Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 115 of 126
Found at i:22736199 original size:59 final size:56
Alignment explanation
Indices: 22736026--22736409 Score: 174
Period size: 56 Copynumber: 6.7 Consensus size: 56
22736016 TATTATTCAT
* * * * *
22736026 TAAT-ATATTATATCATATTAATAATATATTAATAAATACTATTTATT-ATATAAATAA
1 TAATAATATTA-ATAATATT-ATAATATATTATTAAATA-TAATAATTAATATATATAA
* * * * * *
22736083 T-ATTACATTAATAAATAATGTATTATATTATCAATATAATATATGATATTAATATATATAA
1 TAATAATATTAAT-AATATTATAATATATTATTAA-AT-ATA-AT-A-ATTAATATATATAA
* *
22736144 TATTAGT-TTAA-ATATATATATTATATATATATATTAAATATAATAATTAATATATATAA
1 TAATAATATTAATA-ATAT-TA-TA-ATATAT-TATTAAATATAATAATTAATATATATAA
* *
22736203 TAATAATATTAATAATATTATAATATATTATTAATTATAAT-A-TATATATTATATTA
1 TAATAATATTAATAATATTATAATATATTATTAAATATAATAATTA-ATA-TATATAA
* * * *
22736259 TATTAATATTAAT-ATACTGATAA-ATATTATT--AT-TAACAA-T-ATTTAT-TAA
1 TAATAATATTAATAATA-TTATAATATATTATTAAATATAATAATTAATATATATAA
* *
22736308 TATATAATAATTAATAATA-TATATTATTTTTATTAATATAATAATATTTATTAATATAT-TAA
1 TA-ATAAT-ATTAATAATATTATAATA-TATTATTAA-AT-ATAATA---ATTAATATATATAA
* * *
22736370 TAAATAATACTATATTAATA-AATAATATATTAATAAATAT
1 T-AATAATA-T-TAATAATATTATAATATATTATTAAATAT
22736410 TATTATATTA
Statistics
Matches: 250, Mismatches: 39, Indels: 73
0.69 0.11 0.20
Matches are distributed among these distances:
49 4 0.02
50 10 0.04
51 9 0.04
52 12 0.05
53 3 0.01
54 2 0.01
55 17 0.07
56 50 0.20
57 24 0.10
58 4 0.02
59 22 0.09
60 18 0.07
61 22 0.09
62 28 0.11
63 20 0.08
64 5 0.02
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (56 bp):
TAATAATATTAATAATATTATAATATATTATTAAATATAATAATTAATATATATAA
Found at i:22736208 original size:108 final size:104
Alignment explanation
Indices: 22735977--22736425 Score: 279
Period size: 106 Copynumber: 4.3 Consensus size: 104
22735967 AATAAACAAT
*
22735977 ATATTA-ATTAATATTAATATATT-TATTATTAATATAATATATTATTCATTAATATAT-T-ATA
1 ATATTACATTAATAATAAT-TATTATATTA-TAATATAATATA-TA-T-ATTAATATATATAATA
* * *
22736038 TCATATTAATAATATATTAATAAATACTATTTATTATATAAATA
61 TTATATTAATAATATATTAATAAATACTATTAAATATATAAATA
22736082 ATATTACATTAATAAATAATGTATTATATTATCAATATAATATATGATATTAATATATATAATAT
1 ATATTACATTAAT-AATAAT-TATTATATTAT-AATATAATATAT-ATATTAATATATATAATAT
* *
22736147 TAGT-TTAAATATATATATTATATATATA-TATTAAATATAATAATTA
62 TA-TATT-AATA-ATATATTA-ATAAATACTATTAAATAT-ATAAATA
* * *
22736193 ATA-TATA-TAATAATAA-TATTA-ATAATATTATAATATAT-TATTAATTATAATATATATATT
1 ATATTACATTAATAATAATTATTATATTATAATATAATATATATATTAA-TAT-ATATA-ATATT
* *
22736253 ATATT-ATATTAATATTAAT--ATACTGA-TAAATATTATTATTAACA
63 ATATTAATAAT-ATATTAATAAATACT-ATTAAATA-TA-TA--AATA
* * * * * *
22736297 ATATT-TATTAATATATAATAATTA-ATAAT-ATATATTATTTTTATTAATATA-ATAATATT-T
1 ATATTACATTAATA-ATAATTATTATATTATAATATAATATATATATTAATATATATAATATTAT
* * *
22736357 A-T--TAATATATTAATAAATAATACTATAT-TAATAAATA
65 ATTAATAATATATTAATAAATACTATTAAATAT-ATAAATA
22736394 ATA-T--ATTAATAA-ATATTATTATATTATTAATA
1 ATATTACATTAATAATA-ATTATTATATTA-TAATA
22736426 AAAAAATAGA
Statistics
Matches: 285, Mismatches: 23, Indels: 80
0.73 0.06 0.21
Matches are distributed among these distances:
93 1 0.00
94 7 0.02
95 10 0.04
96 2 0.01
97 9 0.03
99 11 0.04
100 8 0.03
101 17 0.06
102 15 0.05
103 17 0.06
104 27 0.09
105 25 0.09
106 36 0.13
107 28 0.10
108 29 0.10
109 9 0.03
110 19 0.07
111 15 0.05
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (104 bp):
ATATTACATTAATAATAATTATTATATTATAATATAATATATATATTAATATATATAATATTATA
TTAATAATATATTAATAAATACTATTAAATATATAAATA
Found at i:22736393 original size:15 final size:15
Alignment explanation
Indices: 22735928--22736408 Score: 125
Period size: 15 Copynumber: 29.9 Consensus size: 15
22735918 ATACAATTAT
22735928 TATATTAATAAAATAA
1 TATATTAAT-AAATAA
* * *
22735944 TATTTTTATTATATAA
1 TA-TATTAATAAATAA
*
22735960 TTATATTAATAAACAA
1 -TATATTAATAAATAA
22735976 TATATTAATTAATATTAA
1 TATATTAA-TAA-A-TAA
22735994 TATATTTATTATTAATATAA
1 TATA-TTA--A-TAA-ATAA
*
22736014 TATATTATTCATTAATATAT
1 TATATTA---A-TAA-ATAA
* *
22736034 TATATCATATTAATAA
1 TATATTA-ATAAATAA
22736050 TATATTAATAAATACTA
1 TATATTAATAAATA--A
*
22736067 TTTATTATATAAATAA
1 TATATTA-ATAAATAA
22736083 TATTACATTAATAAATAA
1 TA-T--ATTAATAAATAA
* * *
22736101 TGTATT-ATATTATCA
1 TATATTAATA-AATAA
22736116 -ATA-TAAT--AT-A
1 TATATTAATAAATAA
22736126 TGATATTAATATATATAA
1 T-ATATTAATA-A-ATAA
22736144 TATTAGTT--TAAATATA
1 TA-TA-TTAATAAATA-A
*
22736160 TATATTATATATATATAT
1 TATATTA-ATA-A-ATAA
* *
22736178 TAAATATAATAATTAA
1 TATAT-TAATAAATAA
22736194 TATATATAAT-AATAA
1 TATAT-TAATAAATAA
* *
22736209 TATTAATAATATTATAA
1 TA-TATTAATA-AATAA
*
22736226 TATATTATTAATTATAA
1 TATATTAATAA--ATAA
* *
22736243 TATA-T-ATATTATAT
1 TATATTAATA-AATAA
*
22736257 TATATTAAT-ATTAA
1 TATATTAATAAATAA
* * *
22736271 TATACTGATAAATAT
1 TATATTAATAAATAA
*
22736286 TATTATTAA-CAAT-A
1 TA-TATTAATAAATAA
* *
22736300 TTTATTAATATATAA
1 TATATTAATAAATAA
22736315 TA-ATTAATAATATATA
1 TATATTAATAA-ATA-A
* *
22736331 TTATTTTTATTAATATAA
1 -TA-TATTAATAA-ATAA
*
22736349 TAATATT--T-ATTAA
1 T-ATATTAATAAATAA
22736362 TATATTAATAAATAATA
1 TATATTAATAAAT-A-A
22736379 CTATATTAATAAATAA
1 -TATATTAATAAATAA
22736395 TATATTAATAAATA
1 TATATTAATAAATA
22736409 TTATTATATT
Statistics
Matches: 350, Mismatches: 57, Indels: 117
0.67 0.11 0.22
Matches are distributed among these distances:
10 1 0.00
11 2 0.01
12 8 0.02
13 15 0.04
14 37 0.11
15 68 0.19
16 63 0.18
17 49 0.14
18 50 0.14
19 27 0.08
20 23 0.07
21 7 0.02
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (15 bp):
TATATTAATAAATAA
Found at i:22736574 original size:5 final size:5
Alignment explanation
Indices: 22736533--22736562 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
22736523 TAATAAATTG
22736533 AAAAT AAAAT AAAAT AAAAT AAATAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAA
22736563 CATATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:22738908 original size:16 final size:15
Alignment explanation
Indices: 22738887--22738941 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
22738877 GGGTTTTATT
22738887 TTTAGGGTTTGAAGGG
1 TTTAGGGTTTG-AGGG
*
22738903 TTTAGGG-TTGA-GT
1 TTTAGGGTTTGAGGG
* *
22738916 TTTAGAGTTTGGAGAG
1 TTTAGGGTTT-GAGGG
22738932 TTTAGGGTTT
1 TTTAGGGTTT
22738942 TGTTTGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
13 7 0.23
14 3 0.10
15 5 0.16
16 16 0.52
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
TTTAGGGTTTGAGGG
Found at i:22738909 original size:30 final size:30
Alignment explanation
Indices: 22738864--22738946 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 30
22738854 TAATTTCAAG
* * *
22738864 GTTTAAAGA-TTTAGGGTTTTATTTTTAGG
1 GTTTGAAGAGTTTAGGGTTTTAGTTTTAGA
* *
22738893 GTTTGAAGGGTTTAGGG-TTGAGTTTTAGA
1 GTTTGAAGAGTTTAGGGTTTTAGTTTTAGA
*
22738922 GTTTGGAGAGTTTAGGGTTTT-GTTT
1 GTTTGAAGAGTTTAGGGTTTTAGTTT
22738947 GATTTAGGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 35 0.80
30 9 0.20
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (30 bp):
GTTTGAAGAGTTTAGGGTTTTAGTTTTAGA
Found at i:22739379 original size:20 final size:19
Alignment explanation
Indices: 22739333--22739387 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
22739323 CAATTCTTAT
*
22739333 TATTTTTT-AGATTATTAT
1 TATTTTTTAAGATTATTAG
* *
22739351 TATTATTTAAGCATTTTTAG
1 TATTTTTTAAG-ATTATTAG
22739371 TATTTTTTAAG-TTATTA
1 TATTTTTTAAGATTATTA
22739388 TCCTACTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 12 0.40
19 2 0.07
20 16 0.53
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TATTTTTTAAGATTATTAG
Found at i:22740113 original size:18 final size:18
Alignment explanation
Indices: 22740079--22740112 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22740069 GACTCAAAAT
22740079 TTCTGTTTTTTTTTTTTC
1 TTCTGTTTTTTTTTTTTC
22740097 TTCT-TTTTTTTTTTTT
1 TTCTGTTTTTTTTTTTT
22740113 TATAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (18 bp):
TTCTGTTTTTTTTTTTTC
Found at i:22741277 original size:6 final size:6
Alignment explanation
Indices: 22741266--22741290 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
22741256 ATGTTGAATT
22741266 TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
22741291 CCTGATAACT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:22742892 original size:14 final size:15
Alignment explanation
Indices: 22742873--22742910 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
22742863 TAAATAATTT
22742873 TAAATTATAAT-TAA
1 TAAATTATAATATAA
*
22742887 TAAATTATATTATAA
1 TAAATTATAATATAA
22742902 T-AATTATAA
1 TAAATTATAA
22742911 GTAAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATTATAATATAA
Found at i:22747202 original size:17 final size:18
Alignment explanation
Indices: 22747160--22747202 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
22747150 CGATTATAAT
22747160 TATTAGCATTATTTTAGA
1 TATTAGCATTATTTTAGA
*
22747178 TATAAGCATT-TTTTAG-
1 TATTAGCATTATTTTAGA
22747194 TAATTAGCA
1 T-ATTAGCA
22747203 GTTGACTAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 9 0.41
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (18 bp):
TATTAGCATTATTTTAGA
Found at i:22747636 original size:44 final size:44
Alignment explanation
Indices: 22747575--22747661 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
22747565 AAAATTATAT
* * *
22747575 TTTTGAAATTATGAAATTTTAATAAATATCATATTATTAAGATA
1 TTTTGAAATTATAAAATTTTAACAAAAATCATATTATTAAGATA
*
22747619 TTTTGAAAATT-TAAAATTTTAACAAAAATCATATTTTTAAGAT
1 TTTTG-AAATTATAAAATTTTAACAAAAATCATATTATTAAGAT
22747662 GAAAATGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 33 0.87
45 5 0.13
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (44 bp):
TTTTGAAATTATAAAATTTTAACAAAAATCATATTATTAAGATA
Found at i:22747710 original size:71 final size:71
Alignment explanation
Indices: 22747619--22747953 Score: 244
Period size: 72 Copynumber: 4.7 Consensus size: 71
22747609 TATTAAGATA
* * * *
22747619 TTTTGAAAATT-TAAAATTTTAACAAAAATCATATTTTTAAGATGAAAATGTAAT-AGATATTGA
1 TTTTG-AAATTATGAAATTTTAACAAAGATCATATTTTTAAGATAAAAATGTAATGA-ATATTAA
22747682 AATTTTAT
64 AATTTTAT
* ** * * *
22747690 TTTTGAAATTATGAAATTTTAACAAAAATTGTGTTTTTAAGATAAAAAACT-TAATGTATACTAA
1 TTTTGAAATTATGAAATTTTAACAAAGATCATATTTTTAAGAT-AAAAA-TGTAATGAATATTAA
22747754 AACTTTTA-
64 AA-TTTTAT
* * *
22747762 TTTTG-AATTATG-AATTTTATCAAAGACCATATTTTAAAGATAAAACATGCTATATG--TA--A
1 TTTTGAAATTATGAAATTTTAACAAAGATCATATTTTTAAGATAAAA-ATG-TA-ATGAATATTA
22747821 AAATTTTAT
63 AAATTTTAT
* * * *** * * * * *
22747830 TTTCGAAA-TATTGAAAATTTATCAAAGATTGCATTGTTAAGATAAAAAATATAGTGAATGTTGA
1 TTTTGAAATTA-TGAAATTTTAACAAAGATCATATTTTTAAGAT-AAAAATGTAATGAATATTAA
22747894 AATTTTAT
64 AATTTTAT
* * *
22747902 TTTTGAAATTCTTAAAGTTTT-ACAAAGATCATATTTTTAAAATAAAAATGTA
1 TTTTGAAATTATGAAA-TTTTAACAAAGATCATATTTTTAAGATAAAAATGTA
22747954 CTCTACGTAT
Statistics
Matches: 206, Mismatches: 38, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
67 5 0.02
68 12 0.06
69 11 0.05
70 55 0.27
71 54 0.26
72 59 0.29
73 10 0.05
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (71 bp):
TTTTGAAATTATGAAATTTTAACAAAGATCATATTTTTAAGATAAAAATGTAATGAATATTAAAA
TTTTAT
Found at i:22747906 original size:140 final size:142
Alignment explanation
Indices: 22747681--22747948 Score: 307
Period size: 140 Copynumber: 1.9 Consensus size: 142
22747671 ATAGATATTG
* * ** *
22747681 AAATTTTATTTTTGAAATTATGAAATTTTAACAAAAATTGTGTTTTTAAGATAAAAAACTTAATG
1 AAATTTTATTTTCGAAATTATGAAAATTTAACAAAAATTGCATTGTTAAGATAAAAAACTTAATG
* *
22747746 TATACTAAAACTTTTATTTTG-AATT-ATGAA-TTTTATCAAAGACCATA-TTTTAAAGATAAAA
66 AATACTAAAACTTTTATTTTGAAATTCATAAAGTTTTA-CAAAGACCATATTTTTAAA-ATAAAA
22747807 CATGCTATATGTAA
129 CATGCTATATGTAA
* * *
22747821 AAATTTTATTTTCGAAA-TATTGAAAATTTATCAAAGATTGCATTGTTAAGATAAAAAA-TATAG
1 AAATTTTATTTTCGAAATTA-TGAAAATTTAACAAAAATTGCATTGTTAAGATAAAAAACT-TAA
** * * *
22747884 TGAATGTTGAAA-TTTTATTTTTGAAATTCTTAAAGTTTTACAAAGATCATATTTTTAAAATAAA
64 TGAATACTAAAACTTTTA-TTTTGAAATTCATAAAGTTTTACAAAGACCATATTTTTAAAATAAA
22747948 A
128 A
22747949 ATGTACTCTA
Statistics
Matches: 106, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
139 8 0.08
140 63 0.59
141 4 0.04
142 19 0.18
143 12 0.11
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (142 bp):
AAATTTTATTTTCGAAATTATGAAAATTTAACAAAAATTGCATTGTTAAGATAAAAAACTTAATG
AATACTAAAACTTTTATTTTGAAATTCATAAAGTTTTACAAAGACCATATTTTTAAAATAAAACA
TGCTATATGTAA
Found at i:22748371 original size:14 final size:14
Alignment explanation
Indices: 22748352--22748401 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
22748342 AATTATTATT
22748352 TATTTATATATATA
1 TATTTATATATATA
22748366 TATTTATATAATGATA
1 TATTTATAT-AT-ATA
* * *
22748382 TTTTTAAATATTTA
1 TATTTATATATATA
22748396 TATTTA
1 TATTTA
22748402 AAAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 16 0.53
15 4 0.13
16 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:22748400 original size:30 final size:30
Alignment explanation
Indices: 22748354--22748415 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
22748344 TTATTATTTA
* * * *
22748354 TTTATATATATATATTTATATAATGATATT
1 TTTAAATATATATATTTAAAAAATAATATT
*
22748384 TTTAAATATTTATATTTAAAAAATAATATT
1 TTTAAATATATATATTTAAAAAATAATATT
22748414 TT
1 TT
22748416 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTAAATATATATATTTAAAAAATAATATT
Found at i:22748418 original size:21 final size:21
Alignment explanation
Indices: 22748388--22748438 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
22748378 GATATTTTTA
22748388 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
*
22748408 AATATTTTATATTTTAAAAAT
1 AATATTTTATATTTAAAAAAT
22748429 AATATTTTAT
1 AATATTTTAT
22748439 TAATTTCGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:22749891 original size:2 final size:2
Alignment explanation
Indices: 22749851--22749883 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22749841 CCATCGGCCG
22749851 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22749884 TTTCTCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:22750075 original size:3 final size:3
Alignment explanation
Indices: 22750069--22750098 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22750059 ATCATCAGAA
22750069 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
22750099 GTTTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:22755271 original size:13 final size:13
Alignment explanation
Indices: 22755253--22755277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22755243 AAAATATGTT
22755253 ATACGAAAATAAG
1 ATACGAAAATAAG
22755266 ATACGAAAATAA
1 ATACGAAAATAA
22755278 AATCGTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.12, T:0.16
Consensus pattern (13 bp):
ATACGAAAATAAG
Found at i:22757134 original size:6 final size:6
Alignment explanation
Indices: 22757123--22757148 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22757113 AATTTTAATA
22757123 AATTTT AATTTT AATTTT AATTTT AA
1 AATTTT AATTTT AATTTT AATTTT AA
22757149 CACCTACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:22764057 original size:22 final size:22
Alignment explanation
Indices: 22764031--22764073 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22764021 TGTATATTTA
* * *
22764031 TATTTGTATCTCTAGAATTAAG
1 TATTTATATCCCTAAAATTAAG
22764053 TATTTATATCCCTAAAATTAA
1 TATTTATATCCCTAAAATTAA
22764074 CGACAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (22 bp):
TATTTATATCCCTAAAATTAAG
Found at i:22764192 original size:28 final size:28
Alignment explanation
Indices: 22764152--22764207 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
22764142 TTACCCACTA
22764152 GTTAGTTGTATATAAAGCTAAGGTGCTT
1 GTTAGTTGTATATAAAGCTAAGGTGCTT
22764180 GTTAGTTGTATATAAAGCTAAGGTGCTT
1 GTTAGTTGTATATAAAGCTAAGGTGCTT
22764208 ATATAATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (28 bp):
GTTAGTTGTATATAAAGCTAAGGTGCTT
Found at i:22771235 original size:21 final size:21
Alignment explanation
Indices: 22771211--22771251 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22771201 ATTTTACTAC
22771211 TAAGTTGA-AATTAATTTATTA
1 TAAGTT-ATAATTAATTTATTA
*
22771232 TAAGTTATCATTAATTTATT
1 TAAGTTATAATTAATTTATT
22771252 GTTATCACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (21 bp):
TAAGTTATAATTAATTTATTA
Found at i:22771257 original size:17 final size:17
Alignment explanation
Indices: 22771235--22771267 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22771225 TTTATTATAA
*
22771235 GTTATCATTAATTTATT
1 GTTATCACTAATTTATT
22771252 GTTATCACTAATTTAT
1 GTTATCACTAATTTAT
22771268 AATTAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (17 bp):
GTTATCACTAATTTATT
Found at i:22771287 original size:22 final size:22
Alignment explanation
Indices: 22771253--22771300 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
22771243 TAATTTATTG
*
22771253 TTATCACTAATTTATAATTAAA
1 TTATAACTAATTTATAATTAAA
* * *
22771275 TTATAACTGATTTATCATTAAG
1 TTATAACTAATTTATAATTAAA
22771297 TTAT
1 TTAT
22771301 CAATAAATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (22 bp):
TTATAACTAATTTATAATTAAA
Found at i:22771448 original size:22 final size:22
Alignment explanation
Indices: 22771423--22771500 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
22771413 CCAATTGATA
*
22771423 ACTAAGTTATCATAGATTTATT
1 ACTAAATTATCATAGATTTATT
** *
22771445 ACTATGTTATCGGTA-ATTTATT
1 ACTAAATTATC-ATAGATTTATT
* * *
22771467 ATTAAATTATCAAAGATTTACT
1 ACTAAATTATCATAGATTTATT
*
22771489 ACAAAATTATCA
1 ACTAAATTATCA
22771501 ATAATTAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 1 0.02
22 41 0.93
23 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (22 bp):
ACTAAATTATCATAGATTTATT
Found at i:22771694 original size:22 final size:22
Alignment explanation
Indices: 22771669--22771720 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
22771659 AATTAGCTAT
22771669 TAAGTTATTAATTATTTATTAC
1 TAAGTTATTAATTATTTATTAC
** *
22771691 TAAGTTATTTTTTATTTATTAT
1 TAAGTTATTAATTATTTATTAC
*
22771713 TAATTTAT
1 TAAGTTAT
22771721 CAATAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TAAGTTATTAATTATTTATTAC
Found at i:22771990 original size:22 final size:21
Alignment explanation
Indices: 22771965--22772035 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
22771955 ATATTATTAT
22771965 ATTATCATTGATTTACAACTAA
1 ATTATCATTGATTTAC-ACTAA
*
22771987 ATTATCATTAATTTATCACTAA
1 ATTATCATTGATTTA-CACTAA
* * * *
22772009 GTTATAAATGATTTACTATTAA
1 ATTATCATTGATTTAC-ACTAA
22772031 ATTAT
1 ATTAT
22772036 AAACAATTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 38 0.95
23 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (21 bp):
ATTATCATTGATTTACACTAA
Found at i:22772036 original size:22 final size:22
Alignment explanation
Indices: 22771975--22772115 Score: 106
Period size: 22 Copynumber: 6.4 Consensus size: 22
22771965 ATTATCATTG
* * * *
22771975 ATTTACAACTAAATTATCATTA
1 ATTTACTATTAAATTATAAATA
* * *
22771997 ATTTA-TCACTAAGTTATAAATG
1 ATTTACT-ATTAAATTATAAATA
*
22772019 ATTTACTATTAAATTATAAACA
1 ATTTACTATTAAATTATAAATA
* **
22772041 ATTTACTACTAAATTATTGATA
1 ATTTACTATTAAATTATAAATA
* *
22772063 ATTTACTATTAAGTTATAGATA
1 ATTTACTATTAAATTATAAATA
* * *
22772085 ATTTATTA-TAAAGTTATTATTA
1 ATTTACTATTAAA-TTATAAATA
22772107 ATTTACTAT
1 ATTTACTAT
22772116 GAAGTTTTTT
Statistics
Matches: 93, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
21 3 0.03
22 89 0.96
23 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (22 bp):
ATTTACTATTAAATTATAAATA
Found at i:22772044 original size:44 final size:45
Alignment explanation
Indices: 22771973--22772115 Score: 123
Period size: 44 Copynumber: 3.2 Consensus size: 45
22771963 ATATTATCAT
* * * * *
22771973 TGATTTACAACTAAATTATCATTAATTTATC-ACTAAGTTATAAA
1 TGATTTACTATTAAATTATAAATAATTTATCTACTAAATTATAAA
* **
22772017 TGATTTACTATTAAATTATAAACAATTTA-CTACTAAATTATTGA
1 TGATTTACTATTAAATTATAAATAATTTATCTACTAAATTATAAA
* * * * *
22772061 TAATTTACTATTAAGTTATAGATAATTTAT-TA-TAAAGTTATTAT
1 TGATTTACTATTAAATTATAAATAATTTATCTACTAAA-TTATAAA
*
22772105 TAATTTACTAT
1 TGATTTACTAT
22772116 GAAGTTTTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
43 5 0.06
44 77 0.94
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (45 bp):
TGATTTACTATTAAATTATAAATAATTTATCTACTAAATTATAAA
Found at i:22772110 original size:66 final size:65
Alignment explanation
Indices: 22771956--22772158 Score: 162
Period size: 66 Copynumber: 3.1 Consensus size: 65
22771946 ATCAATTACA
* * * * * *
22771956 TATTATTATATTATCATTGATTTACAACTAAATTA-TCATTAATTTA-TCACTAAGTTATAAATG
1 TATTATTAAATTATAATTAATTTACTACTAAATTATTCA-TAATTTACT-ATTAAGTTAT-AATA
22772019 ATT
63 ATT
* ** *
22772022 TACTATTAAATTATAAACAATTTACTACTAAATTATTGATAATTTACTATTAAGTTATAGATAAT
1 TATTATTAAATTATAATTAATTTACTACTAAATTATTCATAATTTACTATTAAGTTATA-ATAAT
22772087 T
65 T
* * * * * *
22772088 TATTA-TAAAGTTATTATTAATTTACTA-TGAAGTTTTTTATGATTTACTATAAAGTTATTAATA
1 TATTATTAAA-TTATAATTAATTTACTACT-AAATTATTCATAATTTACTATTAAGTTA-TAATA
22772151 ATT
63 ATT
*
22772154 AATTA
1 TATTA
22772159 ATTTACAGTT
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
65 6 0.05
66 100 0.90
67 5 0.05
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (65 bp):
TATTATTAAATTATAATTAATTTACTACTAAATTATTCATAATTTACTATTAAGTTATAATAATT
Found at i:22772120 original size:22 final size:22
Alignment explanation
Indices: 22772007--22772153 Score: 138
Period size: 22 Copynumber: 6.7 Consensus size: 22
22771997 ATTTATCACT
* *
22772007 AAGTTATAAATGATTTACTATTA
1 AAGTTATTAATAATTTACTA-TA
* *
22772030 AA-TTATAAACAATTTACTACTA
1 AAGTTATTAATAATTTACTA-TA
* *
22772052 AA-TTATTGATAATTTACTATT
1 AAGTTATTAATAATTTACTATA
*
22772073 AAGTTA-TAGATAATTTATTATA
1 AAGTTATTA-ATAATTTACTATA
* *
22772095 AAGTTATTATTAATTTACTATG
1 AAGTTATTAATAATTTACTATA
* * *
22772117 AAGTTTTTTATGATTTACTATA
1 AAGTTATTAATAATTTACTATA
22772139 AAGTTATTAATAATT
1 AAGTTATTAATAATT
22772154 AATTAATTTA
Statistics
Matches: 100, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
21 4 0.04
22 92 0.92
23 4 0.04
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (22 bp):
AAGTTATTAATAATTTACTATA
Found at i:22772180 original size:22 final size:22
Alignment explanation
Indices: 22772155--22772230 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 22
22772145 TTAATAATTA
*
22772155 ATTAATTTACAGTTAAATTATC
1 ATTAATTTACAGCTAAATTATC
* * *
22772177 ATTAATTTATAACTAAATTATT
1 ATTAATTTACAGCTAAATTATC
* * *
22772199 ACTAATTTACAGCTGAGTTATC
1 ATTAATTTACAGCTAAATTATC
* *
22772221 AATGATTTAC
1 ATTAATTTAC
22772231 TATGACGTTA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (22 bp):
ATTAATTTACAGCTAAATTATC
Found at i:22772240 original size:22 final size:22
Alignment explanation
Indices: 22772214--22772298 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 22
22772204 TTTACAGCTG
22772214 AGTTATCAATGATTTACTATGA
1 AGTTATCAATGATTTACTATGA
* * ** *
22772236 CGTTATTAGCGATTTACTATTA
1 AGTTATCAATGATTTACTATGA
* * *
22772258 AATTATCAATAATTTACTATTA
1 AGTTATCAATGATTTACTATGA
* **
22772280 AATTATCAACAATTTACTA
1 AGTTATCAATGATTTACTA
22772299 CATATTATTA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (22 bp):
AGTTATCAATGATTTACTATGA
Found at i:22772411 original size:22 final size:22
Alignment explanation
Indices: 22772386--22772781 Score: 77
Period size: 22 Copynumber: 17.9 Consensus size: 22
22772376 GATTTATTGC
22772386 TAAGTTATTTATGATTTACTAT
1 TAAGTTATTTATGATTTACTAT
*
22772408 TAAGTTTATAATT-T-AATTACTAT
1 TAAG-TTAT--TTATGATTTACTAT
** **
22772431 TAAACTA-AAATAGATTTACTAT
1 TAAGTTATTTAT-GATTTACTAT
* * *
22772453 TAAGTTA-TTAGTAACTTACTAC
1 TAAGTTATTTA-TGATTTACTAT
* *
22772475 TAAGTT-TTCATTGATTTACTAC
1 TAAGTTATTTA-TGATTTACTAT
* ** * *
22772497 TAAATTATCAATAATTAACTAT
1 TAAGTTATTTATGATTTACTAT
* *
22772519 TAAATTA-TTATGCATTTATTAT
1 TAAGTTATTTATG-ATTTACTAT
* *
22772541 TATA-TTA-TTATTAATTTACTAA
1 TA-AGTTATTTA-TGATTTACTAT
** * *
22772563 TAAGTTATCAATTATTTACTGT
1 TAAGTTATTTATGATTTACTAT
* * *
22772585 TAA-ATAATTATTGATATACTAT
1 TAAGTTATTTA-TGATTTACTAT
22772607 TAAGTTATCATTA--ATTTACTAT
1 TAAGTTAT--TTATGATTTACTAT
* * *
22772629 GCTAAATTA-TCACTGATTAACTAT
1 --TAAGTTATTTA-TGATTTACTAT
* ** *
22772653 TAATTTATCAAT-AGTTACTAT
1 TAAGTTATTTATGATTTACTAT
* * *
22772674 TAAGTTATAT-TGATTTATTTT
1 TAAGTTATTTATGATTTACTAT
* * * * *
22772695 TAATTTTTAATTATTAATTACTAC
1 TAA--GTTATTTATGATTTACTAT
* ** * *
22772719 TAAGTTCTAAATTATTTACTAC
1 TAAGTTATTTATGATTTACTAT
* *
22772741 TAAATTATCATTA--ATTTATTAT
1 TAAGTTAT--TTATGATTTACTAT
22772763 TAAGTTATTTATGATTTAC
1 TAAGTTATTTATGATTTAC
22772782 CGTTAAATTT
Statistics
Matches: 260, Mismatches: 82, Indels: 64
0.64 0.20 0.16
Matches are distributed among these distances:
20 5 0.02
21 31 0.12
22 166 0.64
23 28 0.11
24 25 0.10
25 5 0.02
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (22 bp):
TAAGTTATTTATGATTTACTAT
Found at i:22772528 original size:66 final size:62
Alignment explanation
Indices: 22772401--22772690 Score: 190
Period size: 66 Copynumber: 4.4 Consensus size: 62
22772391 TATTTATGAT
* * * * *
22772401 TTACTATTAAGTTTATAATTTAA-TTACTATTAAACTA-AAATAGATTTACTATTAAGTTATTAG
1 TTACTATTAAG-TTAT-A-TTAATTTACTACTAAATTATCAATA-ATTAACTATTAAATTATTA-
22772464 TAA
61 T-A
* * *
22772467 CTTACTACTAAGTTTTCATTGATTTACTACTAAATTATCAATAATTAACTATTAAATTATTATGC
1 -TTACTATTAAGTTAT-ATTAATTTACTACTAAATTATCAATAATTAACTATTAAATTATTAT--
22772532 A
62 A
* * * * * * *
22772533 TTTATTATTATA-TTATTATTAATTTACTAATAAGTTATCAATTATTTACTGTTAAATAATTATT
1 -TTACTATTA-AGTTA-TATTAATTTACTACTAAATTATCAATAATTAACTATTAAATTATTA-T
22772597 GA
62 -A
* * * *
22772599 TATACTATTAAGTTATCATTAATTTACTATGCTAAATTATCACTGATTAACTATTAATTTATCAA
1 T-TACTATTAAGTTAT-ATTAATTTACTA--CTAAATTATCAATAATTAACTATTAAATTAT-TA
22772664 TA
61 TA
*
22772666 GTTACTATTAAGTTATATTGATTTA
1 -TTACTATTAAGTTATATTAATTTA
22772691 TTTTTAATTT
Statistics
Matches: 177, Mismatches: 33, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
65 7 0.04
66 112 0.63
67 32 0.18
68 25 0.14
69 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.47
Consensus pattern (62 bp):
TTACTATTAAGTTATATTAATTTACTACTAAATTATCAATAATTAACTATTAAATTATTATA
Found at i:22772580 original size:44 final size:44
Alignment explanation
Indices: 22772444--22772628 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
22772434 ACTAAAATAG
* * * * * *
22772444 ATTTACTATTAAGTTATTAGTAACT-TACTACTAAGTTTTCATTG
1 ATTTACTATTAAATAATTATTAA-TATACTAATAAGTTATCATTA
* * * * * * * **
22772488 ATTTACTACTAAATTATCAATAAT-TAACTATTAAATTATTATGC
1 ATTTACTATTAAATAATTATTAATAT-ACTAATAAGTTATCATTA
* * * *
22772532 ATTTATTATTATATTATTATTAATTTACTAATAAGTTATCAATT-
1 ATTTACTATTAAATAATTATTAATATACTAATAAGTTATC-ATTA
* * *
22772576 ATTTACTGTTAAATAATTATTGATATACTATTAAGTTATCATTA
1 ATTTACTATTAAATAATTATTAATATACTAATAAGTTATCATTA
22772620 ATTTACTAT
1 ATTTACTAT
22772629 GCTAAATTAT
Statistics
Matches: 110, Mismatches: 27, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
43 5 0.05
44 102 0.93
45 3 0.03
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.49
Consensus pattern (44 bp):
ATTTACTATTAAATAATTATTAATATACTAATAAGTTATCATTA
Found at i:22773093 original size:22 final size:22
Alignment explanation
Indices: 22773068--22773391 Score: 136
Period size: 22 Copynumber: 14.9 Consensus size: 22
22773058 ATTGAATCTT
* *
22773068 ATTTACTATTAACTTATTGTTA
1 ATTTACTATTAAGTTATTATTA
* *
22773090 ATTTATTATTAAGTTATTATTG
1 ATTTACTATTAAGTTATTATTA
*
22773112 ATTTACTATTAAGTTATCACTT-
1 ATTTACTATTAAGTTATTA-TTA
* *
22773134 ATTT-TTATTAAATTATCT-TTA
1 ATTTACTATTAAGTTAT-TATTA
* *
22773155 ATTTACTACTATA-TTTTTATGT-
1 ATTTACTATTA-AGTTATTAT-TA
* * * *
22773177 ATTTACAATTATG-TATAAATA
1 ATTTACTATTAAGTTATTATTA
*
22773198 ATTTACTATTAAGTTATT-TGTT
1 ATTTACTATTAAGTTATTAT-TA
22773220 ATTTACTATTATA-TTATTATGT-
1 ATTTACTATTA-AGTTATTAT-TA
* * * * *
22773242 ATTTATTATTATGTT-TCACTG
1 ATTTACTATTAAGTTATTATTA
** ** *
22773263 ACATAC-ATCTATCTTATCAATT-
1 ATTTACTAT-TAAGTTAT-TATTA
* *
22773285 ATTTACTATTAAATTATTATTT
1 ATTTACTATTAAGTTATTATTA
* *
22773307 ATTTACTATTATGTTATTAATA
1 ATTTACTATTAAGTTATTATTA
* *
22773329 ATTTACTAATAAGTTATCCA-TA
1 ATTTACTATTAAGTTAT-TATTA
* * *
22773351 ATTTAATA-TATAGTTATCATTG
1 ATTTACTATTA-AGTTATTATTA
* *
22773373 ATTTATTATAAAGTTATTA
1 ATTTACTATTAAGTTATTA
22773392 CTGATTTTTT
Statistics
Matches: 228, Mismatches: 50, Indels: 48
0.70 0.15 0.15
Matches are distributed among these distances:
20 6 0.03
21 46 0.20
22 162 0.71
23 14 0.06
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTACTATTAAGTTATTATTA
Found at i:22773181 original size:65 final size:66
Alignment explanation
Indices: 22773068--22773345 Score: 185
Period size: 65 Copynumber: 4.3 Consensus size: 66
22773058 ATTGAATCTT
* * * *
22773068 ATTTACTATTAACTTA-TTGTTAATTTATTATTA-AGTTATTAT-TGATTTACTATTAAGTTATC
1 ATTTACTATTAAATTATTTG-TAATTTACTACTATA-TTATTATGT-ATTTACTATTATGTTATC
*
22773130 ACTT
63 ACTA
* * * * *
22773134 ATTT-TTATTAAATTATCTT-TAATTTACTACTATATTTTTATGTATTTACAATTATG-TATAAA
1 ATTTACTATTAAATTAT-TTGTAATTTACTACTATATTATTATGTATTTACTATTATGTTATCAC
22773196 TA
65 TA
* * * *
22773198 ATTTACTATTAAGTTATTTGTTATTTACTATTATATTATTATGTATTTATTATTATGTT-TCACT
1 ATTTACTATTAAATTATTTGTAATTTACTACTATATTATTATGTATTTACTATTATGTTATCACT
*
22773262 G
66 A
** ** *** * * * * * *
22773263 ACATAC-ATCTATCTTATCAATTATTTACTATTAAATTATTATTTATTTACTATTATGTTATTAA
1 ATTTACTAT-TAAATTATTTGTAATTTACTACTATATTATTATGTATTTACTATTATGTTATCAC
22773327 TA
65 TA
* *
22773329 ATTTACTAATAAGTTAT
1 ATTTACTATTAAATTAT
22773346 CCATAATTTA
Statistics
Matches: 164, Mismatches: 38, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
64 13 0.08
65 128 0.78
66 20 0.12
67 3 0.02
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (66 bp):
ATTTACTATTAAATTATTTGTAATTTACTACTATATTATTATGTATTTACTATTATGTTATCACT
A
Found at i:22773248 original size:14 final size:15
Alignment explanation
Indices: 22773226--22773255 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22773216 TGTTATTTAC
22773226 TATTATATTATTATG
1 TATTATATTATTATG
22773241 TATT-TATTATTATG
1 TATTATATTATTATG
22773255 T
1 T
22773256 TTCACTGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TATTATATTATTATG
Found at i:22773396 original size:22 final size:22
Alignment explanation
Indices: 22773351--22773421 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
22773341 GTTATCCATA
* * *
22773351 ATTTAATATATAGTTATCATTG
1 ATTTATTATAAAGTTATCACTG
*
22773373 ATTTATTATAAAGTTATTACTG
1 ATTTATTATAAAGTTATCACTG
* * *
22773395 ATTTTTTCTAAA-TTATCACTA
1 ATTTATTATAAAGTTATCACTG
22773416 ATTTAT
1 ATTTAT
22773422 AACAAAATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 12 0.30
22 28 0.70
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTTATTATAAAGTTATCACTG
Found at i:22776603 original size:153 final size:154
Alignment explanation
Indices: 22776372--22776657 Score: 427
Period size: 153 Copynumber: 1.9 Consensus size: 154
22776362 ATTTTTAACT
*
22776372 GATTTAAATTTAAATAACTAATGAATAAAAAGCTATAAATTTAATGTCAAATAATCATTATTAAA
1 GATTTAAATTTAAATAACTAATGAATAAAAAGCTATAAATTTAATGACAAATAATCATTATTAAA
* *
22776437 TAAATAAATAATGCTAAAAATTGAAA-TATAAATTTTTTATTTTTTAAAATTTATAAAGGTATTT
66 TAAATAAATAATGCTAAAAATTGAAAGT-TAAATTTGTTATTTCTTAAAATTTATAAAGGTATTT
22776501 ATGTTATTTATTTTTAACATTTTAA
130 ATGTTATTTATTTTTAACATTTTAA
* * *
22776526 GATTTAAATTTAAATAACTAACT-AATAAAAA-TTATATATTTAATGACAAATAATCTTTATTAA
1 GATTTAAATTTAAATAACTAA-TGAATAAAAAGCTATAAATTTAATGACAAATAATCATTATTAA
* * * *
22776589 ATAAATGAAA-AATGCTAGAAATTTAAAGTTAACTTTGTTGTTTCTTAAAATTTATAAAGGTATT
65 ATAAAT-AAATAATGCTAAAAATTGAAAGTTAAATTTGTTATTTCTTAAAATTTATAAAGGTATT
22776653 TATGT
129 TATGT
22776658 CGTTCACTTT
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
153 85 0.71
154 33 0.28
155 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (154 bp):
GATTTAAATTTAAATAACTAATGAATAAAAAGCTATAAATTTAATGACAAATAATCATTATTAAA
TAAATAAATAATGCTAAAAATTGAAAGTTAAATTTGTTATTTCTTAAAATTTATAAAGGTATTTA
TGTTATTTATTTTTAACATTTTAA
Found at i:22776730 original size:92 final size:92
Alignment explanation
Indices: 22776609--22776794 Score: 300
Period size: 92 Copynumber: 2.0 Consensus size: 92
22776599 AATGCTAGAA
* *
22776609 ATTTAAAGTTAACTTTGTTGTTTCTTAAAATTTATAAAGGTATTTATGTCGTTCACTTTTAATAC
1 ATTTAAAGTTAACTTTGTTATTTCCTAAAATTTATAAAGGTATTTATGTCGTTCACTTTTAATAC
* *
22776674 TTTTAGAGTTCACACTTTTATATATAG
66 TTTTAAAATTCACACTTTTATATATAG
* * * *
22776701 ATTTAAAGTTAATTTTGTTATTTCCTAAAATTTATAAGGGTATTTATGTTGTTTACTTTTAATAC
1 ATTTAAAGTTAACTTTGTTATTTCCTAAAATTTATAAAGGTATTTATGTCGTTCACTTTTAATAC
22776766 TTTTAAAATTCACACTTTTATATATAG
66 TTTTAAAATTCACACTTTTATATATAG
22776793 AT
1 AT
22776795 GAAATGTGTA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.50
Consensus pattern (92 bp):
ATTTAAAGTTAACTTTGTTATTTCCTAAAATTTATAAAGGTATTTATGTCGTTCACTTTTAATAC
TTTTAAAATTCACACTTTTATATATAG
Found at i:22783479 original size:25 final size:25
Alignment explanation
Indices: 22783428--22783505 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 25
22783418 TAAATGTCAA
22783428 TTTTAA-TAAAATTCATTCAATATATTTT
1 TTTTAATTAAAATT-A-T-AATA-ATTTT
22783456 TTTTAATTAAAATTATAATAA-TTT
1 TTTTAATTAAAATTATAATAATTTT
* * *
22783480 TTTTAATCATATTTATAATAATTTT
1 TTTTAATTAAAATTATAATAATTTT
22783505 T
1 T
22783506 ATTATTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
24 21 0.47
25 5 0.11
26 4 0.09
27 1 0.02
28 7 0.16
29 7 0.16
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTTAATTAAAATTATAATAATTTT
Found at i:22783486 original size:12 final size:12
Alignment explanation
Indices: 22783468--22783507 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
22783458 TTAATTAAAA
22783468 TTATAATAATTT
1 TTATAATAATTT
* * *
22783480 TTTTAATCATAT
1 TTATAATAATTT
22783492 TTATAATAATTT
1 TTATAATAATTT
22783504 TTAT
1 TTAT
22783508 TATTATTTTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATAATAATTT
Found at i:22784460 original size:2 final size:2
Alignment explanation
Indices: 22784453--22784485 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22784443 CTTGTGGTAA
22784453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22784486 GAAACAACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22796143 original size:2 final size:2
Alignment explanation
Indices: 22796138--22796168 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
22796128 TGTGTGTGTT
*
22796138 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22796169 TTATTAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:22796149 original size:8 final size:8
Alignment explanation
Indices: 22796136--22796172 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
22796126 TATGTGTGTG
22796136 TTTATATA
1 TTTATATA
22796144 TTTATATA
1 TTTATATA
*
22796152 TATATATA
1 TTTATATA
*
22796160 TATATATA
1 TTTATATA
22796168 TTTAT
1 TTTAT
22796173 TAATGTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTTATATA
Found at i:22799936 original size:22 final size:22
Alignment explanation
Indices: 22799911--22799963 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
22799901 AATAATTTGG
* *
22799911 TAATAAATTAGTGATAGCTTAA
1 TAATAAATTAATGATAACTTAA
* * *
22799933 TAATCAATGAATGATAATTTAA
1 TAATAAATTAATGATAACTTAA
*
22799955 TAGTAAATT
1 TAATAAATT
22799964 GATAATTTTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (22 bp):
TAATAAATTAATGATAACTTAA
Found at i:22799966 original size:19 final size:19
Alignment explanation
Indices: 22799944--22799982 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22799934 AATCAATGAA
22799944 TGATAATTTAATAGTAAAT
1 TGATAATTTAATAGTAAAT
**
22799963 TGATAATTTTTTAGTAAAT
1 TGATAATTTAATAGTAAAT
22799982 T
1 T
22799983 AGTAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
TGATAATTTAATAGTAAAT
Found at i:22800122 original size:22 final size:22
Alignment explanation
Indices: 22800094--22800136 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22800084 CAAAAAAAAG
*
22800094 TGATAACTTAATAGTTAATTAT
1 TGATAACTTAATAGTAAATTAT
22800116 TGATAACTTAATAGTAAATTA
1 TGATAACTTAATAGTAAATTA
22800137 GTAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATTAT
Found at i:22800306 original size:43 final size:45
Alignment explanation
Indices: 22800232--22800351 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 45
22800222 GATAAATTAG
* *
22800232 TAGTAAAT-AATTAATAATTTAGTAGTTAATCATTAAAAACATA-AA
1 TAGTAAATCAA-TAATAACTTAGTAGTAAATCATTAAAAA-ATACAA
* *
22800277 -AGTAAATCAATAA-AACTTAGTAGTAAATCA-TACATAATACAA
1 TAGTAAATCAATAATAACTTAGTAGTAAATCATTAAAAAATACAA
* * *
22800319 TAGTTAATCAATAATAACTTAATAATAAATCAT
1 TAGTAAATCAATAATAACTTAGTAGTAAATCAT
22800352 GCATAATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
41 3 0.05
42 6 0.10
43 27 0.43
44 25 0.40
45 2 0.03
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (45 bp):
TAGTAAATCAATAATAACTTAGTAGTAAATCATTAAAAAATACAA
Found at i:22800323 original size:65 final size:66
Alignment explanation
Indices: 22800214--22800350 Score: 156
Period size: 65 Copynumber: 2.1 Consensus size: 66
22800204 ATTTAGTAGC
** * *
22800214 AAATCAATGATAAATTAGTAGTAAATAATTAATAATTTAGTAGTTAATCATTAAAAACATAA-AA
1 AAATCAATGATAAATTAGTAGTAAATAATTAATAATACAATAGTTAATCAATAAAAACATAATAA
22800278 GT
66 -T
* * *
22800280 AAATCAAT-A-AAACTTAGTAGTAAATCA-TACATAATACAATAGTTAATCAATAATAACTTAAT
1 AAATCAATGATAAA-TTAGTAGTAAATAATTA-ATAATACAATAGTTAATCAATAAAAACATAAT
22800342 AAT
64 AAT
22800345 AAATCA
1 AAATCA
22800351 TGCATAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
64 5 0.08
65 46 0.75
66 10 0.16
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (66 bp):
AAATCAATGATAAATTAGTAGTAAATAATTAATAATACAATAGTTAATCAATAAAAACATAATAA
T
Found at i:22800342 original size:22 final size:22
Alignment explanation
Indices: 22800192--22800371 Score: 95
Period size: 22 Copynumber: 8.3 Consensus size: 22
22800182 TGATAGTAAG
* * *
22800192 AAATC-ATAAATAATTTAGTAGC
1 AAATCAAT-AATAACTTAATAGT
* * *
22800214 AAATCAATGATAAATTAGTAGT
1 AAATCAATAATAACTTAATAGT
* *
22800236 AAAT-AATTAATAATTTAGTAGT
1 AAATCAA-TAATAACTTAATAGT
* * * * *
22800258 TAATCATTAAAAACATAAAAGT
1 AAATCAATAATAACTTAATAGT
*
22800280 AAATCAATAA-AACTTAGTAGT
1 AAATCAATAATAACTTAATAGT
*
22800301 AAATC-ATACATAA-TACAATAGT
1 AAATCAATA-ATAACT-TAATAGT
* *
22800323 TAATCAATAATAACTTAATAAT
1 AAATCAATAATAACTTAATAGT
* *
22800345 AAATC-ATGCATAATTTAATA-T
1 AAATCAAT-AATAACTTAATAGT
22800366 AAATCA
1 AAATCA
22800372 GTTACAACTT
Statistics
Matches: 123, Mismatches: 25, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.02
21 25 0.20
22 88 0.72
23 7 0.06
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (22 bp):
AAATCAATAATAACTTAATAGT
Found at i:22800474 original size:8 final size:8
Alignment explanation
Indices: 22800468--22800498 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
22800458 GAATGATAAC
22800468 ATAATAATA
1 ATAAT-ATA
22800477 ATAATATA
1 ATAATATA
22800485 ATAATATA
1 ATAATATA
22800493 ATAATA
1 ATAATA
22800499 AATTATTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.77
9 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATATA
Found at i:22800476 original size:3 final size:3
Alignment explanation
Indices: 22800468--22800499 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
22800458 GAATGATAAC
22800468 ATA ATA ATA ATA AT- ATA ATA AT- ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22800500 ATTATTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22800592 original size:48 final size:48
Alignment explanation
Indices: 22800526--22800618 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
22800516 TAGAAAATTA
* * * * *
22800526 ATAACTTAGTAGTAAATCACTAATAATGTAATAGTAAATTAACAAGTT
1 ATAAATTAGTAATAAATCACTAATAATGTAACAATAAATCAACAAGTT
* * *
22800574 ATAAATTAGTAATTAATCATTGATAATGTAACAATAAATCAACAA
1 ATAAATTAGTAATAAATCACTAATAATGTAACAATAAATCAACAA
22800619 TAACTTAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (48 bp):
ATAAATTAGTAATAAATCACTAATAATGTAACAATAAATCAACAAGTT
Found at i:22800693 original size:22 final size:22
Alignment explanation
Indices: 22800665--22800717 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
22800655 TTAATTGATA
*
22800665 AATTTAGTAGTAGATC-ATAAAT
1 AATTTAGTAGTAAATCAAT-AAT
*
22800687 AATTTAGTAGTAAATCAATGAT
1 AATTTAGTAGTAAATCAATAAT
22800709 AATTTAGTA
1 AATTTAGTA
22800718 ATTAATCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (22 bp):
AATTTAGTAGTAAATCAATAAT
Found at i:22800814 original size:21 final size:21
Alignment explanation
Indices: 22800768--22800829 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
22800758 AGTAGTAGTT
* *
22800768 AATTATCAATAACTTAATTGTA
1 AATTATGAATAACTTAA-TATA
*
22800790 AATTATGAATAATTTAATATA
1 AATTATGAATAACTTAATATA
22800811 AATTA-GTAATAACTTAATA
1 AATTATG-AATAACTTAATA
22800830 ATGAACTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.03
21 19 0.54
22 15 0.43
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
AATTATGAATAACTTAATATA
Found at i:22800900 original size:22 final size:21
Alignment explanation
Indices: 22800850--22800923 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 21
22800840 GTTAATTTAG
22800850 TAATAAATATG-TGAGTAAATCAA
1 TAAT-AATATGAT-AGTAAATC-A
*
22800873 TTATAATATGATAGTAAATACA
1 TAATAATATGATAGTAAAT-CA
*
22800895 TAATAATATAATAGTAAATCA
1 TAATAATATGATAGTAAATCA
22800916 TTAATAAT
1 -TAATAAT
22800924 TTAAATATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
21 2 0.04
22 38 0.84
23 5 0.11
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (21 bp):
TAATAATATGATAGTAAATCA
Found at i:22800977 original size:22 final size:22
Alignment explanation
Indices: 22800884--22801003 Score: 109
Period size: 22 Copynumber: 5.5 Consensus size: 22
22800874 TATAATATGA
* *
22800884 TAGTAAA-TACATAATAATATAA
1 TAGTAAATTAC-TAATAATTTAG
* * *
22800906 TAGTAAATCATTAATAATTTAAA
1 TAGTAAATTACTAATAATTT-AG
* *
22800929 TA-TAAATTATTGATAATTTAG
1 TAGTAAATTACTAATAATTTAG
*
22800950 TAGTAAATTACTAATAATTTGG
1 TAGTAAATTACTAATAATTTAG
* *
22800972 TTGTAAATTAGTAATAATTTAG
1 TAGTAAATTACTAATAATTTAG
*
22800994 TAATAAATTA
1 TAGTAAATTA
22801004 GTTAATCTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
21 3 0.04
22 73 0.90
23 5 0.06
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (22 bp):
TAGTAAATTACTAATAATTTAG
Found at i:22800995 original size:11 final size:11
Alignment explanation
Indices: 22800930--22801005 Score: 62
Period size: 11 Copynumber: 6.9 Consensus size: 11
22800920 TAATTTAAAT
* *
22800930 ATAAATTATTG
1 ATAAATTAGTA
*
22800941 ATAATTTAGTA
1 ATAAATTAGTA
* *
22800952 GTAAATTACTA
1 ATAAATTAGTA
* * *
22800963 ATAATTTGGTT
1 ATAAATTAGTA
*
22800974 GTAAATTAGTA
1 ATAAATTAGTA
*
22800985 ATAATTTAGTA
1 ATAAATTAGTA
22800996 ATAAATTAGT
1 ATAAATTAGT
22801006 TAATCTTTGG
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
11 47 1.00
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.43
Consensus pattern (11 bp):
ATAAATTAGTA
Found at i:22801161 original size:22 final size:22
Alignment explanation
Indices: 22801046--22801229 Score: 108
Period size: 22 Copynumber: 8.4 Consensus size: 22
22801036 GCTAAATTAA
22801046 TAATAAATCAATT-ATAACTTTA-
1 TAATAAATC-ATTGATAA-TTTAG
* *
22801068 TAATAAATC-TTCGATAACTTAA
1 TAATAAATCATT-GATAATTTAG
* ** * *
22801090 TAGT-AATCATCAATAATATAA
1 TAATAAATCATTGATAATTTAG
* * *
22801111 CAATAAATCATTCATAATTTTG
1 TAATAAATCATTGATAATTTAG
* * *
22801133 TAGTAAATCATTAATAAATTAG
1 TAATAAATCATTGATAATTTAG
* * *
22801155 TAATAAATTAATGCTAATTTAG
1 TAATAAATCATTGATAATTTAG
* *
22801177 TAATCAATTATTGATAATTTA-
1 TAATAAATCATTGATAATTTAG
* * *
22801198 TCAGTATATCATTGATAAGTTAG
1 T-AATAAATCATTGATAATTTAG
22801221 TAATAAATC
1 TAATAAATC
22801230 GCTGATAACA
Statistics
Matches: 121, Mismatches: 34, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
20 2 0.02
21 17 0.14
22 101 0.83
23 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (22 bp):
TAATAAATCATTGATAATTTAG
Found at i:22801611 original size:21 final size:22
Alignment explanation
Indices: 22801576--22801623 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
22801566 TTACTAAAAA
22801576 TATCAAGAGGTTACCAAAATTT
1 TATCAAGAGGTTACCAAAATTT
*
22801598 TATCAATA-GTTACCAAAATTT
1 TATCAAGAGGTTACCAAAATTT
22801619 TATCA
1 TATCA
22801624 TAAGTTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (22 bp):
TATCAAGAGGTTACCAAAATTT
Found at i:22801679 original size:21 final size:21
Alignment explanation
Indices: 22801625--22801718 Score: 70
Period size: 21 Copynumber: 4.7 Consensus size: 21
22801615 ATTTTATCAT
* *
22801625 AAGTTATCAAACTAATATTGA
1 AAGTTATCAAAATTATATTGA
* *
22801646 AAGTTACCGAAATTATATTGA
1 AAGTTATCAAAATTATATTGA
* * *
22801667 AAGTTATTAAAATTTTA-TCA
1 AAGTTATCAAAATTATATTGA
**
22801687 AA---ATCAAAATTATATAAA
1 AAGTTATCAAAATTATATTGA
*
22801705 AAATTATCAAAATT
1 AAGTTATCAAAATT
22801719 TACTTATATT
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
17 10 0.18
18 3 0.05
20 4 0.07
21 39 0.70
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.35
Consensus pattern (21 bp):
AAGTTATCAAAATTATATTGA
Found at i:22801860 original size:2 final size:2
Alignment explanation
Indices: 22801855--22801891 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22801845 AGTGTGTGTG
22801855 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22801892 TCAAAACCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22801961 original size:17 final size:17
Alignment explanation
Indices: 22801941--22801973 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22801931 TTATAAGGAA
22801941 TTTT-ATTTTATAAAAAC
1 TTTTAATTTT-TAAAAAC
22801958 TTTTAATTTTTAAAAA
1 TTTTAATTTTTAAAAA
22801974 TTAGTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAATTTTTAAAAAC
Found at i:22807159 original size:6 final size:6
Alignment explanation
Indices: 22807148--22807173 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22807138 TTTTCTTATA
22807148 CACTTT CACTTT CACTTT CACTTT CA
1 CACTTT CACTTT CACTTT CACTTT CA
22807174 TAAAATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (6 bp):
CACTTT
Found at i:22809553 original size:51 final size:52
Alignment explanation
Indices: 22809498--22809601 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 52
22809488 AATAAGAGAT
22809498 AATAAA-AAATTTTAATACCATC-TTTAAATCTTTTAAAATCATATATATATA
1 AATAAATAAA-TTTAATACCATCTTTTAAATCTTTTAAAATCATATATATATA
* *
22809549 AATAAATAAATTTAATATCATCTTTTAACTCTTTTAAAATCATATATATATA
1 AATAAATAAATTTAATACCATCTTTTAAATCTTTTAAAATCATATATATATA
22809601 A
1 A
22809602 TTTTTAAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
51 17 0.35
52 32 0.65
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (52 bp):
AATAAATAAATTTAATACCATCTTTTAAATCTTTTAAAATCATATATATATA
Found at i:22815028 original size:12 final size:12
Alignment explanation
Indices: 22815008--22815036 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22814998 AATTAAAATA
22815008 TTTTT-TCTTTT
1 TTTTTCTCTTTT
22815019 TTTTTCTCTTTT
1 TTTTTCTCTTTT
22815031 TTTTTC
1 TTTTTC
22815037 AACTAAACGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTCTCTTTT
Found at i:22815848 original size:29 final size:31
Alignment explanation
Indices: 22815789--22815848 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
22815779 AAGCTAATAC
**
22815789 AAATATCATATTAATTAATATATTTGTAATTT
1 AAATATCATATTAA-TAATATATTTAAAATTT
*
22815821 AAATATCATATT-A-AATATTTTTAAAATT
1 AAATATCATATTAATAATATATTTAAAATT
22815849 CATATGTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 12 0.48
31 1 0.04
32 12 0.48
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
AAATATCATATTAATAATATATTTAAAATTT
Found at i:22816241 original size:29 final size:29
Alignment explanation
Indices: 22816178--22816258 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
22816168 ACAATATGTG
* *
22816178 AATATCATATTAATTAATATATTTATAATTCA
1 AATATCATATTAA--AA-ATTTTTAAAATTCA
*
22816210 AATATCATATTAAAAATTTTTAAAATTTA
1 AATATCATATTAAAAATTTTTAAAATTCA
22816239 AATATCATATTAAATAATTT
1 AATATCATATTAAA-AATTT
22816259 ACTATAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
29 25 0.56
30 7 0.16
32 13 0.29
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATATCATATTAAAAATTTTTAAAATTCA
Found at i:22819514 original size:37 final size:36
Alignment explanation
Indices: 22819457--22819526 Score: 122
Period size: 37 Copynumber: 1.9 Consensus size: 36
22819447 AAATAAAACA
*
22819457 TAAAATATTTTATTTAATATTATTATATATAAATTT
1 TAAAATATTTTATTTAATATTATTACATATAAATTT
22819493 TAAAATATATTTATTTAATATTATTACATATAAA
1 TAAAATAT-TTTATTTAATATTATTACATATAAA
22819527 ATTAGTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 8 0.25
37 24 0.75
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (36 bp):
TAAAATATTTTATTTAATATTATTACATATAAATTT
Found at i:22820386 original size:15 final size:15
Alignment explanation
Indices: 22820368--22820451 Score: 53
Period size: 15 Copynumber: 5.4 Consensus size: 15
22820358 TAGACTTTTG
22820368 ATTATTTGAATTTAA
1 ATTATTTGAATTTAA
* * * *
22820383 ATTATTTCAAAATCAG
1 ATTATTT-GAATTTAA
*
22820399 ATTAATTTGAATTTGA
1 ATT-ATTTGAATTTAA
* *
22820415 ATCATTTTAATTTTAA
1 ATTATTTGAA-TTTAA
*
22820431 ATTGA-ATGAATTTAA
1 ATT-ATTTGAATTTAA
22820446 ATTATT
1 ATTATT
22820452 AATTTTTTCA
Statistics
Matches: 48, Mismatches: 16, Indels: 10
0.65 0.22 0.14
Matches are distributed among these distances:
14 1 0.02
15 21 0.44
16 21 0.44
17 5 0.10
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (15 bp):
ATTATTTGAATTTAA
Found at i:22820417 original size:21 final size:21
Alignment explanation
Indices: 22820393--22820437 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22820383 ATTATTTCAA
*
22820393 AATCAGATTAATTTGAATTTG
1 AATCAGATTAATTTGAAATTG
** *
22820414 AATCATTTTAATTTTAAATTG
1 AATCAGATTAATTTGAAATTG
22820435 AAT
1 AAT
22820438 GAATTTAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (21 bp):
AATCAGATTAATTTGAAATTG
Found at i:22820444 original size:21 final size:21
Alignment explanation
Indices: 22820400--22820445 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
22820390 CAAAATCAGA
* *
22820400 TTAATTTGAATTTGAATCATT
1 TTAATTTGAAATTGAATCAAT
* *
22820421 TTAATTTTAAATTGAATGAAT
1 TTAATTTGAAATTGAATCAAT
22820442 TTAA
1 TTAA
22820446 ATTATTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (21 bp):
TTAATTTGAAATTGAATCAAT
Found at i:22823399 original size:21 final size:20
Alignment explanation
Indices: 22823375--22823425 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
22823365 AATCTAAATT
22823375 ATTTTAAATTAAAATTATTGA
1 ATTTTAAATTAAAA-TATTGA
* *
22823396 ATTTTAAAATAAAATATTTA
1 ATTTTAAATTAAAATATTGA
*
22823416 ATTTTGAATT
1 ATTTTAAATT
22823426 TTTTATTAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
ATTTTAAATTAAAATATTGA
Found at i:22823418 original size:20 final size:21
Alignment explanation
Indices: 22823375--22823420 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22823365 AATCTAAATT
*
22823375 ATTTTAAATTAAAATTATTGA
1 ATTTTAAAATAAAATTATTGA
*
22823396 ATTTTAAAATAAAA-TATTTA
1 ATTTTAAAATAAAATTATTGA
22823416 ATTTT
1 ATTTT
22823421 GAATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTTTAAAATAAAATTATTGA
Found at i:22831615 original size:57 final size:57
Alignment explanation
Indices: 22831538--22831967 Score: 327
Period size: 57 Copynumber: 7.4 Consensus size: 57
22831528 TCTTAAAAAA
* *
22831538 TTTTGTTTTAA-AAAAATTGATATCTCAACTATTTTCTC-AA-ATCTTTTTGAAATTAT
1 TTTTATTTTAAGAAAAATTGATATCTTAACT-TTTTCTCAAATATCTTTTTGAAA-TAT
*
22831594 TTTTATTTTAAGAAAAATTGATA-CTTCAA-TTTTTCCTCAAATATTTTTTTGAAATATT
1 TTTTATTTTAAGAAAAATTGATATCTT-AACTTTTT-CTCAAATATCTTTTTGAAATA-T
* * * *
22831652 TTTTATTTAAAG-AAAATTGATATTTTAACTTTTCCTCAAATATTTTTTTGAAATATT
1 TTTTATTTTAAGAAAAATTGATATCTTAACTTTTTCTCAAATATCTTTTTGAAATA-T
* * * *
22831709 TTTTATTTAAAG-AAAATTGATATTTTAAC-TTTTCTTCAAAACAT-TTTTTAAAAATAT
1 TTTTATTTTAAGAAAAATTGATATCTTAACTTTTTC-TC-AAATATCTTTTT-GAAATAT
* * *
22831766 TTTTTTATTTAA-AGAAAATTGATA-CTTAAAATATTTTCTCAAATATATTTTTGAAATAT
1 TTTTAT-TTTAAGA-AAAATTGATATCTT-AACT-TTTTCTCAAATATCTTTTTGAAATAT
* * * *
22831825 TTTT-TTATTAAGGAAAAATTAATATTTTAAC-TTTTCTTCAAAACAT-TTTTTAAAAATAT
1 TTTTATT-TTAA-GAAAAATTGATATCTTAACTTTTTC-TC-AAATATCTTTTT-GAAATAT
* * *
22831884 TTTTTTATTTAA-AGAAAATTGATA-CTTAAAACATTTTCTCAAATATATTTTTGAAATAT
1 TTTTAT-TTTAAGA-AAAATTGATATCTT--AACTTTTTCTCAAATATCTTTTTGAAATAT
*
22831943 TTTT-TTATTAAGGAAAAATTAATAT
1 TTTTATT-TTAA-GAAAAATTGATAT
22831968 TAAAAAATTT
Statistics
Matches: 313, Mismatches: 25, Indels: 68
0.77 0.06 0.17
Matches are distributed among these distances:
55 4 0.01
56 20 0.06
57 101 0.32
58 65 0.21
59 86 0.27
60 26 0.08
61 11 0.04
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (57 bp):
TTTTATTTTAAGAAAAATTGATATCTTAACTTTTTCTCAAATATCTTTTTGAAATAT
Found at i:22831786 original size:59 final size:57
Alignment explanation
Indices: 22831544--22831968 Score: 420
Period size: 59 Copynumber: 7.3 Consensus size: 57
22831534 AAAATTTTGT
* * * *
22831544 TTTAAA-AAAATTGATATCTCAACTATTT-TCTCAAAT-CTTTTTGAAAT-TATTTTTA
1 TTTAAAGAAAATTGATATTTTAACT-TTTCT-TCAAATATTTTTTGAAATATTTTTTTA
* * * * *
22831599 TTTTAAGAAAAATTGATACTTCAATTTTTCCTCAAATATTTTTTTGAAATA-TTTTTTA
1 TTTAAAG-AAAATTGATATTTTAACTTTTCTTCAAATA-TTTTTTGAAATATTTTTTTA
*
22831657 TTTAAAGAAAATTGATATTTTAACTTTTCCTCAAATATTTTTTTGAAATA-TTTTTTA
1 TTTAAAGAAAATTGATATTTTAACTTTTCTTCAAATA-TTTTTTGAAATATTTTTTTA
* *
22831714 TTTAAAGAAAATTGATATTTTAACTTTTCTTCAAAACATTTTTTAAAAATATTTTTTTA
1 TTTAAAGAAAATTGATATTTTAACTTTTCTTC-AAATATTTTTT-GAAATATTTTTTTA
* * *
22831773 TTTAAAGAAAATTGATACTTAAAATATTT-TCTCAAATATATTTTTGAAATATTTTTTTA
1 TTTAAAGAAAATTGATATTTTAACT-TTTCT-TCAAATAT-TTTTTGAAATATTTTTTTA
* * * *
22831832 -TTAAGGAAAAATTAATATTTTAACTTTTCTTCAAAACATTTTTTAAAAATATTTTTTTA
1 TTTAAAG-AAAATTGATATTTTAACTTTTCTTC-AAATATTTTTT-GAAATATTTTTTTA
**
22831891 TTTAAAGAAAATTGATACTTAAAACATTTTC-TCAAATATATTTTTGAAATATTTTTTTA
1 TTTAAAGAAAATTGATA-TTTTAAC-TTTTCTTCAAATAT-TTTTTGAAATATTTTTTTA
* *
22831950 -TTAAGGAAAAATTAATATT
1 TTTAAAG-AAAATTGATATT
22831969 AAAAAATTTT
Statistics
Matches: 315, Mismatches: 34, Indels: 39
0.81 0.09 0.10
Matches are distributed among these distances:
55 5 0.02
56 9 0.03
57 99 0.31
58 53 0.17
59 117 0.37
60 27 0.09
61 5 0.02
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (57 bp):
TTTAAAGAAAATTGATATTTTAACTTTTCTTCAAATATTTTTTGAAATATTTTTTTA
Found at i:22831856 original size:118 final size:118
Alignment explanation
Indices: 22831544--22831968 Score: 566
Period size: 118 Copynumber: 3.7 Consensus size: 118
22831534 AAAATTTTGT
* * *
22831544 TTTAAA-AAAATTGATA-TCTCAACTATTTTCTC-AA-ATCTTTTTGAAATTATTTTTATT-TTA
1 TTTAAAGAAAATTGATACT-TAAAATATTTTCTCAAATATATTTTTGAAA-TATTTTT-TTATTA
* * * * * * **
22831604 A-GAAAAATTGATACTTCAATTTTTCCTC-AAATATTTTTTTGAAATA-TTTTTTA
63 AGGAAAAATTAATATTTTAACTTTTCTTCAAAACATTTTTTAAAAATATTTTTTTA
* * * * * *
22831657 TTTAAAGAAAATTGATATTTTAACT-TTTCCTCAAATATTTTTTTGAAATA-TTTTTTATTTAAA
1 TTTAAAGAAAATTGATACTTAAAATATTTTCTCAAATATATTTTTGAAATATTTTTTTA-TTAAG
*
22831720 G-AAAATTGATATTTTAACTTTTCTTCAAAACATTTTTTAAAAATATTTTTTTA
65 GAAAAATTAATATTTTAACTTTTCTTCAAAACATTTTTTAAAAATATTTTTTTA
22831773 TTTAAAGAAAATTGATACTTAAAATATTTTCTCAAATATATTTTTGAAATATTTTTTTATTAAGG
1 TTTAAAGAAAATTGATACTTAAAATATTTTCTCAAATATATTTTTGAAATATTTTTTTATTAAGG
22831838 AAAAATTAATATTTTAACTTTTCTTCAAAACATTTTTTAAAAATATTTTTTTA
66 AAAAATTAATATTTTAACTTTTCTTCAAAACATTTTTTAAAAATATTTTTTTA
*
22831891 TTTAAAGAAAATTGATACTTAAAACATTTTCTCAAATATATTTTTGAAATATTTTTTTATTAAGG
1 TTTAAAGAAAATTGATACTTAAAATATTTTCTCAAATATATTTTTGAAATATTTTTTTATTAAGG
22831956 AAAAATTAATATT
66 AAAAATTAATATT
22831969 AAAAAATTTT
Statistics
Matches: 282, Mismatches: 18, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
112 2 0.01
113 16 0.06
114 44 0.16
115 28 0.10
116 29 0.10
117 28 0.10
118 135 0.48
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (118 bp):
TTTAAAGAAAATTGATACTTAAAATATTTTCTCAAATATATTTTTGAAATATTTTTTTATTAAGG
AAAAATTAATATTTTAACTTTTCTTCAAAACATTTTTTAAAAATATTTTTTTA
Found at i:22833018 original size:6 final size:6
Alignment explanation
Indices: 22833009--22833038 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
22832999 AAGAAAAAAT
22833009 AATAAA AATAAA AATAAA AAT-AA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
22833039 TGATAAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:22833024 original size:12 final size:11
Alignment explanation
Indices: 22832995--22833038 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
22832985 ATAAATTAGG
*
22832995 ATAAAAGAAAA
1 ATAAAATAAAA
*
22833006 A-ATAATAAAA
1 ATAAAATAAAA
22833016 ATAAAAATAAAA
1 AT-AAAATAAAA
22833028 ATAAAATAAAA
1 ATAAAATAAAA
22833039 TGATAAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 8 0.29
11 10 0.36
12 10 0.36
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:22834340 original size:18 final size:18
Alignment explanation
Indices: 22834313--22834348 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22834303 ACATCTAATA
22834313 TGCTCAGTCATCTATTCT
1 TGCTCAGTCATCTATTCT
*
22834331 TGCTCTGTCATCTATTCT
1 TGCTCAGTCATCTATTCT
22834349 GTTAGATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.28, G:0.11, T:0.47
Consensus pattern (18 bp):
TGCTCAGTCATCTATTCT
Found at i:22848702 original size:5 final size:6
Alignment explanation
Indices: 22848669--22848716 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
22848659 TGATTTTTAG
* * *
22848669 GAAAAT GAAAAA -AATAA CAAAAA GAAAAA GAAAAA GAAAAA GACAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GA-AAAA
22848717 CTCAATCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
5 4 0.11
6 28 0.78
7 4 0.11
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.04
Consensus pattern (6 bp):
GAAAAA
Found at i:22850249 original size:25 final size:27
Alignment explanation
Indices: 22850219--22850268 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
22850209 AAAATTTAAA
*
22850219 CCAAACCCT-AA-CCTAAAGTCTAACT
1 CCAAACCCTAAACCCTAAACTCTAACT
22850244 CCAAACCCTAAACCCTAAACTCTAA
1 CCAAACCCTAAACCCTAAACTCTAA
22850269 ATCTAACTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.41
26 2 0.09
27 11 0.50
ACGTcount: A:0.42, C:0.38, G:0.02, T:0.18
Consensus pattern (27 bp):
CCAAACCCTAAACCCTAAACTCTAACT
Found at i:22850256 original size:7 final size:7
Alignment explanation
Indices: 22850246--22850380 Score: 51
Period size: 7 Copynumber: 20.4 Consensus size: 7
22850236 GTCTAACTCC
22850246 AAACCCT
1 AAACCCT
22850253 AAACCCT
1 AAACCCT
*
22850260 AAACTCT
1 AAACCCT
*
22850267 AAA-TCT
1 AAACCCT
22850273 -AACTCC-
1 AAAC-CCT
22850279 AAACCCTT
1 AAACCC-T
*
22850287 AAATCCT
1 AAACCCT
*
22850294 AAA-ACT
1 AAACCCT
22850300 AAACTCC-
1 AAAC-CCT
*
22850307 AAACTCT
1 AAACCCT
**
22850314 AAA-TGT
1 AAACCCT
22850320 -AACCCT
1 AAACCCT
22850326 AAACCCT
1 AAACCCT
22850333 AAA-CC-
1 AAACCCT
**
22850338 AAACATT
1 AAACCCT
22850345 AAACCCT
1 AAACCCT
*
22850352 AAA-TC-
1 AAACCCT
22850357 AAACCCT
1 AAACCCT
22850364 AAACTCC-
1 AAAC-CCT
*
22850371 AAACCTT
1 AAACCCT
22850378 AAA
1 AAA
22850381 ATAAATCCTA
Statistics
Matches: 96, Mismatches: 16, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
5 10 0.10
6 19 0.20
7 59 0.61
8 8 0.08
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:22850278 original size:33 final size:34
Alignment explanation
Indices: 22850221--22850302 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 34
22850211 AATTTAAACC
22850221 AAACCCT-AACCTAAAGTCTAACTCCAAACCC-T
1 AAACCCTAAACCTAAAGTCTAACTCCAAACCCTT
22850253 AAACCCTAAACTCTAAA-TCTAACTCCAAACCCTT
1 AAACCCTAAAC-CTAAAGTCTAACTCCAAACCCTT
* *
22850287 AAATCCTAAAACTAAA
1 AAACCCTAAACCTAAA
22850303 CTCCAAACTC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
32 7 0.16
33 23 0.51
34 15 0.33
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (34 bp):
AAACCCTAAACCTAAAGTCTAACTCCAAACCCTT
Found at i:22850289 original size:27 final size:27
Alignment explanation
Indices: 22850253--22850317 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
22850243 TCCAAACCCT
*
22850253 AAACCCTAAA-CTCTAAATCT-AACTCC
1 AAACCCTAAATC-CTAAAACTAAACTCC
22850279 AAACCCTTAAATCCTAAAACTAAACTCC
1 AAACCC-TAAATCCTAAAACTAAACTCC
*
22850307 AAACTCTAAAT
1 AAACCCTAAAT
22850318 GTAACCCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 6 0.18
27 16 0.47
28 12 0.35
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (27 bp):
AAACCCTAAATCCTAAAACTAAACTCC
Found at i:22850334 original size:19 final size:19
Alignment explanation
Indices: 22850278--22850367 Score: 74
Period size: 19 Copynumber: 4.6 Consensus size: 19
22850268 AATCTAACTC
* *
22850278 CAAACCCTTAAATCCTAAAA
1 CAAACCC-TAAACCCTAAAT
*
22850298 CTAAACTCC-AAACTCTAAAT
1 C-AAAC-CCTAAACCCTAAAT
** *
22850318 GTAACCCTAAACCCTAAAC
1 CAAACCCTAAACCCTAAAT
**
22850337 CAAACATTAAACCCTAAAT
1 CAAACCCTAAACCCTAAAT
22850356 CAAACCCTAAAC
1 CAAACCCTAAAC
22850368 TCCAAACCTT
Statistics
Matches: 53, Mismatches: 14, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
18 2 0.04
19 36 0.68
20 9 0.17
21 4 0.08
22 2 0.04
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (19 bp):
CAAACCCTAAACCCTAAAT
Found at i:22850355 original size:38 final size:36
Alignment explanation
Indices: 22850307--22850406 Score: 96
Period size: 38 Copynumber: 2.6 Consensus size: 36
22850297 ACTAAACTCC
*
22850307 AAACTCTAAATGTAACCCTAAAC-CCTAAACC-AAACATT
1 AAACCCTAAAT-TAACCCTAAACTCC-AAACCTAAA-A-T
*
22850345 AAACCCTAAATCAAACCCTAAACTCCAAACCTTAAAAT
1 AAACCCTAAAT-TAACCCTAAACTCCAAACC-TAAAAT
*
22850383 AAATCCTAAATTAAACCCTAAACT
1 AAACCCTAAATT-AACCCTAAACT
22850407 AAAATCCTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
38 47 0.89
39 3 0.06
40 3 0.06
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (36 bp):
AAACCCTAAATTAACCCTAAACTCCAAACCTAAAAT
Found at i:22850404 original size:19 final size:19
Alignment explanation
Indices: 22850279--22850404 Score: 57
Period size: 19 Copynumber: 6.5 Consensus size: 19
22850269 ATCTAACTCC
*
22850279 AAACCCTTAAATCCTAAAACT
1 AAACCC-TAAATCCT-AAATT
22850300 AAACTCC-AAA-CTCTAAATGT
1 AAAC-CCTAAATC-CTAAAT-T
* **
22850320 -AACCCTAAACCCTAAACC
1 AAACCCTAAATCCTAAATT
** * *
22850338 AAACATTAAACCCTAAATC
1 AAACCCTAAATCCTAAATT
22850357 AAACCCTAAACTCC-AAACCTT
1 AAACCCTAAA-TCCTAAA--TT
*
22850378 AAA--ATAAATCCTAAATT
1 AAACCCTAAATCCTAAATT
22850395 AAACCCTAAA
1 AAACCCTAAA
22850405 CTAAAATCCT
Statistics
Matches: 81, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
17 5 0.06
18 5 0.06
19 52 0.64
20 9 0.11
21 8 0.10
22 2 0.02
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (19 bp):
AAACCCTAAATCCTAAATT
Found at i:22850409 original size:12 final size:12
Alignment explanation
Indices: 22850344--22850429 Score: 66
Period size: 12 Copynumber: 6.9 Consensus size: 12
22850334 AACCAAACAT
22850344 TAAACCCTAAA-
1 TAAACCCTAAAC
22850355 TCAAACCCTAAAC
1 T-AAACCCTAAAC
* *
22850368 TCCAAACCTTAAAA
1 T--AAACCCTAAAC
* *
22850382 TAAATCCTAAAT
1 TAAACCCTAAAC
22850394 TAAACCCTAAAC
1 TAAACCCTAAAC
* *
22850406 TAAAATCCTAACC
1 T-AAACCCTAAAC
*
22850419 AAAACCCTAAA
1 TAAACCCTAAA
22850430 AGCTAACATT
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
11 1 0.02
12 37 0.63
13 10 0.17
14 11 0.19
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAACCCTAAAC
Found at i:22851486 original size:18 final size:18
Alignment explanation
Indices: 22851463--22851498 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22851453 CTTAAAAGAA
* *
22851463 AAATGATTTTGAAGGAAT
1 AAATGAATTTCAAGGAAT
22851481 AAATGAATTTCAAGGAAT
1 AAATGAATTTCAAGGAAT
22851499 TAATTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (18 bp):
AAATGAATTTCAAGGAAT
Found at i:22852194 original size:17 final size:16
Alignment explanation
Indices: 22852158--22852201 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
22852148 TTTTAAATTT
*
22852158 TTTAAAA-AAAAGTGA
1 TTTAAAAGAAAAATGA
22852173 TTTAAAAGAAAAATGA
1 TTTAAAAGAAAAATGA
22852189 TATTAAAGAGAAA
1 T-TTAAA-AGAAA
22852202 TATGCAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 5 0.20
18 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (16 bp):
TTTAAAAGAAAAATGA
Found at i:22852200 original size:18 final size:17
Alignment explanation
Indices: 22852164--22852201 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
22852154 ATTTTTTAAA
22852164 AAAAAGTGATTTAAAAG
1 AAAAAGTGATTTAAAAG
22852181 AAAAA-TGATATTAAAGAG
1 AAAAAGTGAT-TTAAA-AG
22852199 AAA
1 AAA
22852202 TATGCAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 10 0.53
18 5 0.26
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (17 bp):
AAAAAGTGATTTAAAAG
Found at i:22852619 original size:21 final size:20
Alignment explanation
Indices: 22852593--22852632 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22852583 ATATTTTCAA
*
22852593 TAAAAATTATATTTTTTATTT
1 TAAAAA-TATAATTTTTATTT
22852614 TAAAAATATAATTTTTATT
1 TAAAAATATAATTTTTATT
22852633 AAATTCCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAAAAATATAATTTTTATTT
Found at i:22854274 original size:24 final size:22
Alignment explanation
Indices: 22854244--22854313 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 22
22854234 TATTATCTAA
22854244 ATTTTAAAAAATATAATTTTTAT
1 ATTTTAAAAAATATAATTTTT-T
* *
22854267 ATTTTTAATAAATATAGTATTTTT
1 A-TTTTAAAAAATATAAT-TTTTT
22854291 ATTTT-AAAAATATAAATTTTTT
1 ATTTTAAAAAATAT-AATTTTTT
22854313 A
1 A
22854314 ACAAAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 13 0.32
23 7 0.17
24 16 0.40
25 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (22 bp):
ATTTTAAAAAATATAATTTTTT
Found at i:22854347 original size:20 final size:21
Alignment explanation
Indices: 22854250--22854347 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 21
22854240 CTAAATTTTA
* *
22854250 AAAAATATAATTTTTATATTTTT
1 AAAAATATACTTTTT-TA-TATT
* *
22854273 AATAAATATAGTATTTTTATTTT
1 AA-AAATATACT-TTTTTATATT
* *
22854296 AAAAATATAAATTTTTTA-A-C
1 AAAAATAT-ACTTTTTTATATT
22854316 AAAAAT-TACTTTTTTATATT
1 AAAAATATACTTTTTTATATT
22854336 AAAAATAT-CTTT
1 AAAAATATACTTT
22854348 ATTAAATTCT
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
18 8 0.13
19 2 0.03
20 16 0.25
21 1 0.02
22 12 0.19
23 10 0.16
24 10 0.16
25 4 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (21 bp):
AAAAATATACTTTTTTATATT
Found at i:22854433 original size:76 final size:76
Alignment explanation
Indices: 22854349--22854493 Score: 195
Period size: 77 Copynumber: 1.9 Consensus size: 76
22854339 AATATCTTTA
* * * * *
22854349 TTAAATTCTGAAA-AT-TATATTTTTTTTTATGTTTTTAATAAATACTATATTTTATATCTTAAA
1 TTAAATTCTAAAACATATATA-TATTTTTTATGTTTTCAACAAACACTATATTTT-TATCTTAAA
22854412 AATATTATATTTG
64 AATATTATATTTG
* *
22854425 TTAAATTCTAAAACATATATATATTTTTTATGTTTTCAACAAACATTATGTTTTTATCTTAAAAA
1 TTAAATTCTAAAACATATATATATTTTTTATGTTTTCAACAAACACTATATTTTTATCTTAAAAA
22854490 TATT
66 TATT
22854494 GCATTTTCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
76 27 0.45
77 29 0.48
78 4 0.07
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (76 bp):
TTAAATTCTAAAACATATATATATTTTTTATGTTTTCAACAAACACTATATTTTTATCTTAAAAA
TATTATATTTG
Found at i:22854695 original size:71 final size:71
Alignment explanation
Indices: 22854614--22854761 Score: 174
Period size: 72 Copynumber: 2.1 Consensus size: 71
22854604 AAAAATTACT
* ** *
22854614 TTTTTATTTAAAAAACCT-TTTTTGTTAAAATCTAAAAAATAATTTTTT-TCATTTTTTAACAAA
1 TTTTTATTTAAAAAACCTATTTTTGTTAAAATATAAAAAAT-ATTTTTTAAAATTTTTCAACAAA
22854677 AATCATA
65 AATCATA
** * *
22854684 TTTTTATTTTAAAAAAGTTATTTTTGTTGAATTATAAAAAATATTTTTTAAAATTTTTCAACAAA
1 TTTTTA-TTTAAAAAACCTATTTTTGTTAAAATATAAAAAATATTTTTTAAAATTTTTCAACAAA
* *
22854749 AATCGTG
65 AATCATA
22854756 TTTTTA
1 TTTTTA
22854762 ATCATAACAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
70 6 0.09
71 17 0.26
72 42 0.65
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (71 bp):
TTTTTATTTAAAAAACCTATTTTTGTTAAAATATAAAAAATATTTTTTAAAATTTTTCAACAAAA
ATCATA
Found at i:22855446 original size:26 final size:25
Alignment explanation
Indices: 22855399--22855456 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
22855389 AAAAATTTTA
**
22855399 AAATAATTTTATTAATTTAATATAAT
1 AAATAATTTTATTAATACAATA-AAT
22855425 AAATAACTTTTATT-ATACAATAAAT
1 AAATAA-TTTTATTAATACAATAAAT
22855450 AATATAA
1 AA-ATAA
22855457 AATATTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.18
26 16 0.57
27 7 0.25
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (25 bp):
AAATAATTTTATTAATACAATAAAT
Found at i:22859719 original size:76 final size:76
Alignment explanation
Indices: 22859628--22859775 Score: 269
Period size: 76 Copynumber: 1.9 Consensus size: 76
22859618 TATAAAATAT
*
22859628 GGTTTACCTCCAATGGGGCTGCGCCTAGAAACATAAAAATAATTATAACAGGTTGCACTAATCCC
1 GGTTTACCTCCAATGGGGCTGCACCTAGAAACATAAAAATAATTATAACAGGTTGCACTAATCCC
22859693 AACCAAAAAAC
66 AACCAAAAAAC
* *
22859704 GGTTTACCTCCAATGGGGCTGCACCTAGGAATATAAAAATAATTATAACAGGTTGCACTAATCCC
1 GGTTTACCTCCAATGGGGCTGCACCTAGAAACATAAAAATAATTATAACAGGTTGCACTAATCCC
22859769 AACCAAA
66 AACCAAA
22859776 TAGCCAACTA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (76 bp):
GGTTTACCTCCAATGGGGCTGCACCTAGAAACATAAAAATAATTATAACAGGTTGCACTAATCCC
AACCAAAAAAC
Found at i:22865957 original size:3 final size:3
Alignment explanation
Indices: 22865949--22866005 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
22865939 TATTTAGCTA
*
22865949 TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
22865997 TGT TAT TAT
1 TAT TAT TAT
22866006 AAAAACATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:22869729 original size:71 final size:76
Alignment explanation
Indices: 22869647--22869802 Score: 202
Period size: 74 Copynumber: 2.1 Consensus size: 76
22869637 ATAATATATA
* *
22869647 TTTAAGAATTTAACAAAAAT-AACATTTCT-A-A-AAAAAATGTGGTATT-TGTTGAAAATATAA
1 TTTAAGAATTTAACAAAAATGAA-ATTTCTAAGATAAAAAATATGAT-TTATGTTGAAAATATAA
22869707 AAAT-ATT-ATTT
64 AAATAATTAATTT
* *
22869718 TTTAAGAATTTAACAAAAATGAAGTTTTTAAGATAAAAAATATGATTTATGTTGAAAATATAAAA
1 TTTAAGAATTTAACAAAAATGAAATTTCTAAGATAAAAAATATGATTTATGTTGAAAATATAAAA
22869783 ATAATTAATTT
66 ATAATTAATTT
22869794 TTTAA-AATT
1 TTTAAGAATT
22869803 CTTTAGTTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
71 24 0.32
72 3 0.04
73 3 0.04
74 28 0.38
75 7 0.09
76 9 0.12
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (76 bp):
TTTAAGAATTTAACAAAAATGAAATTTCTAAGATAAAAAATATGATTTATGTTGAAAATATAAAA
ATAATTAATTT
Found at i:22870743 original size:2 final size:2
Alignment explanation
Indices: 22870736--22870763 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22870726 GATGTTGATG
22870736 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
22870764 GCACTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22877892 original size:2 final size:2
Alignment explanation
Indices: 22877885--22877910 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22877875 TCTCAGTCGC
22877885 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
22877911 TTAACTATTG
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22888194 original size:58 final size:57
Alignment explanation
Indices: 22888110--22888221 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 57
22888100 TATTTATTTT
*
22888110 AATTTAATATAAATATATAAATATTATTTTAAACT-TTTAATTATAATACATAATTACA
1 AATTTAAAATAAATATATAAATATTATTTTAAA-TATTTAATTATAATACA-AATTACA
*
22888168 AATTTAAAAT-AATCATATGAAA-ATTATTTTAAATATTTAATTATCATACAAATT
1 AATTTAAAATAAAT-ATAT-AAATATTATTTTAAATATTTAATTATAATACAAATT
22888222 TAATATGCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
57 8 0.16
58 38 0.78
59 3 0.06
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (57 bp):
AATTTAAAATAAATATATAAATATTATTTTAAATATTTAATTATAATACAAATTACA
Found at i:22888811 original size:16 final size:16
Alignment explanation
Indices: 22888792--22888823 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22888782 TTTCATATCG
*
22888792 TTTTAATTTTAAATTA
1 TTTTAAATTTAAATTA
22888808 TTTTAAATTTAAATTA
1 TTTTAAATTTAAATTA
22888824 ATTTGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAATTTAAATTA
Found at i:22888832 original size:16 final size:16
Alignment explanation
Indices: 22888793--22888832 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
22888783 TTCATATCGT
* *
22888793 TTTAATTTTAAATTAT
1 TTTAAATTTAAATTAA
22888809 TTTAAATTTAAATTAA
1 TTTAAATTTAAATTAA
*
22888825 TTTGAATT
1 TTTAAATT
22888833 ATAATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTAAATTTAAATTAA
Found at i:22892010 original size:2 final size:2
Alignment explanation
Indices: 22892005--22892033 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22891995 CTTCTTCCCT
22892005 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22892034 GGCGGCATGT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:22892446 original size:122 final size:124
Alignment explanation
Indices: 22892283--22892514 Score: 317
Period size: 123 Copynumber: 1.9 Consensus size: 124
22892273 ACTTTTAACT
* *
22892283 ACTACTAGTTTTGAGTTAGTATTGTCATACCCTTGGTATATTTTGCCACTTCAAATTGTC-GCTA
1 ACTACTAGTTTTGAGTTAGTATTGTCATACCCTTGGTATATTATGCCACTTCAAATTATCTGCTA
** *
22892347 TAGGTAAATTTTTGGATGGTCAACCACTTT-GATTTACTGATTGCATTGGCACTTTATCC
66 TAGACAAATTTTTGGATGGTCAACCA-TTTCAATTTACTGATTGCATTGGCACTTTATCC
* ** * * *
22892406 ACTACTAGTTTT-AGTTATTATTGTTGTACCTTTGTTATATTATGCCACTTCAATTTATCTGCTA
1 ACTACTAGTTTTGAGTTAGTATTGTCATACCCTTGGTATATTATGCCACTTCAAATTATCTGCTA
* *
22892470 TAGACAAATTTTTGGATGGTCAATCATTTCAATTTACTTATTGCA
66 TAGACAAATTTTTGGATGGTCAACCATTTCAATTTACTGATTGCA
22892515 ATACACTTAG
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
122 42 0.45
123 52 0.55
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (124 bp):
ACTACTAGTTTTGAGTTAGTATTGTCATACCCTTGGTATATTATGCCACTTCAAATTATCTGCTA
TAGACAAATTTTTGGATGGTCAACCATTTCAATTTACTGATTGCATTGGCACTTTATCC
Found at i:22897375 original size:19 final size:19
Alignment explanation
Indices: 22897335--22897377 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22897325 TTAATATTAA
* *
22897335 AATATTTAATCAATAATTT
1 AATATTAAATCAATAATAT
22897354 AATATTAAATCAA-AATGAT
1 AATATTAAATCAATAAT-AT
22897373 AATAT
1 AATAT
22897378 CAAAAACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
AATATTAAATCAATAATAT
Found at i:22898531 original size:152 final size:155
Alignment explanation
Indices: 22898225--22898523 Score: 424
Period size: 154 Copynumber: 1.9 Consensus size: 155
22898215 ATTTTTAATT
* * *
22898225 GATTTAAATTTAAATAACTAACGAATAAAAAATTATATATTTAATGATAAATAATCATTATTAAA
1 GATTTAAATTTAAATAACTAACGAATAAAAAACTATATATTTAATAACAAATAATCATTATTAAA
* * *
22898290 TAAATAAATAATGCTAGAAATTGAAATATAAATTTGTTATTTTTTAAAAATTTATAAAGGTATTT
66 TAAATAAATAATGCTAAAAATTGAAAGATAAATTTGTTATTTCTTAAAAATTTATAAAGGTATTT
* *
22898355 ATGTTATTCATTTTTAACACTTTTA
131 ATATCATTCATTTTTAACACTTTTA
* * * * *
22898380 GATTTAAATTTAAATAACTAACTAAT-AAAAGCTATATTTTTAATAACAAATAATCTTTTTTAAA
1 GATTTAAATTTAAATAACTAACGAATAAAAAACTATATATTTAATAACAAATAATCATTATTAAA
* * *
22898444 TAAATAAA-AATGCTAAAAATTTAAAGGTAAATTTGTTATTTCTT-AAAATTTATAAGGGTATTT
66 TAAATAAATAATGCTAAAAATTGAAAGATAAATTTGTTATTTCTTAAAAATTTATAAAGGTATTT
*
22898507 ATATCGTTCATTTTTAA
131 ATATCATTCATTTTTAA
22898524 TATTTTTAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
152 32 0.25
153 31 0.24
154 39 0.31
155 25 0.20
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (155 bp):
GATTTAAATTTAAATAACTAACGAATAAAAAACTATATATTTAATAACAAATAATCATTATTAAA
TAAATAAATAATGCTAAAAATTGAAAGATAAATTTGTTATTTCTTAAAAATTTATAAAGGTATTT
ATATCATTCATTTTTAACACTTTTA
Found at i:22898583 original size:2 final size:2
Alignment explanation
Indices: 22898576--22898601 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22898566 AGATAGATGC
22898576 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
22898602 ATTTTTCCAT
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):
TA
Found at i:22902535 original size:19 final size:19
Alignment explanation
Indices: 22902513--22902549 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22902503 TATTTAGTAT
22902513 TATTCAAATTTATTTAAAA
1 TATTCAAATTTATTTAAAA
*
22902532 TATTCAAATTTGTTTAAA
1 TATTCAAATTTATTTAAA
22902550 TTGATAAGAG
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:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (19 bp):
TATTCAAATTTATTTAAAA
Found at i:22903535 original size:23 final size:24
Alignment explanation
Indices: 22903504--22903548 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
22903494 GTTGATAAAT
* *
22903504 TATATTTTTTATTT-TGAAATTTC
1 TATACTTTTAATTTATGAAATTTC
22903527 TATACTTTTAATTTATGAAATT
1 TATACTTTTAATTTATGAAATT
22903549 AAAAATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
TATACTTTTAATTTATGAAATTTC
Found at i:22906096 original size:23 final size:23
Alignment explanation
Indices: 22906047--22906098 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
22906037 GTGAGATGTC
*
22906047 AATTTTTTCTTTATGGAGAATTT
1 AATTTTTTCTTTATGGAGAATTA
* *
22906070 AATTTTTT-TTTATAGGGGTATTA
1 AATTTTTTCTTTAT-GGAGAATTA
22906093 AATTTT
1 AATTTT
22906099 GAAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (23 bp):
AATTTTTTCTTTATGGAGAATTA
Found at i:22914827 original size:1 final size:1
Alignment explanation
Indices: 22914821--22914847 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
22914811 TCAATATTAG
22914821 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
22914848 ACTTTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Done.