATAATTCACTCATAAAATTGAATA-A-GGTTATTCAAAGCATTTTTGGCTAAAAAGGCC
1 CCTTGAATAA-TCACT-TTAAATTTTTATAGATGATTATTCAAAGCATTTTTGGCTAAAAACGCC
* *
18027446 TTTAATAATCCTCTTCAATTTTTATTAGGAGATTACTCAAGGGATTTTTGATCAAAAATG
64 TTGAATAATCCTCTTCAATTTTTATTAGGAGATTACTCAAGGGATTTTTCATCAAAAATG
* * * *
18027506 CCTTGAATAATCCCTTCTAATTTTTTATTAG-TGATTATTCAATGCATTTTTGCCTAGAAAA
1 CCTTGAATAATCACTT-TAAATTTTTA-TAGATGATTATTCAAAGCATTTTTGGCTA-AAAA
18027567 TACCTTAAAT
Statistics
Matches: 146, Mismatches: 27, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
122 10 0.07
123 50 0.34
124 69 0.47
125 9 0.06
126 8 0.05
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (123 bp):
CCTTGAATAATCACTTTAAATTTTTATAGATGATTATTCAAAGCATTTTTGGCTAAAAACGCCTT
GAATAATCCTCTTCAATTTTTATTAGGAGATTACTCAAGGGATTTTTCATCAAAAATG
Found at i:18027431 original size:123 final size:123
Alignment explanation
Indices: 18027293--18027516 Score: 285
Period size: 123 Copynumber: 1.8 Consensus size: 123
18027283 TATGAGATGA
* * * *
18027293 TTATTCAAGGTATTTTTGTC-AAAAACGCCTTGAATAATTCC-CTTTAATTTTATATT-GGAGAT
1 TTATTCAAAGCATTTTTGGCTAAAAACGCCTTGAATAA-TCCTCTTCAATTTT-TATTAGGAGAT
* * * *
18027355 TATTCGAGGTGTTTTTTCCT-AGAAAATGCCTTGAATAATTCACTCATAAAATTGAATAAGG
64 TACTCAAGG-GATTTTTCATCA-AAAATGCCTTGAATAATTCACTCATAAAATTGAATAAGG
* *
18027416 TTATTCAAAGCATTTTTGGCTAAAAAGGCCTTTAATAATCCTCTTCAATTTTTATTAGGAGATTA
1 TTATTCAAAGCATTTTTGGCTAAAAACGCCTTGAATAATCCTCTTCAATTTTTATTAGGAGATTA
*
18027481 CTCAAGGGATTTTTGATCAAAAATGCCTTGAATAAT
66 CTCAAGGGATTTTTCATCAAAAATGCCTTGAATAAT
18027517 CCCTTCTAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
123 48 0.56
124 38 0.44
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.39
Consensus pattern (123 bp):
TTATTCAAAGCATTTTTGGCTAAAAACGCCTTGAATAATCCTCTTCAATTTTTATTAGGAGATTA
CTCAAGGGATTTTTCATCAAAAATGCCTTGAATAATTCACTCATAAAATTGAATAAGG
Found at i:18031569 original size:24 final size:24
Alignment explanation
Indices: 18031535--18031581 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
18031525 AACCTTGAAT
*
18031535 AGTGTGGTCATAAAATCATATAAC
1 AGTGTGATCATAAAATCATATAAC
18031559 AGTGTGATCATAAAATCATATAA
1 AGTGTGATCATAAAATCATATAA
18031582 AACTATCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (24 bp):
AGTGTGATCATAAAATCATATAAC
Found at i:18032761 original size:64 final size:62
Alignment explanation
Indices: 18032603--18032768 Score: 169
Period size: 64 Copynumber: 2.7 Consensus size: 62
18032593 CATTGATAAT
* * *
18032603 CCAAAAACGCCTTCAATAATCCCCTC-ATAAAATTGGA-AGGGATTACTCAAGGCATTTTTGA
1 CCAAAAACACCTTCAATAATCCCCTCTATAAAATTGGAGA-GGAATACTCAAAGCATTTTTGA
* * * * * *
18032664 CCAAAAATACTTTCAATAAT--CCTCTAATAAAAATTAGAGAGGAATATTGAAAGCATTTTTTTT
1 CCAAAAACACCTTCAATAATCCCCTCT-AT-AAAATTGGAGAGGAATACTCAAAGCA--TTTTTG
18032727 A
62 A
*
18032728 CCAAAAACACCTTGAATAATCCCCTCTATAAAATTGGAGAG
1 CCAAAAACACCTTCAATAATCCCCTCTATAAAATTGGAGAG
18032769 AATTCAAGGT
Statistics
Matches: 84, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
59 4 0.05
61 19 0.23
62 19 0.23
63 1 0.01
64 34 0.40
65 2 0.02
66 5 0.06
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (62 bp):
CCAAAAACACCTTCAATAATCCCCTCTATAAAATTGGAGAGGAATACTCAAAGCATTTTTGA
Found at i:18034802 original size:18 final size:19
Alignment explanation
Indices: 18034779--18034816 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
18034769 CAATTGATTT
18034779 TTTGG-TCAAAAAGCAAAA
1 TTTGGTTCAAAAAGCAAAA
*
18034797 TTTGGTTTCAAAAAGTAAAA
1 TTTGG-TTCAAAAAGCAAAA
18034817 AAGGATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (19 bp):
TTTGGTTCAAAAAGCAAAA
Found at i:18037453 original size:128 final size:129
Alignment explanation
Indices: 18037204--18037469 Score: 372
Period size: 128 Copynumber: 2.1 Consensus size: 129
18037194 TAAATATACC
* * *
18037204 TTTAAAGATTATTTATTTGAGCTTAAATGAAAGTCCAATTGTTATTTTTAAAGTAAATTTATTCA
1 TTTAAAGATTATTTATTTGAACTTAAATGAAAATCCAATTGTTATTTTTAAAGTAAACTTATTCA
* * * * *
18037269 TCTTGGACTTAATATAATTTTGATAATATTGGTTTTGAGTAATAGATTAAATTAAGAAAGTTAT
66 TCTTGGACTCAATACAATTTTGATAATATTAGTTTTAAGAAATAGATTAAATTAAGAAAGTTAT
* * * *
18037333 TTTAAATATTATTTATTT-AACTTAAATGAAAATTCAATTGTTGTTTTTAAAGTGAACTTATTCA
1 TTTAAAGATTATTTATTTGAACTTAAATGAAAATCCAATTGTTATTTTTAAAGTAAACTTATTCA
* * * *
18037397 TTTTGGACTCAATACAATTTTGATATTATTAGTTTTAAGAAATAGATTAACTTAAGAAAGTTGT
66 TCTTGGACTCAATACAATTTTGATAATATTAGTTTTAAGAAATAGATTAAATTAAGAAAGTTAT
18037461 TTTATAAGA
1 TTTA-AAGA
18037470 ACAAAGTTTT
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
128 99 0.83
129 20 0.17
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (129 bp):
TTTAAAGATTATTTATTTGAACTTAAATGAAAATCCAATTGTTATTTTTAAAGTAAACTTATTCA
TCTTGGACTCAATACAATTTTGATAATATTAGTTTTAAGAAATAGATTAAATTAAGAAAGTTAT
Found at i:18038227 original size:25 final size:26
Alignment explanation
Indices: 18038199--18038250 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
18038189 GAGTTTTTAG
* *
18038199 CTTAAATTCAATATCTT-TTGTATTT
1 CTTAAATTCAAAATATTATTGTATTT
**
18038224 CTTATGTTCAAAATATTATTGTATTT
1 CTTAAATTCAAAATATTATTGTATTT
18038250 C
1 C
18038251 ATTCACCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.54
Consensus pattern (26 bp):
CTTAAATTCAAAATATTATTGTATTT
Found at i:18039634 original size:56 final size:55
Alignment explanation
Indices: 18039573--18039688 Score: 124
Period size: 56 Copynumber: 2.1 Consensus size: 55
18039563 CGTTAGGCTC
* * *
18039573 ATTGGCATAGAGATTTAACATAATAAAAGAATGGTGTACAGAGACACGTTGGGTAT
1 ATTGGCACAGAGATTTAACACAATAAAAGAATGGTGTACAG-GACACGTTGGATAT
* * * ** * * *
18039629 GTTGGCACATATATTTAATGCAATAAGAGAATGGTGTATAGGGCACGTTGGATAT
1 ATTGGCACAGAGATTTAACACAATAAAAGAATGGTGTACAGGACACGTTGGATAT
18039684 ATTGG
1 ATTGG
18039689 TGCAAAACCT
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
55 16 0.33
56 32 0.67
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (55 bp):
ATTGGCACAGAGATTTAACACAATAAAAGAATGGTGTACAGGACACGTTGGATAT
Found at i:18039844 original size:79 final size:79
Alignment explanation
Indices: 18039748--18039948 Score: 219
Period size: 79 Copynumber: 2.5 Consensus size: 79
18039738 TTGTTTGTAG
* * **
18039748 AAAGTAGGG-TCTATGTTAGCCCATATGCCTTTATGCAATAAGAA-AATGATGCACAGAGGCATG
1 AAAGT-GGGATCTATGTTAGCCCATATGCCTTAATGCAATAA-AAGAATAATGCACAGAGGCACA
**
18039811 TTGTG-TGTGTTGGCAA
64 TTG-GACATGTTGGCAA
** * * *
18039827 AAAGTGGGATCTATGTTAGCTAATATGCCTTAACGTAATAAAAGAATAATGCACAGGGGCACATT
1 AAAGTGGGATCTATGTTAGCCCATATGCCTTAATGCAATAAAAGAATAATGCACAGAGGCACATT
* *
18039892 GGACATGTTGGTAG
66 GGACATGTTGGCAA
* *
18039906 AAATTGGGATCTATGTTAGGCCATATGCCTTAATGCAATAAAA
1 AAAGTGGGATCTATGTTAGCCCATATGCCTTAATGCAATAAAA
18039949 TGTGGCACAT
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
78 6 0.06
79 94 0.94
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (79 bp):
AAAGTGGGATCTATGTTAGCCCATATGCCTTAATGCAATAAAAGAATAATGCACAGAGGCACATT
GGACATGTTGGCAA
Found at i:18042270 original size:28 final size:27
Alignment explanation
Indices: 18042224--18042297 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 27
18042214 TTCAAAAAGT
18042224 GCAATCAATTAAAGG-TTTTGTGTTTAGG
1 GCAATCAATT--AGGATTTTGTGTTTAGG
18042252 GCAATCAATTAGGGATTTTGTGTTTAGG
1 GCAATCAATTA-GGATTTTGTGTTTAGG
18042280 GCAATCAATTTAGGATTT
1 GCAATCAA-TTAGGATTT
18042298 AAAATTAAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
26 1 0.02
27 2 0.05
28 37 0.86
29 3 0.07
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.39
Consensus pattern (27 bp):
GCAATCAATTAGGATTTTGTGTTTAGG
Found at i:18043075 original size:3 final size:3
Alignment explanation
Indices: 18043067--18043131 Score: 94
Period size: 3 Copynumber: 21.7 Consensus size: 3
18043057 ATTTAACCCT
* * *
18043067 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAT AAT AAC AAC AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
*
18043115 AAT AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AA
18043132 GAATAATAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.68, C:0.26, G:0.00, T:0.06
Consensus pattern (3 bp):
AAC
Found at i:18043139 original size:3 final size:3
Alignment explanation
Indices: 18043100--18043189 Score: 117
Period size: 3 Copynumber: 30.0 Consensus size: 3
18043090 CAACAACAAC
* * * * * * *
18043100 AAT AAT AAC AAC AAT AAT AAC AAC AAC AAC AAG AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18043148 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18043190 GTAAAAGGCT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.67, C:0.07, G:0.01, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:18064944 original size:31 final size:32
Alignment explanation
Indices: 18064869--18064962 Score: 145
Period size: 31 Copynumber: 2.9 Consensus size: 32
18064859 TGACATCTTC
* *
18064869 AAAAAAATAATCAAATTATGTCCAAACAATAA
1 AAAAAAATAATTAAATTATATCCAAACAATAA
*
18064901 AAAATAAATAATTAAATTATATCCAAATAAT-A
1 AAAA-AAATAATTAAATTATATCCAAACAATAA
18064933 AAAAAAATAATTAAATTATATCCAAACAAT
1 AAAAAAATAATTAAATTATATCCAAACAAT
18064963 GAATAAAAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
31 25 0.44
32 9 0.16
33 23 0.40
ACGTcount: A:0.63, C:0.10, G:0.01, T:0.27
Consensus pattern (32 bp):
AAAAAAATAATTAAATTATATCCAAACAATAA
Found at i:18065188 original size:39 final size:38
Alignment explanation
Indices: 18065130--18065204 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 38
18065120 CCATATTATC
*
18065130 TTGATAAACAAATACACTAAACTAGGAACTTACATGAA
1 TTGATAAACAAATACACTAAACTAGAAACTTACATGAA
18065168 TTGAGTAAACAAATACACTAAACTAGAAACTTACATG
1 TTGA-TAAACAAATACACTAAACTAGAAACTTACATG
18065205 TATAACATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 4 0.11
39 31 0.89
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (38 bp):
TTGATAAACAAATACACTAAACTAGAAACTTACATGAA
Found at i:18069465 original size:5 final size:5
Alignment explanation
Indices: 18069455--18069526 Score: 54
Period size: 5 Copynumber: 13.2 Consensus size: 5
18069445 ATAATTTAAG
* * * *
18069455 ATAAA ATAAA ATAAAA ATCAA ATCAA ATCAAA CTAAA ATCAAA CTAAA
1 ATAAA ATAAA AT-AAA ATAAA ATAAA AT-AAA ATAAA AT-AAA ATAAA
18069503 ATCAAA ATAGAAA ATAAA ATAAA A
1 AT-AAA AT--AAA ATAAA ATAAA A
18069527 AAGAAAAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
5 33 0.60
6 17 0.31
7 5 0.09
ACGTcount: A:0.71, C:0.10, G:0.01, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:18069527 original size:11 final size:11
Alignment explanation
Indices: 18069455--18069526 Score: 69
Period size: 11 Copynumber: 6.5 Consensus size: 11
18069445 ATAATTTAAG
18069455 ATAAAAT-AAA
1 ATAAAATCAAA
18069465 ATAAAAATC-AA
1 AT-AAAATCAAA
*
18069476 ATCAAATCAAA
1 ATAAAATCAAA
*
18069487 CTAAAATCAAA
1 ATAAAATCAAA
*
18069498 CTAAAATCAAA
1 ATAAAATCAAA
18069509 ATAGAAAAT-AAA
1 AT--AAAATCAAA
18069521 ATAAAA
1 ATAAAA
18069527 AAGAAAAGCC
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
10 11 0.21
11 32 0.60
12 5 0.09
13 5 0.09
ACGTcount: A:0.71, C:0.10, G:0.01, T:0.18
Consensus pattern (11 bp):
ATAAAATCAAA
Found at i:18070459 original size:5 final size:5
Alignment explanation
Indices: 18070436--18070508 Score: 62
Period size: 5 Copynumber: 15.0 Consensus size: 5
18070426 TTGACTTAAA
* * * *
18070436 AAAAT -AAAT AGAAT AAAAAT AAAAT AAAAT -AAAT AATAT TAAAT AATAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* *
18070485 -TAAT ATAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
18070509 TTTCTATCTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
4 10 0.19
5 40 0.74
6 4 0.07
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.27
Consensus pattern (5 bp):
AAAAT
Found at i:18070460 original size:16 final size:16
Alignment explanation
Indices: 18070435--18070507 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 16
18070425 TTTGACTTAA
*
18070435 AAAAAT-AAATAGAAT
1 AAAAATAAAATAAAAT
18070450 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
*
18070466 AAATAATATTAAATAATATT
1 AAA-AATA--AAATAA-AAT
18070486 AATATAATAAAATAAAAT
1 AA-A-AATAAAATAAAAT
18070504 AAAA
1 AAAA
18070508 TTTTCTATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
15 6 0.12
16 12 0.24
17 5 0.10
18 4 0.08
19 12 0.24
20 4 0.08
21 6 0.12
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:18071040 original size:66 final size:66
Alignment explanation
Indices: 18070970--18071094 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
18070960 AGACCAAGCC
* * * *
18070970 AAGGTGAAA-AATGAGTGA-CCATGATTAAACCACAGGTTAGAAAAATAAAGCGACCTAGATCGA
1 AAGGT-AAACAATGAATGATCCA-GATTAAACCACAAGTCAAAAAAATAAAGCGACCTAGATCGA
18071033 GCT
64 GCT
* * * *
18071036 AAGGTAAACAATGAATGATCGAGATTCAACCATAAGTCAAAAAAATAAAGTGACCTAGA
1 AAGGTAAACAATGAATGATCCAGATTAAACCACAAGTCAAAAAAATAAAGCGACCTAGA
18071095 CTGAGTAGAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
65 3 0.06
66 44 0.90
67 2 0.04
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (66 bp):
AAGGTAAACAATGAATGATCCAGATTAAACCACAAGTCAAAAAAATAAAGCGACCTAGATCGAGC
T
Found at i:18071619 original size:18 final size:19
Alignment explanation
Indices: 18071528--18071631 Score: 83
Period size: 18 Copynumber: 5.7 Consensus size: 19
18071518 GAAAGAATTC
**
18071528 AGATTCACAAG-GTTTTAA
1 AGATTCACAAGAACTTTAA
* *
18071546 AGATTCGCAAG-ACTTT-T
1 AGATTCACAAGAACTTTAA
* * *
18071563 AGTTTCACAA-AAATCTAA
1 AGATTCACAAGAACTTTAA
* *
18071581 AGATTCGCAAGAAATTTTAA
1 AGATTCACAAG-AACTTTAA
18071601 A-ATTCACAAGAACTTTAA
1 AGATTCACAAGAACTTTAA
18071619 AGATTCACAAGAA
1 AGATTCACAAGAA
18071632 TTCAATTTTG
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 11 0.17
18 29 0.44
19 19 0.29
20 7 0.11
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.29
Consensus pattern (19 bp):
AGATTCACAAGAACTTTAA
Found at i:18071946 original size:44 final size:45
Alignment explanation
Indices: 18071898--18072205 Score: 236
Period size: 45 Copynumber: 6.9 Consensus size: 45
18071888 TCATTTGAAT
* * *
18071898 ATTTTAGAGCTTCAC-CTAAAATTTCAAATATTCTCACTCAAAAA
1 ATTTTAGAGATTCACACTAAAATTTCAAAGATTCTCATTCAAAAA
* *
18071942 ATTTTAG-GATTCACATCT-AAACTTCAAAGATTCTCATTTGAAAAA
1 ATTTTAGAGATTCACA-CTAAAATTTCAAAGATTCTCA-TTCAAAAA
* * ** *
18071987 A-TTT-GGGATTCAAATCCCAAATTTCAAAGATTCTCATTCAAAAT
1 ATTTTAGAGATTCACA-CTAAAATTTCAAAGATTCTCATTCAAAAA
* *
18072031 ATTTTAGAGATTCACATCCAAAATTTCAAAGATTCTTA-TCAAAAA
1 ATTTTAGAGATTCACA-CTAAAATTTCAAAGATTCTCATTCAAAAA
* * * **
18072076 AATTT-GGGGTTCACATCTAAAATTTCAAAGATTCTCATTTGAAAA
1 ATTTTAGAGATTCACA-CTAAAATTTCAAAGATTCTCATTCAAAAA
* * * * * * *
18072121 CTTTTAGAGATTCACATCCAAAGTATCAAAGACTCACGTTCAAAAA
1 ATTTTAGAGATTCACA-CTAAAATTTCAAAGATTCTCATTCAAAAA
* * * * *
18072167 A-ATTAGAGATTCACATTCAAAGTTTCAAAGGTTCACATT
1 ATTTTAGAGATTCACACT-AAAATTTCAAAGATTCTCATT
18072206 TGAGAAGCTC
Statistics
Matches: 212, Mismatches: 42, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
43 7 0.03
44 70 0.33
45 77 0.36
46 58 0.27
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.33
Consensus pattern (45 bp):
ATTTTAGAGATTCACACTAAAATTTCAAAGATTCTCATTCAAAAA
Found at i:18072030 original size:22 final size:22
Alignment explanation
Indices: 18072005--18072074 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 22
18071995 TTCAAATCCC
18072005 AAATTTCAAAGATTCTCATTCAA
1 AAATTTCAAAGATTCTCATTC-A
* * * *
18072028 AATATTTTAGAGATTCACATCCA
1 AA-ATTTCAAAGATTCTCATTCA
*
18072051 AAATTTCAAAGATTCTTA-TCA
1 AAATTTCAAAGATTCTCATTCA
18072072 AAA
1 AAA
18072075 AAATTTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
21 5 0.14
22 12 0.32
23 5 0.14
24 15 0.41
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (22 bp):
AAATTTCAAAGATTCTCATTCA
Found at i:18072075 original size:22 final size:22
Alignment explanation
Indices: 18072005--18072075 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
18071995 TTCAAATCCC
18072005 AAATTTCAAAGATTCTCATTCAA
1 AAATTTCAAAGATTCTCA-TCAA
* * * *
18072028 AATATTTTAGAGATTCACATCCA
1 AA-ATTTCAAAGATTCTCATCAA
*
18072051 AAATTTCAAAGATTCTTATCAA
1 AAATTTCAAAGATTCTCATCAA
18072073 AAA
1 AAA
18072076 AATTTGGGGT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
22 18 0.47
23 7 0.18
24 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (22 bp):
AAATTTCAAAGATTCTCATCAA
Found at i:18072103 original size:90 final size:90
Alignment explanation
Indices: 18071913--18072205 Score: 306
Period size: 90 Copynumber: 3.3 Consensus size: 90
18071903 AGAGCTTCAC
* * * *
18071913 CTAAAATTTCAAATATTCTCACTCAAAAAATTTTAG-GATTCACAT-CTAAACTTCAAAGATTCT
1 CTAAAATTTCAAAGATTCTCATTC-AAAAATTTTAGAGATTCACATCCAAAATTTCAAAGATTCT
**
18071976 CATTTGAAAAAATTTGGGATTCAAAT
65 CATTCAAAAAAATTTGGGATTCAAAT
**
18072002 CCCAAATTTCAAAGATTCTCATTCAAAATATTTTAGAGATTCACATCCAAAATTTCAAAGATTCT
1 CTAAAATTTCAAAGATTCTCATTCAAAA-ATTTTAGAGATTCACATCCAAAATTTCAAAGATTCT
* * *
18072067 TA-TCAAAAAAATTTGGGGTTCACAT
65 CATTCAAAAAAATTTGGGATTCAAAT
* * * * * *
18072092 CTAAAATTTCAAAGATTCTCATTTGAAAACTTTTAGAGATTCACATCCAAAGTATCAAAGACTCA
1 CTAAAATTTCAAAGATTCTCA-TTCAAAAATTTTAGAGATTCACATCCAAAATTTCAAAGATTCT
* * * *
18072157 CGTTCAAAAAAATTAGAGATTCACAT
65 CATTCAAAAAAATTTGGGATTCAAAT
* * *
18072183 -TCAAAGTTTCAAAGGTTCACATT
1 CT-AAAATTTCAAAGATTCTCATT
18072206 TGAGAAGCTC
Statistics
Matches: 171, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
88 4 0.02
89 27 0.16
90 81 0.47
91 59 0.35
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (90 bp):
CTAAAATTTCAAAGATTCTCATTCAAAAATTTTAGAGATTCACATCCAAAATTTCAAAGATTCTC
ATTCAAAAAAATTTGGGATTCAAAT
Found at i:18072108 original size:135 final size:136
Alignment explanation
Indices: 18071895--18072196 Score: 364
Period size: 135 Copynumber: 2.2 Consensus size: 136
18071885 TTTTCATTTG
* * * *
18071895 AATATTTTAGAGCTTCAC--CTAAAATTTCAAATATTCTCACTCAAAAAATTTTAGGATTCACAT
1 AATATTTTAGAGATTCACATCCAAAATTTCAAAGATTCTCACTCAAAAAAATTTAGGATTCACAT
* * * *
18071958 CTAAACTTCAAAGATTCTCATTTGAAAAAATTT-GGGATTCAAATCCCAAA-TTTCAAAGATTCT
66 CTAAACTTCAAAGATTCTCATTTGAAAAAATTTAGAGATTCAAAT-CCAAAGTATCAAAGACTCA
18072021 CATTCAA
130 CATTCAA
* * *
18072028 AATATTTTAGAGATTCACATCCAAAATTTCAAAGATTCTTA-TCAAAAAAATTTGGGGTTCACAT
1 AATATTTTAGAGATTCACATCCAAAATTTCAAAGATTCTCACTCAAAAAAATTTAGGATTCACAT
* ** *
18072092 CTAAAATTTCAAAGATTCTCATTTGAAAACTTTTAGAGATTCACATCCAAAGTATCAAAGACTCA
66 CT-AAACTTCAAAGATTCTCATTTGAAAAAATTTAGAGATTCAAATCCAAAGTATCAAAGACTCA
*
18072157 CGTTCAA
130 CATTCAA
** * *
18072164 AA-AAATTAGAGATTCACATTCAAAGTTTCAAAG
1 AATATTTTAGAGATTCACATCCAAAATTTCAAAG
18072197 GTTCACATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
133 17 0.12
134 22 0.15
135 78 0.54
136 27 0.19
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (136 bp):
AATATTTTAGAGATTCACATCCAAAATTTCAAAGATTCTCACTCAAAAAAATTTAGGATTCACAT
CTAAACTTCAAAGATTCTCATTTGAAAAAATTTAGAGATTCAAATCCAAAGTATCAAAGACTCAC
ATTCAA
Found at i:18077249 original size:19 final size:20
Alignment explanation
Indices: 18077213--18077250 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
18077203 ATACAAAATA
*
18077213 TTTTATTAATAATAAATTTT
1 TTTTATTAAAAATAAATTTT
*
18077233 TTTTA-TAAAAATTAATTT
1 TTTTATTAAAAATAAATTT
18077251 ATAAAATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTATTAAAAATAAATTTT
Found at i:18078093 original size:23 final size:23
Alignment explanation
Indices: 18078067--18078110 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
18078057 CAAAAATTTC
18078067 AAAG-GTCAAAACCTAGAAAACAA
1 AAAGAGTCAAAACCTA-AAAACAA
* *
18078090 AAAGATTCAAACCCTAAAAAC
1 AAAGAGTCAAAACCTAAAAAC
18078111 TCCCTCTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.59, C:0.20, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAGAGTCAAAACCTAAAAACAA
Found at i:18078376 original size:8 final size:8
Alignment explanation
Indices: 18078363--18078391 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18078353 CTTCTTTCCT
18078363 TTTTTATA
1 TTTTTATA
18078371 TTTTTATA
1 TTTTTATA
18078379 TTTTTAT-
1 TTTTTATA
18078386 TTTTTA
1 TTTTTA
18078392 CTTTTTGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:18089632 original size:29 final size:28
Alignment explanation
Indices: 18089587--18089641 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
18089577 TTATCATTCT
**
18089587 ATTTAAATAAATTTTTATATTTTAATTAG
1 ATTTAAATAAACCTTTA-ATTTTAATTAG
18089616 ATTTAAATAAACCTTTAATTTTAATT
1 ATTTAAATAAACCTTTAATTTTAATT
18089642 TACATCTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTAAATAAACCTTTAATTTTAATTAG
Found at i:18089699 original size:30 final size:30
Alignment explanation
Indices: 18089590--18089724 Score: 121
Period size: 30 Copynumber: 4.5 Consensus size: 30
18089580 TCATTCTATT
* *
18089590 TAAATAAATTTTTATATTTTAA-TTAGATT
1 TAAATAAATTTTTATATTTTAATTTATATC
** *
18089619 TAAATAAACCTTTA-ATTTTAATTTACATC
1 TAAATAAATTTTTATATTTTAATTTATATC
* * *** * *
18089648 TGAATAAACTAGAAAACTTTAATTTATATC
1 TAAATAAATTTTTATATTTTAATTTATATC
*
18089678 TAAATAAATTTTTATTTTTTAATTTATATC
1 TAAATAAATTTTTATATTTTAATTTATATC
18089708 TAAATAAACCTTTTTAT
1 TAAATAAA--TTTTTAT
18089725 TTAAAATAAG
Statistics
Matches: 83, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
28 7 0.08
29 26 0.31
30 43 0.52
32 7 0.08
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.49
Consensus pattern (30 bp):
TAAATAAATTTTTATATTTTAATTTATATC
Found at i:18090137 original size:40 final size:39
Alignment explanation
Indices: 18090093--18090171 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
18090083 AGTCAAAGAC
*
18090093 TTAAAATAGTTCCAAAAAAAC-AAAGAATAATAGAAAATGT
1 TTAAAACAGTT-CAAAAAAACAAAAG-ATAATAGAAAATGT
** *
18090133 TTAAAACAGTTTTAAAAAACAAAAGATAATAGATAATGT
1 TTAAAACAGTTCAAAAAAACAAAAGATAATAGAAAATGT
18090172 CACACAGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 20 0.59
40 14 0.41
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.25
Consensus pattern (39 bp):
TTAAAACAGTTCAAAAAAACAAAAGATAATAGAAAATGT
Found at i:18092903 original size:28 final size:28
Alignment explanation
Indices: 18092867--18092922 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
18092857 CGAGCCCATC
* *
18092867 TATTGCTAATCTATCTCTTGCCCCTATA
1 TATTACTAATCTATCTCTGGCCCCTATA
*
18092895 TATTACTAATCTATCTGTGGCCCCTATA
1 TATTACTAATCTATCTCTGGCCCCTATA
18092923 GGAGAGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (28 bp):
TATTACTAATCTATCTCTGGCCCCTATA
Found at i:18100233 original size:49 final size:49
Alignment explanation
Indices: 18100146--18100325 Score: 168
Period size: 49 Copynumber: 3.6 Consensus size: 49
18100136 TTAAAGGAGT
* *
18100146 TTTCCAAAAATGAAATGTTTTTAAAGTTTCAAAACCTCTATATAGA-GAAAC
1 TTTCCAAAAATGAGA--TTTTTAAAGTTTCAAAGCCTCTATATAGATG-AAC
* * * *
18100197 TTTCCAAAAATGAGATTTTTAAAATTTTAAAGCCTCTATTTAGATGAGC
1 TTTCCAAAAATGAGATTTTTAAAGTTTCAAAGCCTCTATATAGATGAAC
* ** * * *
18100246 TTTTCAATTATAAGATTTTTAAAGTTTCAAAGCCTCTATTTAG-TAGAGC
1 TTTCCAAAAATGAGATTTTTAAAGTTTCAAAGCCTCTATATAGAT-GAAC
* *
18100295 TTTTC-AAAGTGAAGATTTTTAAAGTTTCAAA
1 TTTCCAAAAATG-AGATTTTTAAAGTTTCAAA
18100326 ACTCTTGTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
48 3 0.03
49 92 0.84
50 1 0.01
51 14 0.13
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (49 bp):
TTTCCAAAAATGAGATTTTTAAAGTTTCAAAGCCTCTATATAGATGAAC
Found at i:18102584 original size:12 final size:12
Alignment explanation
Indices: 18102567--18102591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18102557 TTCAAACTTT
18102567 CAAACCCTAAAC
1 CAAACCCTAAAC
18102579 CAAACCCTAAAC
1 CAAACCCTAAAC
18102591 C
1 C
18102592 CTAACCAAAT
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:0.48, C:0.44, G:0.00, T:0.08
Consensus pattern (12 bp):
CAAACCCTAAAC
Found at i:18102859 original size:6 final size:6
Alignment explanation
Indices: 18102840--18102905 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
18102830 AAAAAAGATG
* * ** *
18102840 TTAATT TTTA-T TTAATT TTATTT TTAATT TTAATT TGGATT ATGATATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT -TTA-ATT
*
18102889 TTAATT TTAGTT TTAAT
1 TTAATT TTAATT TTAAT
18102906 ATTGTGGTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
5 4 0.09
6 36 0.77
7 4 0.09
8 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (6 bp):
TTAATT
Found at i:18110687 original size:17 final size:18
Alignment explanation
Indices: 18110651--18110688 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18110641 TTTTTGGAAT
*
18110651 TTTTGTTTAGGTTTTAGG
1 TTTTGTTTAGATTTTAGG
*
18110669 TTTTGTTT-GATTTTCGG
1 TTTTGTTTAGATTTTAGG
18110686 TTT
1 TTT
18110689 AATATTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.08, C:0.03, G:0.24, T:0.66
Consensus pattern (18 bp):
TTTTGTTTAGATTTTAGG
Found at i:18111152 original size:6 final size:7
Alignment explanation
Indices: 18111135--18111159 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18111125 TCGTAGTACT
18111135 TTTTTTC
1 TTTTTTC
18111142 TTTTTTC
1 TTTTTTC
18111149 TTTTTTC
1 TTTTTTC
18111156 TTTT
1 TTTT
18111160 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:18113441 original size:19 final size:19
Alignment explanation
Indices: 18113419--18113479 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
18113409 TTCCAAAGCC
18113419 TAAACCACCCTACAAACCA
1 TAAACCACCCTACAAACCA
* *
18113438 TAAACCA-TCTATCAAACCC
1 TAAACCACCCTA-CAAACCA
* * *
18113457 TAAACCACCATCCAAACCT
1 TAAACCACCCTACAAACCA
18113476 TAAA
1 TAAA
18113480 TCACTATCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 3 0.09
19 30 0.88
20 1 0.03
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAACCACCCTACAAACCA
Found at i:18113473 original size:38 final size:38
Alignment explanation
Indices: 18113410--18113497 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
18113400 AATTCCAAAT
* *
18113410 TCCAAAGCCTAAACCACCCTACAAACCATAAACCATCTA
1 TCCAAACCCTAAACCACCATACAAACCATAAACCA-CTA
* * *
18113449 T-CAAACCCTAAACCACCATCCAAACCTTAAATCACTA
1 TCCAAACCCTAAACCACCATACAAACCATAAACCACTA
18113486 TCCAAACCCTAA
1 TCCAAACCCTAA
18113498 CCTTGATCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 4 0.09
38 38 0.88
39 1 0.02
ACGTcount: A:0.43, C:0.39, G:0.01, T:0.17
Consensus pattern (38 bp):
TCCAAACCCTAAACCACCATACAAACCATAAACCACTA
Found at i:18113488 original size:19 final size:19
Alignment explanation
Indices: 18113431--18113493 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
18113421 AACCACCCTA
18113431 CAAACCATAAACCATCTAT-
1 CAAACCATAAACCA-CTATC
* *
18113450 CAAACCCTAAACCACCATC
1 CAAACCATAAACCACTATC
* *
18113469 CAAACCTTAAATCACTATC
1 CAAACCATAAACCACTATC
18113488 CAAACC
1 CAAACC
18113494 CTAACCTTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
18 3 0.08
19 35 0.92
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.17
Consensus pattern (19 bp):
CAAACCATAAACCACTATC
Found at i:18113545 original size:17 final size:18
Alignment explanation
Indices: 18113519--18113552 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18113509 AACCAACCTT
18113519 AACCCTAAACCCCAAACC
1 AACCCTAAACCCCAAACC
*
18113537 AACCC-AAACCTCAAAC
1 AACCCTAAACCCCAAAC
18113553 TACAAACTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (18 bp):
AACCCTAAACCCCAAACC
Found at i:18114532 original size:20 final size:20
Alignment explanation
Indices: 18114507--18114578 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
18114497 TATAGTTTAG
18114507 TTGCATGATTATTTATTTGT
1 TTGCATGATTATTTATTTGT
* * *
18114527 TTGCATGATTAATAATTTAT
1 TTGCATGATTATTTATTTGT
*
18114547 TTGTATGATTGATACTT-TTTG-
1 TTGCATGATT-AT--TTATTTGT
18114568 TTGCATGATTA
1 TTGCATGATTA
18114579 ATATTATTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
20 27 0.66
21 10 0.24
22 3 0.07
23 1 0.02
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (20 bp):
TTGCATGATTATTTATTTGT
Found at i:18114654 original size:24 final size:25
Alignment explanation
Indices: 18114627--18114680 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
18114617 TTTCTATTGC
*
18114627 ATGATAAT-ATTGCATGGTTTAATT
1 ATGATAATGATTGCATGATTTAATT
*
18114651 ATGAT-ATGATTGCATGATTTGATT
1 ATGATAATGATTGCATGATTTAATT
18114675 ATGATA
1 ATGATA
18114681 TTCTTGATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (25 bp):
ATGATAATGATTGCATGATTTAATT
Found at i:18116149 original size:19 final size:19
Alignment explanation
Indices: 18116125--18116210 Score: 104
Period size: 19 Copynumber: 4.5 Consensus size: 19
18116115 TTTCAAATTC
18116125 CAAACCCTAAACCA-CCAT
1 CAAACCCTAAACCACCCAT
* *
18116143 ACAAACCATAAACCATCCAT
1 -CAAACCCTAAACCACCCAT
*
18116163 GAAACCCTAAACCACCCAT
1 CAAACCCTAAACCACCCAT
*
18116182 GAAACCCTAAACCA-CCAT
1 CAAACCCTAAACCACCCAT
18116200 CCAAACCCTAA
1 -CAAACCCTAA
18116211 CCTTGACCCC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
18 4 0.07
19 52 0.87
20 4 0.07
ACGTcount: A:0.45, C:0.41, G:0.02, T:0.12
Consensus pattern (19 bp):
CAAACCCTAAACCACCCAT
Found at i:18116168 original size:38 final size:38
Alignment explanation
Indices: 18116123--18116210 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 38
18116113 AATTTCAAAT
18116123 TCCAAACCCTAAACCA-CCATACAAACCATAAACCATCCA
1 TCCAAACCCTAAACCACCCAT-CAAACCATAAACCA-CCA
* * *
18116162 T-GAAACCCTAAACCACCCATGAAACCCTAAACCACCA
1 TCCAAACCCTAAACCACCCATCAAACCATAAACCACCA
18116199 TCCAAACCCTAA
1 TCCAAACCCTAA
18116211 CCTTGACCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
37 4 0.09
38 34 0.79
39 5 0.12
ACGTcount: A:0.44, C:0.41, G:0.02, T:0.12
Consensus pattern (38 bp):
TCCAAACCCTAAACCACCCATCAAACCATAAACCACCA
Found at i:18117271 original size:20 final size:19
Alignment explanation
Indices: 18117234--18117308 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
18117224 TATAGTTTAG
* *
18117234 TTGCATGATTATTTATTTGT
1 TTGCATGATTAATAATTT-T
18117254 TTGCATGATTAATAATTTAT
1 TTGCATGATTAATAATTT-T
** * *
18117274 TTATATGATTGATACTTTT
1 TTGCATGATTAATAATTTT
18117293 CGTTGCATGATTAATA
1 --TTGCATGATTAATA
18117309 TTATTGCATG
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
19 1 0.02
20 31 0.72
21 11 0.26
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.52
Consensus pattern (19 bp):
TTGCATGATTAATAATTTT
Found at i:18117389 original size:24 final size:23
Alignment explanation
Indices: 18117354--18117408 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
18117344 TTTTTATTAC
**
18117354 ATGATAATATTGCATTGTTTAATT
1 ATGAT-ATATTGCATAATTTAATT
* *
18117378 ATGATATGATTGTATAATTTGATT
1 ATGATAT-ATTGCATAATTTAATT
18117402 ATGATAT
1 ATGATAT
18117409 TCTTGATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.49
Consensus pattern (23 bp):
ATGATATATTGCATAATTTAATT
Found at i:18117395 original size:19 final size:19
Alignment explanation
Indices: 18117367--18117406 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18117357 ATAATATTGC
*
18117367 ATTGTTTAATTATGA-TATG
1 ATTGTATAATT-TGATTATG
18117386 ATTGTATAATTTGATTATG
1 ATTGTATAATTTGATTATG
18117405 AT
1 AT
18117407 ATTCTTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (19 bp):
ATTGTATAATTTGATTATG
Found at i:18120835 original size:160 final size:160
Alignment explanation
Indices: 18120320--18121626 Score: 985
Period size: 160 Copynumber: 8.2 Consensus size: 160
18120310 CTTTTGACGT
** ** * *
18120320 CACAAAGA-GTCATAAACAAACATAAACGGTAACTTTTTCACACATATCAATCACGAAAATCAAG
1 CACAAA-ATGTCATAAACAAACATAAACGACAACTTTTTCACACATATCAATCGTGGAAACCAAG
* * * * * * * * *
18120384 TTTAATAACTCGGGCAAGTTTAATGTCATGAATTTAAGTTATCTAAACTATTAAAATAG-AATAT
65 TTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACAGAAATAT
* * **
18120448 AACTATAAAATTACATTTTGGCCTTTAATAA
130 AACTGTAAAATTACATTTTGTCCTTTAATGG
* * * * * * * *
18120479 CAAAAAATGTCCTAAATAAACATAAACGACAACTTTTTCTCATATATCAACCATGGATACCAAGT
1 CACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACATATCAATCGTGGAAACCAAGT
* * * * *
18120544 TC-ATCATTCGGACAAGTTTAATGTCATATATTGATAAGCTATTTAAACTATTAAAACAAAAATA
66 TCAATCATTTGGACAAGTTTAATATCATGTATT--TAAGCTATCTAAACTATTAAAACAGAAATA
* * * ** * *
18120608 TAACTATAAGATTATACTTTTACCCTTTAGTGA
129 TAACTGTAAAATTACA-TTTTGTCCTTTAATGG
* * * * * * *
18120641 CGCAAAATATCCTTAACAAACATAAATGACAACTTTTTCACACATATCAATCGTAGAAACCAAGG
1 CACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACATATCAATCGTGGAAACCAAGT
* * *
18120706 TC-ATTATTTGGACAAGTTTAATATCATGTATTTAAGCTATGTAAACTATTAAAATAGAAATATA
66 TCAATCATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACAGAAATATA
* *
18120770 ACTGTAAAATTATATTATTGTCTTTTAATGG
131 ACTGTAAAATTACATT-TTGTCCTTTAATGG
* * * * *
18120801 CACAAAGTGTCATAAACAAATATAAACAACAACTTTTTCACACACATCAA-CTGTGGAAGCCAA-
1 CACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACATATCAATC-GTGGAAACCAAG
** * * * * *
18120864 TTTTATCATTCGAATAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAACATAAATAT
65 TTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACAGAAATAT
* *
18120929 AA-TGACAAAATTACATTTTTTCCCTTTAATGG
130 AACTG-TAAAATTACATTTTGT-CCTTTAATGG
* * * * * * * *
18120961 CACAAAATGTCCTAAATAGGA-ATAAATGATAACTTTTTCACACTTATGAATCGTGAAAACCAAG
1 CACAAAATGTCATAAACA-AACATAAACGACAACTTTTTCACACATATCAATCGTGGAAACCAAG
* * * * * *
18121025 CTCAATCATTTGGATAAATTTAATATCATGTATTTAAACTATCTAAACTGTTAAAACAAAAATAT
65 TTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACAGAAATAT
** * * *
18121090 AGTTGCAAAATTATATTTTTGCCCTTTAATGG
130 AACTGTAAAATTACA-TTTTGTCCTTTAATGG
* * * * * ** *
18121122 CATAAAATGTCCA-AAACAAACATAAATGACAACTTTTTCACACCTATTAAT-ATGGAAAAGAAC
1 CACAAAATGT-CATAAACAAACATAAACGACAACTTTTTCACACATATCAATCGTGGAAACCAAG
* * * * *
18121185 ATCAATCATTTAGACAAGTTTAATATCATCTATTTAAGCTATCTAAACTATTAAAGCAAAAATAT
65 TTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACAGAAATAT
* **
18121250 AACTGTAAAATTACATTTT-TACCCTTAACAG
130 AACTGTAAAATTACATTTTGT-CCTTTAATGG
* *** * * * * * **
18121281 CACAAAATGTCCTAGTTAAACATAAATGGCAGC-TTTCCACACATATCAA-C-TACGAAAAAGAA
1 CACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACATATCAATCGT--GGAAACCAA
** * * * * * * **
18121343 CATCAATAATTTAGACAAGTTTAACATCATGTATTGAAGCTATCCAAACTCTTAAATTAGAACA-
64 GTTCAATCATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACAGAA-AT
* * * * * *
18121407 GTAATTGTAAACTTGCATTTCTATCTTTTAATGG
128 ATAACTGTAAAATTACATTT-TGTCCTTTAATGG
* * * * * * * * *
18121441 CACAAAAAGTCATAAATAGATATAAACCACAACTTTTTGACACATATCAACCTTGGAAACCAAAT
1 CACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACATATCAATCGTGGAAACCAAGT
* * * * * *
18121506 TCAATCATTTGAACAAGTTTATTGTCATATATTGAAGCTATCTAAACTATTAAAATAG-AATAAT
66 TCAATCATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACAGAAAT-AT
* * * *
18121570 AACAGCAAATTTGCATTTTG-CCTTTTAATGG
130 AACTGTAAAATTACATTTTGTCC-TTTAATGG
** *
18121601 C-CAAAAAATCCTAAACAAACATAAAC
1 CACAAAATGTCATAAACAAACATAAAC
18121627 TATAAGTTTC
Statistics
Matches: 918, Mismatches: 199, Indels: 62
0.78 0.17 0.05
Matches are distributed among these distances:
157 1 0.00
158 40 0.04
159 195 0.21
160 360 0.39
161 221 0.24
162 100 0.11
163 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.32
Consensus pattern (160 bp):
CACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACATATCAATCGTGGAAACCAAGT
TCAATCATTTGGACAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACAGAAATATA
ACTGTAAAATTACATTTTGTCCTTTAATGG
Found at i:18120921 original size:320 final size:320
Alignment explanation
Indices: 18120350--18121560 Score: 1121
Period size: 321 Copynumber: 3.8 Consensus size: 320
18120340 CATAAACGGT
* * * * * * *
18120350 AACTTTTTCACACATATCAATC--ACGAAAATCAAGTTTAATAACTCGGGCAAGTTTAATGTCAT
1 AACTTTTTCACACATATCAATCGTA-GAAAACCAAGATCAATAATTTGGACAAGTTTAATATCAT
* * * *
18120413 GAATTTAAGTTATCTAAACTATTAAAATAG-AATATAACTATAAAATTACATTTTGGCCTTTAAT
65 GTATTTAAGCTATCTAAACTATTAAAATAGAAATATAACTGTAAAATTACATTTTGTCCTTTAAT
** * * * * * * * *
18120477 AACAAAAAATGTCCTAAATAAACATAAACGACAACTTTTTCTCATATATCAACCATGGATACCAA
130 GGCACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACACATCAACTATGGAAACCAA
* * *
18120542 GTTC-ATCATTCGGACAAGTTTAATGTCATATATTGATAAGCTATTTAAACTATTAAAACAAAAA
195 -TTCAATCATTCGAACAAGTTTAATATCATATATT--TAAGCTATCTAAACTATTAAAACAAAAA
* * * * * * *
18120606 TATAACTATAAGATTATACTTTTACCCTTTAGTGACGCAAAATATCCTTAACAAACATAAATGAC
257 TATAACTATAAAATTACATTTTTACCCTTTAATG-CACAAAATGTCCTTAATAAACATAAATGAC
* *
18120671 AACTTTTTCACACATATCAATCGTAG-AAACCAAGGTC-ATTATTTGGACAAGTTTAATATCATG
1 AACTTTTTCACACATATCAATCGTAGAAAACCAAGATCAATAATTTGGACAAGTTTAATATCATG
* * *
18120734 TATTTAAGCTATGTAAACTATTAAAATAGAAATATAACTGTAAAATTATATTATTGTCTTTTAAT
66 TATTTAAGCTATCTAAACTATTAAAATAGAAATATAACTGTAAAATTACATT-TTGTCCTTTAAT
* * * * *
18120799 GGCACAAAGTGTCATAAACAAATATAAACAACAACTTTTTCACACACATCAACTGTGGAAGCCAA
130 GGCACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACACATCAACTATGGAAACCAA
** * * * *
18120864 TTTTATCATTCGAATAAGTTTAATATCATGTATTTAAGCTATCTAAACTGTTAAAACATAAATAT
195 TTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTATCTAAACTATTAAAACAAAAATAT
* * * * *
18120929 AA-TGACAAAATTACATTTTTTCCCTTTAATGGCACAAAATGTCCTAAATAGGA-ATAAATGAT
260 AACT-ATAAAATTACATTTTTACCCTTTAAT-GCACAAAATGTCCTTAATA-AACATAAATGAC
* * * * * *
18120991 AACTTTTTCACACTTATGAATCGT-GAAAACCAAGCTCAATCATTTGGATAAATTTAATATCATG
1 AACTTTTTCACACATATCAATCGTAGAAAACCAAGATCAATAATTTGGACAAGTTTAATATCATG
* * * * ** * * *
18121055 TATTTAAACTATCTAAACTGTTAAAACAAAAATATAGTTGCAAAATTATATTTTTGCCCTTTAAT
66 TATTTAAGCTATCTAAACTATTAAAATAGAAATATAACTGTAAAATTACA-TTTTGTCCTTTAAT
* * * **
18121120 GGCATAAAATGTCCA-AAACAAACATAAATGACAACTTTTTCACAC-CTATTAA-TATGGAAAAG
130 GGCACAAAATGT-CATAAACAAACATAAACGACAACTTTTTCACACAC-ATCAACTATGGAAACC
* * * *
18121182 AACATCAATCATT-TAGACAAGTTTAATATCATCTATTTAAGCTATCTAAACTATTAAAGCAAAA
193 AA-TTCAATCATTCGA-ACAAGTTTAATATCATATATTTAAGCTATCTAAACTATTAAAACAAAA
* * *
18121246 ATATAACTGTAAAATTACATTTTTACCC-TTAACAGCACAAAATGTCC-TAGTTAAACATAAATG
256 ATATAACTATAAAATTACATTTTTACCCTTTAA-TGCACAAAATGTCCTTA-ATAAACATAAATG
*
18121309 GC
319 AC
* * ** * * *
18121311 AGC-TTTCCACACATATCAA-C-TACGAAAAAGAACATCAATAATTTAGACAAGTTTAACATCAT
1 AACTTTTTCACACATATCAATCGTA-GAAAACCAAGATCAATAATTTGGACAAGTTTAATATCAT
* * * * * * * * * *
18121373 GTATTGAAGCTATCCAAACTCTTAAATTAGAACA-GTAATTGTAAACTTGCATTTCTATCTTTTA
65 GTATTTAAGCTATCTAAACTATTAAAATAGAA-ATATAACTGTAAAATTACATTT-TGTCCTTTA
* * * * * * *
18121437 ATGGCACAAAAAGTCATAAATAGATATAAACCACAACTTTTTGACACATATCAACCT-TGGAAAC
128 ATGGCACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACACATCAA-CTATGGAAAC
* * * *
18121501 CAAATTCAATCATTTGAACAAGTTTATTGTCATATATTGAAGCTATCTAAACTATTAAAA
192 C-AATTCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTATCTAAACTATTAAAA
18121561 TAGAATAATA
Statistics
Matches: 719, Mismatches: 142, Indels: 59
0.78 0.15 0.06
Matches are distributed among these distances:
317 1 0.00
318 6 0.01
319 129 0.18
320 243 0.34
321 247 0.34
322 92 0.13
323 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (320 bp):
AACTTTTTCACACATATCAATCGTAGAAAACCAAGATCAATAATTTGGACAAGTTTAATATCATG
TATTTAAGCTATCTAAACTATTAAAATAGAAATATAACTGTAAAATTACATTTTGTCCTTTAATG
GCACAAAATGTCATAAACAAACATAAACGACAACTTTTTCACACACATCAACTATGGAAACCAAT
TCAATCATTCGAACAAGTTTAATATCATATATTTAAGCTATCTAAACTATTAAAACAAAAATATA
ACTATAAAATTACATTTTTACCCTTTAATGCACAAAATGTCCTTAATAAACATAAATGAC
Found at i:18133484 original size:9 final size:9
Alignment explanation
Indices: 18133470--18133494 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18133460 AAAAAGCAAT
18133470 CAACACCAC
1 CAACACCAC
18133479 CAACACCAC
1 CAACACCAC
18133488 CAACACC
1 CAACACC
18133495 TACTCCTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (9 bp):
CAACACCAC
Found at i:18142047 original size:19 final size:19
Alignment explanation
Indices: 18142025--18142085 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
18142015 TTCCAAAGCC
18142025 TAAACCACCCTACAAACCA
1 TAAACCACCCTACAAACCA
* *
18142044 TAAACCA-TCTATCAAACCC
1 TAAACCACCCTA-CAAACCA
* * *
18142063 TAAACCACCATCCAAACCT
1 TAAACCACCCTACAAACCA
18142082 TAAA
1 TAAA
18142086 TCACTATCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 3 0.09
19 30 0.88
20 1 0.03
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAACCACCCTACAAACCA
Found at i:18142079 original size:38 final size:38
Alignment explanation
Indices: 18142016--18142103 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
18142006 AATTCCAAAT
*
18142016 TCCAAAGCCTAAACCACCCTACAAACCATAAACCATCTA
1 TCCAAAGCCTAAACCACCATACAAACCATAAACCA-CTA
* * * *
18142055 T-CAAACCCTAAACCACCATCCAAACCTTAAATCACTA
1 TCCAAAGCCTAAACCACCATACAAACCATAAACCACTA
18142092 TCCAAAGCCTAA
1 TCCAAAGCCTAA
18142104 CCTTGATCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
37 4 0.10
38 37 0.88
39 1 0.02
ACGTcount: A:0.43, C:0.38, G:0.02, T:0.17
Consensus pattern (38 bp):
TCCAAAGCCTAAACCACCATACAAACCATAAACCACTA
Found at i:18142094 original size:19 final size:19
Alignment explanation
Indices: 18142037--18142097 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
18142027 AACCACCCTA
18142037 CAAACCATAAACCATCTAT-
1 CAAACCATAAACCA-CTATC
* *
18142056 CAAACCCTAAACCACCATC
1 CAAACCATAAACCACTATC
* *
18142075 CAAACCTTAAATCACTATC
1 CAAACCATAAACCACTATC
18142094 CAAA
1 CAAA
18142098 GCCTAACCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
18 3 0.08
19 33 0.92
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (19 bp):
CAAACCATAAACCACTATC
Found at i:18143143 original size:20 final size:20
Alignment explanation
Indices: 18143118--18143185 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
18143108 GTTTAGTTGT
18143118 ATGATTATTTATTTGTTTGC
1 ATGATTATTTATTTGTTTGC
* * * *
18143138 ATGATTAATAATTTATTTGT
1 ATGATTATTTATTTGTTTGC
18143158 ATGATTGATACTT-TTTG-TTGC
1 ATGATT-AT--TTATTTGTTTGC
18143179 ATGATTA
1 ATGATTA
18143186 ATATTATTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
20 23 0.62
21 10 0.27
22 3 0.08
23 1 0.03
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.54
Consensus pattern (20 bp):
ATGATTATTTATTTGTTTGC
Found at i:18143184 original size:41 final size:40
Alignment explanation
Indices: 18143109--18143188 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 40
18143099 AATTTTATAG
18143109 TTTAGTTGTATGATTATTTATTTGTTTGCATGATTAATAA
1 TTTAGTTGTATGATTATTTATTTGTTTGCATGATTAATAA
*
18143149 TTTATTTGTATGATTGATACTT-TTTG-TTGCATGATTAATA
1 TTTAGTTGTATGATT-AT--TTATTTGTTTGCATGATTAATA
18143189 TTATTGAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
40 14 0.39
41 16 0.44
42 4 0.11
43 2 0.06
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (40 bp):
TTTAGTTGTATGATTATTTATTTGTTTGCATGATTAATAA
Done.