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 13 of 126
Found at i:3085551 original size:19 final size:20
Alignment explanation
Indices: 3085513--3085551 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3085503 AGACAAATGC
3085513 AAGTGTTGAATCTTAGAAGA
1 AAGTGTTGAATCTTAGAAGA
3085533 AAGT-TTGAAGTCTTA-AAGA
1 AAGTGTTGAA-TCTTAGAAGA
3085552 TAAAAGAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (20 bp):
AAGTGTTGAATCTTAGAAGA
Found at i:3086777 original size:245 final size:245
Alignment explanation
Indices: 3086464--3086957 Score: 952
Period size: 245 Copynumber: 2.0 Consensus size: 245
3086454 AATGTTTTTC
*
3086464 CTTGAATTGGCATGAAGCAAACTCCTCTGCATATGTTAGTTCACATGATGAATCTTCTTTATGGC
1 CTTGAATTGGCATGAAGCAAACTCCTCTGCATATGATAGTTCACATGATGAATCTTCTTTATGGC
3086529 ATAAAAAAGATAGGACATTTCAACTACAATGCATTGAATTTCATGCATAAAAATGATCTTGTATT
66 ATAAAAAAGATAGGACATTTCAACTACAATGCATTGAATTTCATGCATAAAAATGATCTTGTATT
3086594 AAACATGCCTACTGTTGAAGTCAGTGCTGGAGTGTGTGAAGTCTGCCAGCTAGAAAAACAAAGTA
131 AAACATGCCTACTGTTGAAGTCAGTGCTGGAGTGTGTGAAGTCTGCCAGCTAGAAAAACAAAGTA
* * *
3086659 AGTTGCCATTTGTAATTAACAAAGCATTGAGGGCAACTGAAAAACTACAA
196 AGTTACCATTGGTAATTAACAAAGCATTGAAGGCAACTGAAAAACTACAA
3086709 CTTGAATTGGCATGAAGCAAACTCCTCTGCATATGATAGTTCACATGATGAATCTTCTTTATGGC
1 CTTGAATTGGCATGAAGCAAACTCCTCTGCATATGATAGTTCACATGATGAATCTTCTTTATGGC
3086774 ATAAAAAAGATAGGACATTTCAACTACAATGCATTGAATTTCATGCATAAAAATGATCTTGTATT
66 ATAAAAAAGATAGGACATTTCAACTACAATGCATTGAATTTCATGCATAAAAATGATCTTGTATT
3086839 AAACATGCCTACTGTTGAAGTCAGTGCTGGAGTGTGTGAAGTCTGCCAGCTAGAAAAACAAAGTA
131 AAACATGCCTACTGTTGAAGTCAGTGCTGGAGTGTGTGAAGTCTGCCAGCTAGAAAAACAAAGTA
3086904 AGTTACCATTGGTAATTAACAAAGCATTGAAGGCAACTGAAAAACTACAA
196 AGTTACCATTGGTAATTAACAAAGCATTGAAGGCAACTGAAAAACTACAA
3086954 CTTG
1 CTTG
3086958 TTCATATTAA
Statistics
Matches: 245, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
245 245 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (245 bp):
CTTGAATTGGCATGAAGCAAACTCCTCTGCATATGATAGTTCACATGATGAATCTTCTTTATGGC
ATAAAAAAGATAGGACATTTCAACTACAATGCATTGAATTTCATGCATAAAAATGATCTTGTATT
AAACATGCCTACTGTTGAAGTCAGTGCTGGAGTGTGTGAAGTCTGCCAGCTAGAAAAACAAAGTA
AGTTACCATTGGTAATTAACAAAGCATTGAAGGCAACTGAAAAACTACAA
Found at i:3090033 original size:4 final size:4
Alignment explanation
Indices: 3090024--3090064 Score: 66
Period size: 4 Copynumber: 10.2 Consensus size: 4
3090014 GCCCAAAGAC
3090024 TTAT TTAT TTAT TTAT ATTAT TTA- TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT -TTAT TTAT TTAT TTAT TTAT TTAT T
3090065 CTTTCTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 3 0.09
4 28 0.80
5 4 0.11
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:3091424 original size:19 final size:17
Alignment explanation
Indices: 3091379--3091458 Score: 74
Period size: 17 Copynumber: 4.7 Consensus size: 17
3091369 CTGTTGCAAC
* **
3091379 TTGCAAATCATGTTTTG
1 TTGCAAACCATGTGCTG
*
3091396 TTACAAACCATGTGCTG
1 TTGCAAACCATGTGCTG
* *
3091413 TTTTCGAAACCATGTTCTG
1 -TTGC-AAACCATGTGCTG
3091432 TTGCAAACCATGTGC--
1 TTGCAAACCATGTGCTG
3091447 TTGCAAACCATG
1 TTGCAAACCATG
3091459 GGAGGGGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
15 12 0.23
17 23 0.43
18 6 0.11
19 12 0.23
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (17 bp):
TTGCAAACCATGTGCTG
Found at i:3092218 original size:59 final size:56
Alignment explanation
Indices: 3092155--3092266 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 56
3092145 AAAAATTTGA
3092155 AAAAATATTTTTGAA-AGAAAGTT-AAATGTATCAATTTCCTTTAAACATAAACAAAAAAT
1 AAAAATATTTTTGAAGA-AAAGTTGAAA-GTATCAATTTCC-TTAAA-AT-AACAAAAAAT
* * *
3092214 AAAAATATTTTTGGAGAAAAGTTGAAAGTATCACTTTTCTTAAAATAACAAAA
1 AAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTCCTTAAAATAACAAAA
3092267 CTTTAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
56 7 0.15
57 2 0.04
58 5 0.10
59 30 0.62
60 4 0.08
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (56 bp):
AAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTCCTTAAAATAACAAAAAAT
Found at i:3092386 original size:74 final size:73
Alignment explanation
Indices: 3092308--3092447 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 73
3092298 AAAATTAAAA
* * * *
3092308 AAAAAAACATTTTAAGGAAAATTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTATAAAATA
1 AAAAAAA-ATTTTAAGAAAAAATTAAAAGTATCAATTTTTCTTAAAAATAAAATTTTAGAAAA-A
3092372 AAAATTTTTT
64 AAAATTTTTT
* * * * *
3092382 AAAAATATTTTTGAGAAAAAATTAAAAGTATCAATTTTTCTTGAAATTAAAATTTTAGAAAAAAA
1 AAAAAAAATTTTAAGAAAAAATTAAAAGTATCAATTTTTCTTAAAAATAAAATTTTAGAAAAAAA
3092447 A
66 A
3092448 GCATTTTTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
73 38 0.68
74 18 0.32
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (73 bp):
AAAAAAAATTTTAAGAAAAAATTAAAAGTATCAATTTTTCTTAAAAATAAAATTTTAGAAAAAAA
AATTTTTT
Found at i:3103131 original size:4 final size:4
Alignment explanation
Indices: 3103122--3103159 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
3103112 GCCCAAATAC
3103122 TTAT TTAT TTATT TTAT ATTAT TTA- TTAT TTAT TTAT T
1 TTAT TTAT TTA-T TTAT -TTAT TTAT TTAT TTAT TTAT T
3103160 CTTTCTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.10
4 20 0.65
5 8 0.26
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:3103502 original size:9 final size:10
Alignment explanation
Indices: 3103474--3103501 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3103464 AGCATTCTTA
3103474 AAAATTTTTC
1 AAAATTTTTC
3103484 AAAATTTTTC
1 AAAATTTTTC
3103494 AAAATTTT
1 AAAATTTT
3103502 CGCTTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (10 bp):
AAAATTTTTC
Found at i:3104001 original size:4 final size:4
Alignment explanation
Indices: 3103988--3104027 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
3103978 TTCTTTTAAT
3103988 TTTA -TTA TTTA TTTA -TTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
3104028 AAATTGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 6 0.18
4 28 0.82
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:3104004 original size:11 final size:11
Alignment explanation
Indices: 3103988--3104028 Score: 73
Period size: 11 Copynumber: 3.6 Consensus size: 11
3103978 TTCTTTTAAT
3103988 TTTATTATTTA
1 TTTATTATTTA
3103999 TTTATTATTTA
1 TTTATTATTTA
3104010 TTTATTTATTTA
1 TTTA-TTATTTA
3104022 TTTATTA
1 TTTATTA
3104029 AATTGAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:3104362 original size:61 final size:62
Alignment explanation
Indices: 3104289--3104464 Score: 182
Period size: 61 Copynumber: 2.9 Consensus size: 62
3104279 AAAAATTTTC
* * * *
3104289 AAAAAATATTTTTGAGAAAAAATTAAAAGTATCAATTTTTCTTGAAATTAAAATTTTA-GAA
1 AAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAATTAAAATATTATCAA
* * * * *
3104350 AAAAAATATTTTTGAGGAAAAGTTGGAAGTACCAA-TTTTCTTTAAAAATAAAA-ATTATCAA
1 AAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTC-TTAAAATTAAAATATTATCAA
* * *
3104411 GAAAAATATTTTT-A-AAGAAAAGTTGAAACTATCAATTTTTCTTAAAATAAAAAT
1 AAAAAATATTTTTGAGAA-AAAA-TTGAAAGTATCAATTTTTCTTAAAATTAAAAT
3104465 CTCCAAATGC
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
59 1 0.01
60 12 0.13
61 74 0.80
62 5 0.05
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (62 bp):
AAAAAATATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAATTAAAATATTATCAA
Found at i:3113642 original size:25 final size:25
Alignment explanation
Indices: 3113611--3113676 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
3113601 TTAATATAAC
3113611 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAATTATTTAT
*
3113636 TATTAAAGTATATT-GAAATTATTTAT
1 TATTAAA--ATATTAAAAATTATTTAT
*
3113662 TGTTAAAATTATTAA
1 TATTAAAA-TATTAA
3113677 TATTCAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 1 0.03
25 11 0.32
26 17 0.50
27 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (25 bp):
TATTAAAATATTAAAAATTATTTAT
Found at i:3113726 original size:15 final size:15
Alignment explanation
Indices: 3113706--3113774 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
3113696 TTTAATAATG
3113706 ATATTTAATATTAAA
1 ATATTTAATATTAAA
*
3113721 ATATTTAA-AATAAA
1 ATATTTAATATTAAA
* **
3113735 ACTATTTATTATT-CT
1 A-TATTTAATATTAAA
*
3113750 TTATATTAATATTCAAA
1 ATAT-TTAATATT-AAA
3113767 ATATTTAA
1 ATATTTAA
3113775 AATAGTTTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 9
0.67 0.17 0.16
Matches are distributed among these distances:
14 9 0.23
15 21 0.54
16 6 0.15
17 3 0.08
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTTAATATTAAA
Found at i:3113844 original size:15 final size:15
Alignment explanation
Indices: 3113824--3113867 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
3113814 TTAAAATAAT
3113824 AATATTTACTATTAA
1 AATATTTACTATTAA
*
3113839 AATATTTATACCATTAA
1 AATA-TT-TACTATTAA
3113856 AATATTTA-TATT
1 AATATTTACTATT
3113868 TTATATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 3 0.12
15 6 0.24
16 4 0.16
17 12 0.48
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTACTATTAA
Found at i:3113855 original size:38 final size:39
Alignment explanation
Indices: 3113813--3113886 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
3113803 TTTTATTAAT
3113813 ATTAAAATAATAATA-TTTACTATT-AAAATATTTATACC
1 ATTAAAATAATAATATTTTA-TATTGAAAATATTTATACC
* * *
3113851 ATTAAAATATTTATATTTTATATTGAAAGTATTTAT
1 ATTAAAATAATAATATTTTATATTGAAAATATTTAT
3113887 TATTAAATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 17 0.55
39 14 0.45
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (39 bp):
ATTAAAATAATAATATTTTATATTGAAAATATTTATACC
Found at i:3114044 original size:25 final size:27
Alignment explanation
Indices: 3114007--3114056 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 27
3113997 ATTATTTAAA
3114007 ATATTCATATTAAAAATT-ATTATTATT
1 ATATTCATATT-AAAATTAATTATTATT
3114034 ATATT-AT-TTAAAATTAATTATTA
1 ATATTCATATTAAAATTAATTATTA
3114057 AAATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.27
25 9 0.41
26 2 0.09
27 5 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATATTCATATTAAAATTAATTATTATT
Found at i:3114096 original size:42 final size:44
Alignment explanation
Indices: 3114027--3114119 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 44
3114017 TAAAAATTAT
* *
3114027 TATTATTATATTATTTAAAATTAATTATTAAAATAATAA-A-AA
1 TATTATTATATAAGTTAAAATTAATTATTAAAATAATAATATAA
** * *
3114069 TATTATTATATAAGTTATTATTTATTATTAAATTAATAATATAA
1 TATTATTATATAAGTTAAAATTAATTATTAAAATAATAATATAA
3114113 TATTATT
1 TATTATT
3114120 TATTGTTGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 33 0.77
43 1 0.02
44 9 0.21
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (44 bp):
TATTATTATATAAGTTAAAATTAATTATTAAAATAATAATATAA
Found at i:3114136 original size:32 final size:32
Alignment explanation
Indices: 3114066--3114142 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 32
3114056 AAAATAATAA
*
3114066 AAATATT-ATTATATAAGTTATTATTTATTATT
1 AAATATTAATAATATAAG-TATTATTTATTATT
*
3114098 -AA-ATTAATAATATAA-TATTATTTATTGTT
1 AAATATTAATAATATAAGTATTATTTATTATT
*
3114127 GAAATATTAAAAATAT
1 -AAATATTAATAATAT
3114143 TTATGTTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 13 0.34
30 3 0.08
31 12 0.32
32 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (32 bp):
AAATATTAATAATATAAGTATTATTTATTATT
Found at i:3114430 original size:14 final size:14
Alignment explanation
Indices: 3114411--3114453 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
3114401 AAATATTATT
3114411 TATTAATATAATAA
1 TATTAATATAATAA
*
3114425 TATTAATA-AATATT
1 TATTAATATAATA-A
*
3114439 TATTAACATAATAA
1 TATTAATATAATAA
3114453 T
1 T
3114454 TTTTAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTAATATAATAA
Found at i:3114462 original size:194 final size:193
Alignment explanation
Indices: 3114238--3114621 Score: 678
Period size: 194 Copynumber: 2.0 Consensus size: 193
3114228 AAACTAAATA
* * *
3114238 AAATTTTTATTAACATAATAATTTTTAAATCGAATAAAATCAAATTCGAATTTAAAATATTGTAT
1 AAATATTTATTAACATAATAATTTTTAAATCAAATAAAATCAAATTCAAATTTAAAATATTGTAT
*
3114303 TCAAATCTTACTTAAATAAAACTATAAAAATATTTAAAATTAAAATATTGAGAGACTTTTAATAT
66 TCAAATCTTACTTAAATAAAACTATAAAAATATTTAAAATTAAAATATTAAGAGACTTTTAATAT
3114368 TAATATTTTAATTTTTTAAATAAAATTAAATAAAAATATTATTTATTAATATAATAATATTAAT
131 TAATATTTTAATTTTTT-AATAAAATTAAATAAAAATATTATTTATTAATATAATAATATTAAT
*
3114432 AAATATTTATTAACATAATAATTTTTAAATCAAATCAAATCAAATTCAAATTTAAAATATTGTAT
1 AAATATTTATTAACATAATAATTTTTAAATCAAATAAAATCAAATTCAAATTTAAAATATTGTAT
* * * *
3114497 TCGAATTTTACTTCAATAAAATTATAAAAATATTTAAAATTAAAATATTAAGAGACTTTTAATAT
66 TCAAATCTTACTTAAATAAAACTATAAAAATATTTAAAATTAAAATATTAAGAGACTTTTAATAT
3114562 TAATATTTTAATTTTTTAATAAAATTAAATAAAAATATTATTTATTAATATAATAATATT
131 TAATATTTTAATTTTTTAATAAAATTAAATAAAAATATTATTTATTAATATAATAATATT
3114622 TTGAATAAGA
Statistics
Matches: 181, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
193 43 0.24
194 138 0.76
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (193 bp):
AAATATTTATTAACATAATAATTTTTAAATCAAATAAAATCAAATTCAAATTTAAAATATTGTAT
TCAAATCTTACTTAAATAAAACTATAAAAATATTTAAAATTAAAATATTAAGAGACTTTTAATAT
TAATATTTTAATTTTTTAATAAAATTAAATAAAAATATTATTTATTAATATAATAATATTAAT
Found at i:3115990 original size:34 final size:34
Alignment explanation
Indices: 3115947--3116015 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
3115937 TAGGGAAAGG
*
3115947 AAAGAAAAAAAGACTTATATGAGAATATTTAAGA
1 AAAGAAAAAAAGAATTATATGAGAATATTTAAGA
* *
3115981 AAAGAAAAAAAGAATTGTATGAGAGTATTTAAGA
1 AAAGAAAAAAAGAATTATATGAGAATATTTAAGA
3116015 A
1 A
3116016 TCAGACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.58, C:0.01, G:0.17, T:0.23
Consensus pattern (34 bp):
AAAGAAAAAAAGAATTATATGAGAATATTTAAGA
Found at i:3119755 original size:18 final size:18
Alignment explanation
Indices: 3119732--3119766 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3119722 ATTAATTAAA
*
3119732 AATTAATGTATATTAATT
1 AATTAATATATATTAATT
3119750 AATTAATATATATTAAT
1 AATTAATATATATTAAT
3119767 ATTTAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTAATATATATTAATT
Found at i:3123683 original size:159 final size:159
Alignment explanation
Indices: 3123392--3123703 Score: 570
Period size: 159 Copynumber: 2.0 Consensus size: 159
3123382 TCAATGTAAA
*
3123392 ATGAATTGCTAGGGTTTTTCGTGGATAACATTGCTTATTGGCCCCATTTCTTTAAAATTCTAGGG
1 ATGAATTGCTAGGGTTTTTCATGGATAACATTGCTTATTGGCCCCATTTCTTTAAAATTCTAGGG
* *
3123457 TTTTATTTTATCAATTATCAACAACAACAAACAACCTATTACGAGTCTTTTGCATGTTCTTATGG
66 TTTTATTTTATCAATTATCAACAACAACAAACAACCTACTACGAGTCTTTTGCATGTTCTTACGG
*
3123522 AGAGAGTGGTTTAATGGTTTGGGTTTTTC
131 AGAGAGTGGCTTAATGGTTTGGGTTTTTC
*
3123551 ATGAATTGCTAGGGTTTTTCATGGATAACATTGGTTATTGGCCCCATTTCTTTAAAATTCTAGGG
1 ATGAATTGCTAGGGTTTTTCATGGATAACATTGCTTATTGGCCCCATTTCTTTAAAATTCTAGGG
*
3123616 TTTTATTTTATCAATTATCAACAACAACAAACAACCTACTACTAGTCTTTTGCATGTTCTTACGG
66 TTTTATTTTATCAATTATCAACAACAACAAACAACCTACTACGAGTCTTTTGCATGTTCTTACGG
3123681 AGAGAGTGGCTTAATGGTTTGGG
131 AGAGAGTGGCTTAATGGTTTGGG
3123704 CCCCAATTTC
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
159 147 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (159 bp):
ATGAATTGCTAGGGTTTTTCATGGATAACATTGCTTATTGGCCCCATTTCTTTAAAATTCTAGGG
TTTTATTTTATCAATTATCAACAACAACAAACAACCTACTACGAGTCTTTTGCATGTTCTTACGG
AGAGAGTGGCTTAATGGTTTGGGTTTTTC
Found at i:3124037 original size:11 final size:11
Alignment explanation
Indices: 3124021--3124045 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3124011 GTTCTTATTG
3124021 CACGATTGCAT
1 CACGATTGCAT
3124032 CACGATTGCAT
1 CACGATTGCAT
3124043 CAC
1 CAC
3124046 ATGTGATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (11 bp):
CACGATTGCAT
Found at i:3124230 original size:14 final size:14
Alignment explanation
Indices: 3124211--3124251 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
3124201 CACAATTTTA
3124211 AATTATAATTAATT
1 AATTATAATTAATT
* *
3124225 AATTATAATAAAAT
1 AATTATAATTAATT
*
3124239 AATTATAAGTAAT
1 AATTATAATTAAT
3124252 ATGCTTCCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
AATTATAATTAATT
Found at i:3125058 original size:22 final size:21
Alignment explanation
Indices: 3125013--3125058 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3125003 TGAAAATAAA
* * *
3125013 AAATATATTTTTTATTTTATT
1 AAATATATTTATAATTTTACT
3125034 AAATATATTTATAATTTTTACT
1 AAATATATTTATAA-TTTTACT
3125056 AAA
1 AAA
3125059 ATTATAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATATATTTATAATTTTACT
Found at i:3127048 original size:11 final size:11
Alignment explanation
Indices: 3127006--3127073 Score: 57
Period size: 11 Copynumber: 5.8 Consensus size: 11
3126996 ACCAGAAGTG
3127006 ATAATATAAA-
1 ATAATATAAAT
3127016 ATACCATATAATAAT
1 ATA--ATAT-A-AAT
3127031 ATAATATAAAT
1 ATAATATAAAT
*
3127042 ATGATATAAAT
1 ATAATATAAAT
* *
3127053 AAAAATATAACT
1 -ATAATATAAAT
3127065 ATAATATAA
1 ATAATATAA
3127074 TTTAAAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
10 3 0.06
11 21 0.45
12 13 0.28
13 5 0.11
14 2 0.04
15 3 0.06
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:3127053 original size:25 final size:24
Alignment explanation
Indices: 3127006--3127073 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 24
3126996 ACCAGAAGTG
3127006 ATAATATAAA-ATACCATAT-AATAA
1 ATAATATAAATATA--ATATAAATAA
*
3127030 TATAATATAAATATGATATAAATAA
1 -ATAATATAAATATAATATAAATAA
*
3127055 A-AATATAACTATAATATAA
1 ATAATATAAATATAATATAA
3127074 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 16 0.42
24 5 0.13
25 15 0.39
26 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (24 bp):
ATAATATAAATATAATATAAATAA
Found at i:3127067 original size:6 final size:5
Alignment explanation
Indices: 3127026--3127074 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
3127016 ATACCATATA
*
3127026 ATAAT ATAAT ATAAAT ATGAT ATAA- ATAA- A-AAT ATAACT ATAAT ATAAT
1 ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT
3127075 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 2 0.05
4 6 0.16
5 20 0.53
6 10 0.26
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:3127079 original size:28 final size:28
Alignment explanation
Indices: 3127023--3127079 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
3127013 AAAATACCAT
* *
3127023 ATAATAATATAATATAAATATGATATAA
1 ATAAAAATATAATATAAATATAATATAA
*
3127051 ATAAAAATATAACTAT-AATATAATTTAA
1 ATAAAAATATAA-TATAAATATAATATAA
3127079 A
1 A
3127080 ATTTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
ATAAAAATATAATATAAATATAATATAA
Found at i:3127115 original size:29 final size:28
Alignment explanation
Indices: 3127050--3127115 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 28
3127040 ATATGATATA
*
3127050 AATAAAAAT-ATAACTATAATATAATTT
1 AATAAAATTAATAACTATAATATAATTT
** * *
3127077 AA-AATTTTAATAATTATTATATATATTT
1 AATAAAATTAATAACTATAATATA-ATTT
3127105 AATAAAATTAA
1 AATAAAATTAA
3127116 AAAAAATATT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
26 3 0.10
27 14 0.48
28 6 0.21
29 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
AATAAAATTAATAACTATAATATAATTT
Found at i:3129804 original size:27 final size:27
Alignment explanation
Indices: 3129718--3129806 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
3129708 TTTAAATTAT
*
3129718 AATATTAATTATA-ATAAATTTAATA-A
1 AATATAAATTATATA-AAATTTAATATA
* * * * *
3129744 AATAAAAAATTATATTTAAATTTTTATGTC
1 AAT-ATAAATTATA--TAAAATTTAATATA
3129774 AATATAAATTATATAAAATTTAATATA
1 AATATAAATTATATAAAATTTAATATA
3129801 AATATA
1 AATATA
3129807 TAAAATTTAA
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
29 16 0.34
30 4 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (27 bp):
AATATAAATTATATAAAATTTAATATA
Found at i:3129808 original size:20 final size:21
Alignment explanation
Indices: 3129774--3129818 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
3129764 TTTTTATGTC
3129774 AATATAAATTATATAAAATTT
1 AATATAAATTATATAAAATTT
3129795 AATATAAA-TATATAAAATTT
1 AATATAAATTATATAAAATTT
3129815 AATA
1 AATA
3129819 CTTTATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATATAAATTATATAAAATTT
Found at i:3130797 original size:31 final size:31
Alignment explanation
Indices: 3130733--3130805 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
3130723 ACAAATATTT
* *
3130733 GTTGAAATTCAATGTGGATTTTCCGTTCCAA
1 GTTGAAATTCTATGTGGAATTTCCGTTCCAA
* **
3130764 GTTGAAATTCTATGTGGAATTTCCTTTTTAA
1 GTTGAAATTCTATGTGGAATTTCCGTTCCAA
*
3130795 GTTGGAATTCT
1 GTTGAAATTCT
3130806 TGGCGGGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (31 bp):
GTTGAAATTCTATGTGGAATTTCCGTTCCAA
Found at i:3138353 original size:16 final size:15
Alignment explanation
Indices: 3138311--3138353 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
3138301 GATATGATAA
3138311 AAATTAAAA-AAATC
1 AAATTAAAATAAATC
* *
3138325 AAATTAAATTAAATT
1 AAATTAAAATAAATC
3138340 AAATTTAAAATAAA
1 AAA-TTAAAATAAA
3138354 AAAATTTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 8 0.33
15 7 0.29
16 9 0.38
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTAAAATAAATC
Found at i:3139945 original size:55 final size:56
Alignment explanation
Indices: 3139875--3139981 Score: 207
Period size: 55 Copynumber: 1.9 Consensus size: 56
3139865 AATAAAAAAT
3139875 AATATAAATCTCCTAATTTTAGTTAATATTATTGAAGCTTTTCTATTAAAAATAAA
1 AATATAAATCTCCTAATTTTAGTTAATATTATTGAAGCTTTTCTATTAAAAATAAA
3139931 AATA-AAATCTCCTAATTTTAGTTAATATTATTGAAGCTTTTCTATTAAAAA
1 AATATAAATCTCCTAATTTTAGTTAATATTATTGAAGCTTTTCTATTAAAAA
3139982 ATTTCAATGC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 47 0.92
56 4 0.08
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (56 bp):
AATATAAATCTCCTAATTTTAGTTAATATTATTGAAGCTTTTCTATTAAAAATAAA
Found at i:3140375 original size:21 final size:21
Alignment explanation
Indices: 3140351--3140390 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3140341 AAAATATCAA
3140351 ATATA-ATATTATAAATTTATT
1 ATATACATATT-TAAATTTATT
*
3140372 ATATACATATTTTAATTTA
1 ATATACATATTTAAATTTA
3140391 ATATCTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATACATATTTAAATTTATT
Found at i:3141358 original size:10 final size:10
Alignment explanation
Indices: 3141343--3141368 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3141333 AATACGCTCG
3141343 ATTTATATTT
1 ATTTATATTT
3141353 ATTTATATTT
1 ATTTATATTT
3141363 ATTTAT
1 ATTTAT
3141369 TAAATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATATTT
Found at i:3142195 original size:28 final size:30
Alignment explanation
Indices: 3142142--3142209 Score: 95
Period size: 28 Copynumber: 2.3 Consensus size: 30
3142132 TATTTAAATA
*
3142142 TATTTAAATATTTAATTTTAAATAATATTT
1 TATTTAAATATCTAATTTTAAATAATATTT
* *
3142172 TCTTTAAATA-CTAA-TTTAAATAATTTTT
1 TATTTAAATATCTAATTTTAAATAATATTT
3142200 TATTTAAATA
1 TATTTAAATA
3142210 AATAAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 22 0.65
29 3 0.09
30 9 0.26
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (30 bp):
TATTTAAATATCTAATTTTAAATAATATTT
Found at i:3142219 original size:28 final size:28
Alignment explanation
Indices: 3142142--3142227 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 28
3142132 TATTTAAATA
* *
3142142 TATTTAAATATTTAATTTTAAATAATATTT
1 TATTTAAATA-ATAA-TATAAATAATATTT
* * * *
3142172 TCTTTAAATACTAATTTAAATAATTTTT
1 TATTTAAATAATAATATAAATAATATTT
*
3142200 TATTTAAATAAATAA-ATAAATTATATTT
1 TATTTAAAT-AATAATATAAATAATATTT
3142228 AATTATATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
28 31 0.66
29 7 0.15
30 9 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTTAAATAATAATATAAATAATATTT
Found at i:3142264 original size:19 final size:19
Alignment explanation
Indices: 3142227--3142264 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3142217 AAATTATATT
*
3142227 TAATTATATTATTCCTGTC
1 TAATTATATTAATCCTGTC
*
3142246 TAATTATATTAATCGTGTC
1 TAATTATATTAATCCTGTC
3142265 ATGTTATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (19 bp):
TAATTATATTAATCCTGTC
Found at i:3142307 original size:15 final size:15
Alignment explanation
Indices: 3142278--3142316 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3142268 TTATATTATT
*
3142278 TAAATT-ATGTTAAA
1 TAAATTAATTTTAAA
3142292 TAAATTAATTTTAAA
1 TAAATTAATTTTAAA
*
3142307 TATATTAATT
1 TAAATTAATT
3142317 ATATCGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TAAATTAATTTTAAA
Found at i:3142389 original size:52 final size:51
Alignment explanation
Indices: 3142271--3142394 Score: 119
Period size: 52 Copynumber: 2.4 Consensus size: 51
3142261 TGTCATGTTA
*
3142271 TATTATTTAAAT-TATGTTAAATAAATTAATTTTAAATATATTAATTATATCG
1 TATTATTTAAATATAT-AT-AATAAATTAATTTTAAATATATTAATTATATCG
** * *
3142323 TATTACGTATAATATATATAATAAATTTATTATATTAATAT-TTAAATTAT-TCG
1 TATTATTTA-AATATATATAATAAATTAATT-T-TAAATATATT-AATTATATCG
*
3142376 TATTATTTAAATATTTATA
1 TATTATTTAAATATATATA
3142395 TCATATTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
52 27 0.46
53 17 0.29
54 15 0.25
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (51 bp):
TATTATTTAAATATATATAATAAATTAATTTTAAATATATTAATTATATCG
Found at i:3142400 original size:11 final size:11
Alignment explanation
Indices: 3142386--3142429 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 11
3142376 TATTATTTAA
3142386 ATATTTATATC
1 ATATTTATATC
3142397 ATATTTATATC
1 ATATTTATATC
3142408 AAAATTATTTATATC
1 ---A-TATTTATATC
3142423 ATATTTA
1 ATATTTA
3142430 AAATTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 17 0.59
12 1 0.03
14 1 0.03
15 10 0.34
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATTTATATC
Found at i:3150472 original size:62 final size:65
Alignment explanation
Indices: 3150405--3150541 Score: 145
Period size: 62 Copynumber: 2.2 Consensus size: 65
3150395 ATGTAATATG
3150405 TTTAATATATTTAACATATTTTTTATATT-T-AT-TTTAATTTAA-TA-TAA-AT-ATATAAAAA
1 TTTAATATATTTAA-A-ATTTTTTA-ATTATGATATTTAA-TTAACTATTAATATCATATAAAAA
3150463 TTAT
62 TTAT
3150467 TTTAAT-T-TTT--AATTTTTTAATTATGATATTTAATTAACTATTTAATATCATATAAAAATTA
1 TTTAATATATTTAAAATTTTTTAATTATGATATTTAATTAACTA-TTAATATCATATAAAAATTA
3150528 T
65 T
3150529 TTTAA-ATATTTAA
1 TTTAATATATTTAA
3150542 TTATGATATT
Statistics
Matches: 63, Mismatches: 0, Indels: 21
0.75 0.00 0.25
Matches are distributed among these distances:
55 3 0.05
56 9 0.14
57 7 0.11
58 7 0.11
60 6 0.10
61 3 0.05
62 25 0.40
63 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (65 bp):
TTTAATATATTTAAAATTTTTTAATTATGATATTTAATTAACTATTAATATCATATAAAAATTAT
Found at i:3150483 original size:55 final size:60
Alignment explanation
Indices: 3150424--3150563 Score: 141
Period size: 62 Copynumber: 2.4 Consensus size: 60
3150414 TTTAACATAT
*
3150424 TTTTTATATTTATTTTAATTTAA-TA-TAA-AT-ATATAAAAATTATTTT-AATTTTTAA
1 TTTTTATATTTATTTTAATTTAACTATTAATATCATATAAAAATTATTTTAAATATTTAA
3150479 TTTTT-TAATTATGATATTTAA-TTAACTATTTAATATCATATAAAAATTATTTTAAATATTTAA
1 TTTTTAT-ATT-T-AT-TTTAATTTAACTA-TTAATATCATATAAAAATTATTTTAAATATTTAA
* * * *
3150542 TTATGATATTCATTTTATTTTA
1 TTTTTATATTTATTTTAATTTA
3150564 TTACTTTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
54 1 0.01
55 8 0.12
56 1 0.01
57 6 0.09
58 7 0.10
60 7 0.10
61 7 0.10
62 16 0.24
63 14 0.21
64 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (60 bp):
TTTTTATATTTATTTTAATTTAACTATTAATATCATATAAAAATTATTTTAAATATTTAA
Found at i:3150877 original size:29 final size:28
Alignment explanation
Indices: 3150825--3150923 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 28
3150815 TAATTATTTA
*
3150825 TTATTTTAATCATATTT-TT-TATATAT
1 TTATATTAATCATATTTATTATATATAT
**
3150851 TCGTATTAATCATATTTATTCATATATAT
1 TTATATTAATCATATTTATT-ATATATAT
* * *
3150880 TTATGTTAATTATATTAATTTATATATAT
1 TTATATTAATCATATTTA-TTATATATAT
*
3150909 TTATATTATTCATAT
1 TTATATTAATCATAT
3150924 CATATTTAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
26 14 0.24
27 2 0.03
29 40 0.69
30 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (28 bp):
TTATATTAATCATATTTATTATATATAT
Found at i:3150881 original size:14 final size:14
Alignment explanation
Indices: 3150862--3150917 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
3150852 CGTATTAATC
*
3150862 ATATTTATTCATAT
1 ATATTTATTTATAT
3150876 ATATTTATGTTA-ATT
1 ATATTTAT-TTATA-T
*
3150891 ATATTAATTTATAT
1 ATATTTATTTATAT
3150905 ATATTTATATTAT
1 ATATTTAT-TTAT
3150918 TCATATCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
14 20 0.57
15 15 0.43
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (14 bp):
ATATTTATTTATAT
Found at i:3150914 original size:20 final size:20
Alignment explanation
Indices: 3150889--3150931 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
3150879 TTTATGTTAA
*
3150889 TTATATTAATTTATAT-ATAT
1 TTATATT-ATTCATATCATAT
3150909 TTATATTATTCATATCATAT
1 TTATATTATTCATATCATAT
3150929 TTA
1 TTA
3150932 AATAAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATATTATTCATATCATAT
Found at i:3151031 original size:7 final size:6
Alignment explanation
Indices: 3150987--3151072 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
3150977 TGTAAATTAA
* * * *
3150987 ATATGTT ATATTT ATATTT AAAATTT AAATTT AT-TTT ATAATTT AT-GTC
1 ATAT-TT ATATTT ATATTT -ATATTT ATATTT ATATTT AT-ATTT ATATTT
* *
3151036 ATATTT ATATTTT AATAATTT ATATTA ATATAT ATAT
1 ATATTT ATA-TTT -AT-ATTT ATATTT ATATTT ATAT
3151073 AAAATACGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
5 8 0.13
6 30 0.48
7 19 0.30
8 5 0.08
9 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (6 bp):
ATATTT
Found at i:3151069 original size:25 final size:25
Alignment explanation
Indices: 3151018--3151072 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
3151008 AATTTAAATT
* *
3151018 TATTTTATAATTTATGTCATATTTA
1 TATTTTATAATTTATATCATATATA
*
3151043 TATTTTAATAATTTATATTAATATATA
1 TATTTT-ATAATTTATA-TCATATATA
3151070 TAT
1 TAT
3151073 AAAATACGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.24
26 9 0.36
27 10 0.40
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
TATTTTATAATTTATATCATATATA
Found at i:3152259 original size:22 final size:21
Alignment explanation
Indices: 3152234--3152281 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
3152224 ATAAAATTTA
*
3152234 AAATTTGATTTAAATCCAAACT
1 AAATTTCA-TTAAATCCAAACT
*
3152256 AAATTTTCATTAAATCCAAATT
1 AAA-TTTCATTAAATCCAAACT
3152278 AAAT
1 AAAT
3152282 CAAATCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 18 0.78
23 4 0.17
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTTCATTAAATCCAAACT
Found at i:3152564 original size:19 final size:20
Alignment explanation
Indices: 3152536--3152586 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
3152526 ATCAAATAAA
*
3152536 AAATAATATAAATT-AAATC
1 AAATATTATAAATTCAAATC
*
3152555 AAATATTATAATTTCAAATC
1 AAATATTATAAATTCAAATC
*
3152575 -GAT-TTATAAATT
1 AAATATTATAAATT
3152587 TTTTGATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 8 0.30
19 14 0.52
20 5 0.19
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATATTATAAATTCAAATC
Found at i:3153172 original size:20 final size:20
Alignment explanation
Indices: 3153147--3153186 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3153137 ATATTTACTC
*
3153147 AAAATTTTATAATTAAATAA
1 AAAATTTAATAATTAAATAA
3153167 AAAATTTAATAATTAAATAA
1 AAAATTTAATAATTAAATAA
3153187 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATTTAATAATTAAATAA
Found at i:3153254 original size:13 final size:13
Alignment explanation
Indices: 3153237--3153269 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
3153227 ATATTTTACC
3153237 TTTTTATTAATATA
1 TTTTTATT-ATATA
3153251 TTTTTATTATAT-
1 TTTTTATTATATA
3153263 TTTTTAT
1 TTTTTAT
3153270 CATTATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 4 0.21
14 8 0.42
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTATTATATA
Found at i:3154433 original size:25 final size:25
Alignment explanation
Indices: 3154405--3154454 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3154395 AAACAAATCA
3154405 TGCGTGTTATCATTCATAAATAGTG
1 TGCGTGTTATCATTCATAAATAGTG
3154430 TGCGTGTTATCATTCATAAATAGTG
1 TGCGTGTTATCATTCATAAATAGTG
3154455 GGGATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (25 bp):
TGCGTGTTATCATTCATAAATAGTG
Found at i:3161593 original size:21 final size:20
Alignment explanation
Indices: 3161559--3161614 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
3161549 TCTGATTCAA
*
3161559 TTTAAAATTAATAAAATATTAT
1 TTTAAAAAT-ATAAAATATT-T
**
3161581 TTTTTAAATATAAAATATTT
1 TTTAAAAATATAAAATATTT
3161601 TTTAAAAATATAAA
1 TTTAAAAATATAAA
3161615 TATAAAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 10 0.34
22 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTAAAAATATAAAATATTT
Found at i:3161599 original size:18 final size:19
Alignment explanation
Indices: 3161578--3161617 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
3161568 AATAAAATAT
*
3161578 TATTTTTTAAATATA-AAA
1 TATTTTTTAAAAATATAAA
3161596 TATTTTTTAAAAATATAAA
1 TATTTTTTAAAAATATAAA
3161615 TAT
1 TAT
3161618 AAAATTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTTTTAAAAATATAAA
Found at i:3161677 original size:33 final size:33
Alignment explanation
Indices: 3161608--3161680 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
3161598 TTTTTTAAAA
**
3161608 ATATAAATATAAAATTAAATAAATATGATATAT
1 ATATAAATATAAAATTAAATAAATAAAATATAT
* *
3161641 ATATAAATATAAAATTAATTAATTAAAATAATTAT
1 ATATAAATATAAAATTAAATAAATAAAAT-A-TAT
3161676 ATATA
1 ATATA
3161681 TATCATATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 25 0.74
34 1 0.03
35 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (33 bp):
ATATAAATATAAAATTAAATAAATAAAATATAT
Found at i:3161786 original size:16 final size:15
Alignment explanation
Indices: 3161765--3161798 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
3161755 ATTTAATACC
3161765 TAATTTAAAAATAAAT
1 TAATTTAAAAA-AAAT
3161781 TAATTTAAAAAAAAT
1 TAATTTAAAAAAAAT
3161796 TAA
1 TAA
3161799 ATCGATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAATTTAAAAAAAAT
Found at i:3161790 original size:15 final size:16
Alignment explanation
Indices: 3161765--3161798 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3161755 ATTTAATACC
*
3161765 TAATTTAAAAATAAAT
1 TAATTTAAAAAAAAAT
3161781 TAATTT-AAAAAAAAT
1 TAATTTAAAAAAAAAT
3161796 TAA
1 TAA
3161799 ATCGATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATTTAAAAAAAAAT
Found at i:3162357 original size:20 final size:19
Alignment explanation
Indices: 3162332--3162388 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
3162322 TTTCCCTCTT
*
3162332 TAATAATTTAAAATATAATA
1 TAATAATATAAAATA-AATA
*
3162352 TAATAATATAATATAAATA
1 TAATAATATAAAATAAATA
*
3162371 TGATTAA-ATAAAA-AAATA
1 T-AATAATATAAAATAAATA
3162389 AAAATAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.16
19 10 0.31
20 17 0.53
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAATAATATAAAATAAATA
Found at i:3162361 original size:13 final size:12
Alignment explanation
Indices: 3162334--3162368 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
3162324 TCCCTCTTTA
*
3162334 ATAATTTAAAAT
1 ATAATATAAAAT
3162346 ATAATATAATAAT
1 ATAATATAA-AAT
3162359 ATAATATAAA
1 ATAATATAAA
3162369 TATGATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:3165046 original size:8 final size:8
Alignment explanation
Indices: 3165033--3165077 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
3165023 AATAATTTTT
3165033 TATTTATA
1 TATTTATA
3165041 TATTTATA
1 TATTTATA
*
3165049 TAATTATA
1 TATTTATA
*
3165057 TATTTAAA
1 TATTTATA
3165065 TATTTATA
1 TATTTATA
3165073 T-TTTA
1 TATTTA
3165078 AAAAATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
7 4 0.12
8 29 0.88
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTATA
Found at i:3165051 original size:24 final size:24
Alignment explanation
Indices: 3165024--3165073 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
3165014 TTATATAAAA
* * *
3165024 ATAATTTTTTATTTATATATTTAT
1 ATAATTATATATTTAAATATTTAT
3165048 ATAATTATATATTTAAATATTTAT
1 ATAATTATATATTTAAATATTTAT
3165072 AT
1 AT
3165074 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATAATTATATATTTAAATATTTAT
Found at i:3165057 original size:16 final size:15
Alignment explanation
Indices: 3165036--3165092 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
3165026 AATTTTTTAT
*
3165036 TTATATATTTATATAA
1 TTATAT-TTTAAATAA
*
3165052 TTATATATTTAAATAT
1 TTATAT-TTTAAATAA
*
3165068 TTATATTTTAAAAAA
1 TTATATTTTAAATAA
*
3165083 TAATATTTTA
1 TTATATTTTA
3165093 TATTTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 16 0.44
16 20 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATATTTTAAATAA
Found at i:3165092 original size:22 final size:22
Alignment explanation
Indices: 3165063--3165123 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
3165053 TATATATTTA
3165063 AATA-TTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
3165084 AATATTTTATATTTT-AAAAAT
1 AATATTTTATATTTTAAAAAAT
3165105 AATATTTTATTAATTTTAA
1 AATATTTTA-T-ATTTTAA
3165124 GTTAAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
21 19 0.53
22 11 0.31
23 5 0.14
24 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:3165202 original size:19 final size:20
Alignment explanation
Indices: 3165178--3165217 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3165168 AATCAAATTT
*
3165178 AAATATGAAA-AAATTAAAA
1 AAATATCAAACAAATTAAAA
3165197 AAATATCAAATCAAATTAAAA
1 AAATATCAAA-CAAATTAAAA
3165218 TTAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
AAATATCAAACAAATTAAAA
Found at i:3165322 original size:24 final size:24
Alignment explanation
Indices: 3165295--3165367 Score: 146
Period size: 24 Copynumber: 3.0 Consensus size: 24
3165285 AAAAGTTGTC
3165295 AATTAAAAGGTGAAAGGTCCATCA
1 AATTAAAAGGTGAAAGGTCCATCA
3165319 AATTAAAAGGTGAAAGGTCCATCA
1 AATTAAAAGGTGAAAGGTCCATCA
3165343 AATTAAAAGGTGAAAGGTCCATCA
1 AATTAAAAGGTGAAAGGTCCATCA
3165367 A
1 A
3165368 CCCTTTTATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (24 bp):
AATTAAAAGGTGAAAGGTCCATCA
Found at i:3167218 original size:2 final size:2
Alignment explanation
Indices: 3167211--3167235 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3167201 AATGTGAAAA
3167211 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3167236 GTTCACTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3167656 original size:223 final size:221
Alignment explanation
Indices: 3167268--3167681 Score: 567
Period size: 223 Copynumber: 1.9 Consensus size: 221
3167258 TATCAAATAT
* * *
3167268 AAATTTTAACTTGTACGTAAATACAATTCGCACTTATACTTTTATGTTTTATATATATATATTTT
1 AAATTTTAACTTGTACATAAATACAATTCACACTTATACTTTTATGTTGTATATATATATATTTT
* ** * * *
3167333 TCAGCCAATCATTTTATTAAGAGTAAATAACATATGTGGTCCCTAAATTTTAGATTAAATTTTAT
66 TCAGCCAATCATTTTATTAAGAGAAAATAACATATAAGCTCCCTAAATTTTAGATCAAATTCTAT
* * * *
3167398 TTTGGTCCTTAAACTTTAAAAAATTCTACTCAAATCTTTAATTACCCGAACGTATACCAATGTAC
131 TTTGATCCTTAAACTTTAAAAAATTCTAATCAAATCCTTAATTACCCAAACGTATACCAATGTAC
3167463 AAATAAATAAATTTTATGTTGTATAA
196 AAATAAATAAATTTTATGTTGTATAA
* * * *
3167489 AAATTTTAACTTGTACATAAGTGCAATTCATACTTATACTTTTATGTTGTATATATATATTTTTT
1 AAATTTTAACTTGTACATAAATACAATTCACACTTATACTTTTATGTTGTATATATATA-TATTT
* * * *
3167554 TCTCAGCCAATCATTTTATTAAGAGAAAATAGCATCTAAGCTCTCTAAATTTTTGATCAAATTCT
65 T-TCAGCCAATCATTTTATTAAGAGAAAATAACATATAAGCTCCCTAAATTTTAGATCAAATTCT
* * * * * *
3167619 GTTTTGATTCTTAAATTTTAAAAAATTTTAATCAAATCCTTAATTGCCCAAATGTATACCAAT
129 ATTTTGATCCTTAAACTTTAAAAAATTCTAATCAAATCCTTAATTACCCAAACGTATACCAAT
3167682 ATAGTTCTTC
Statistics
Matches: 164, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
221 53 0.32
222 5 0.03
223 106 0.65
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (221 bp):
AAATTTTAACTTGTACATAAATACAATTCACACTTATACTTTTATGTTGTATATATATATATTTT
TCAGCCAATCATTTTATTAAGAGAAAATAACATATAAGCTCCCTAAATTTTAGATCAAATTCTAT
TTTGATCCTTAAACTTTAAAAAATTCTAATCAAATCCTTAATTACCCAAACGTATACCAATGTAC
AAATAAATAAATTTTATGTTGTATAA
Found at i:3168524 original size:14 final size:14
Alignment explanation
Indices: 3168505--3168539 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3168495 GTTTATTTTG
*
3168505 TTTTTAATTTCATA
1 TTTTTAATTACATA
3168519 TTTTTAATTACATA
1 TTTTTAATTACATA
*
3168533 TGTTTAA
1 TTTTTAA
3168540 GTCAACTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTTAATTACATA
Found at i:3174294 original size:11 final size:11
Alignment explanation
Indices: 3174278--3174325 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
3174268 CCATAAAACT
3174278 TATATATTATA
1 TATATATTATA
3174289 TATATATTATA
1 TATATATTATA
3174300 TA-A-A-TATA
1 TATATATTATA
3174308 TATA-ATTATA
1 TATATATTATA
3174318 T-TATATTA
1 TATATATTA
3174326 AACAAAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.18
9 5 0.15
10 10 0.29
11 13 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TATATATTATA
Found at i:3174905 original size:13 final size:13
Alignment explanation
Indices: 3174882--3174923 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
3174872 TATTAATAAG
3174882 TAAATATTAATTTT
1 TAAA-ATTAATTTT
3174896 TAAAATTAATTTAT
1 TAAAATTAATTT-T
*
3174910 AAAAATTAATTTT
1 TAAAATTAATTTT
3174923 T
1 T
3174924 TTATAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAAATTAATTTT
Found at i:3174941 original size:31 final size:32
Alignment explanation
Indices: 3174892--3174955 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 32
3174882 TAAATATTAA
*
3174892 TTTTTAAAATTAATTTATA-A-AAATTAATTT
1 TTTTTAAAATTAATTTATAGATAAAGTAATTT
3174922 TTTTATAAAATTTAA-TTATAGATAAAGTAATTT
1 TTTT-TAAAA-TTAATTTATAGATAAAGTAATTT
3174955 T
1 T
3174956 ATTTGATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 4 0.14
31 10 0.34
32 5 0.17
33 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (32 bp):
TTTTTAAAATTAATTTATAGATAAAGTAATTT
Found at i:3175613 original size:19 final size:22
Alignment explanation
Indices: 3175568--3175614 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 22
3175558 ATTTAAAATT
3175568 AATAAAATATTATTTTTTGAAA
1 AATAAAATATTATTTTTTGAAA
*
3175590 CATAAAA-A-TATTTTTT-AAA
1 AATAAAATATTATTTTTTGAAA
3175609 AATAAA
1 AATAAA
3175615 TATAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 8 0.35
20 8 0.35
21 1 0.04
22 6 0.26
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AATAAAATATTATTTTTTGAAA
Found at i:3175629 original size:16 final size:16
Alignment explanation
Indices: 3175608--3175657 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
3175598 TATTTTTTAA
3175608 AAATAAATATAAAATT
1 AAATAAATATAAAATT
3175624 AAATAAATAT-AAATAT
1 AAATAAATATAAAAT-T
* *
3175640 ATATAACTATAAAATT
1 AAATAAATATAAAATT
3175656 AA
1 AA
3175658 TTAATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATAAATATAAAATT
Found at i:3178845 original size:8 final size:8
Alignment explanation
Indices: 3178832--3178876 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
3178822 AATAATTTTT
3178832 TATTTATA
1 TATTTATA
3178840 TATTTATA
1 TATTTATA
*
3178848 TAATTATA
1 TATTTATA
*
3178856 TATTTAAA
1 TATTTATA
3178864 TATTTATA
1 TATTTATA
3178872 T-TTTA
1 TATTTA
3178877 AAAAATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
7 4 0.12
8 29 0.88
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTATA
Found at i:3178850 original size:24 final size:24
Alignment explanation
Indices: 3178823--3178872 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
3178813 TTATATAAAA
* * *
3178823 ATAATTTTTTATTTATATATTTAT
1 ATAATTATATATTTAAATATTTAT
3178847 ATAATTATATATTTAAATATTTAT
1 ATAATTATATATTTAAATATTTAT
3178871 AT
1 AT
3178873 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATAATTATATATTTAAATATTTAT
Found at i:3178856 original size:16 final size:15
Alignment explanation
Indices: 3178835--3178891 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
3178825 AATTTTTTAT
*
3178835 TTATATATTTATATAA
1 TTATAT-TTTAAATAA
*
3178851 TTATATATTTAAATAT
1 TTATAT-TTTAAATAA
*
3178867 TTATATTTTAAAAAA
1 TTATATTTTAAATAA
*
3178882 TAATATTTTA
1 TTATATTTTA
3178892 TATTTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 16 0.44
16 20 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATATTTTAAATAA
Found at i:3178891 original size:22 final size:21
Alignment explanation
Indices: 3178862--3178913 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
3178852 TATATATTTA
3178862 AATA-TTTATATTTTAAAAAAT
1 AATATTTTATATTTT-AAAAAT
3178883 AATATTTTATATTTTAAAAAT
1 AATATTTTATATTTTAAAAAT
3178904 AATATTTTAT
1 AATATTTTAT
3178914 TAATTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTTTATATTTTAAAAAT
Found at i:3179123 original size:24 final size:24
Alignment explanation
Indices: 3179096--3179144 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
3179086 AAAAGTTGTC
3179096 AATTAAAAGGTGAAAGGTCCATCA
1 AATTAAAAGGTGAAAGGTCCATCA
3179120 AATTAAAAGGTGAAAGGTCCATCA
1 AATTAAAAGGTGAAAGGTCCATCA
3179144 A
1 A
3179145 GCCTTTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (24 bp):
AATTAAAAGGTGAAAGGTCCATCA
Found at i:3181093 original size:2 final size:2
Alignment explanation
Indices: 3181086--3181112 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3181076 ACTTTTATGT
3181086 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3181113 TTTCAGCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3181440 original size:225 final size:232
Alignment explanation
Indices: 3181039--3181465 Score: 582
Period size: 225 Copynumber: 1.9 Consensus size: 232
3181029 TATCAAATAT
* *
3181039 AAATTTTAACTTGTACGTAAATACAATTCGCACTTATACTTTTATGTTATATATATATATATATA
1 AAATTTTAACTTGTACATAAATACAATTCACACTTATACTTTTATGTTATATATATATATATATA
* * **
3181104 TATATATATTTTCAGCCAATCATTTTATTAAGAGTAAATAACATATGTGGTCCCTAAATTTTAGA
66 TATATATATTCTCAGCCAATCATTTTATTAAGAGAAAATAACATATAAGGTCCCTAAATTTTAGA
* * *
3181169 TTAAATTTTATTTTGGTCCTTAAACTTTAAAAAATTCTACTCAAATCTTTAATTACCCAAACGTA
131 TCAAATTTTATTTTGGTCCTTAAACTTTAAAAAATTCTAATCAAATCCTTAATTACCCAAACGTA
3181234 TACCAATGTACAAATAAATAAATTTTATGTTGTATAA
196 TACCAATGTACAAATAAATAAATTTTATGTTGTATAA
* * * *
3181271 AAATTTTAACTTGTACATAAGTGCAATTCATACTTATACTTTTATGTTGTATATATATAT-T-T-
1 AAATTTTAACTTGTACATAAATACAATTCACACTTATACTTTTATGTTATATATATATATATATA
* * * *
3181333 T-T-T-T-TTCTCAGCCAATCATTTTATTAAGAGAAAATAGCATTTAAGGTCTCTAAATTTTTGA
66 TATATATATTCTCAGCCAATCATTTTATTAAGAGAAAATAACATATAAGGTCCCTAAATTTTAGA
* * * * **
3181394 TCAAATTTTGTTTTGGTTCTTAAA-TTTCAAAAAATTTTAATCAAATCCTTAATTGCCCAAATTT
131 TCAAATTTTATTTTGGTCCTTAAACTTT-AAAAAATTCTAATCAAATCCTTAATTACCCAAACGT
3181458 ATACCAAT
195 ATACCAAT
3181466 ATAGTTCCTC
Statistics
Matches: 171, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
224 3 0.02
225 108 0.63
226 1 0.01
227 1 0.01
228 1 0.01
229 1 0.01
230 1 0.01
231 1 0.01
232 54 0.32
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.43
Consensus pattern (232 bp):
AAATTTTAACTTGTACATAAATACAATTCACACTTATACTTTTATGTTATATATATATATATATA
TATATATATTCTCAGCCAATCATTTTATTAAGAGAAAATAACATATAAGGTCCCTAAATTTTAGA
TCAAATTTTATTTTGGTCCTTAAACTTTAAAAAATTCTAATCAAATCCTTAATTACCCAAACGTA
TACCAATGTACAAATAAATAAATTTTATGTTGTATAA
Found at i:3182342 original size:15 final size:15
Alignment explanation
Indices: 3182322--3182351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3182312 GTTTATTTTA
*
3182322 TTTTTAATTTCATAT
1 TTTTTAATTACATAT
3182337 TTTTTAATTACATAT
1 TTTTTAATTACATAT
3182352 GTTTAAGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTAATTACATAT
Found at i:3184452 original size:30 final size:30
Alignment explanation
Indices: 3184418--3184477 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
3184408 ATTATTCAAG
3184418 GCACTTTTTGCTAGAAAATACCTTGAATAA
1 GCACTTTTTGCTAGAAAATACCTTGAATAA
3184448 GCACTTTTTGCTAGAAAATACCTTGAATAA
1 GCACTTTTTGCTAGAAAATACCTTGAATAA
3184478 TCTTTTACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (30 bp):
GCACTTTTTGCTAGAAAATACCTTGAATAA
Found at i:3185822 original size:12 final size:13
Alignment explanation
Indices: 3185799--3185865 Score: 68
Period size: 12 Copynumber: 5.1 Consensus size: 13
3185789 TATAAAAAAA
*
3185799 ATTATTTTTAATT
1 ATTATATTTAATT
3185812 ATT-TATTTAATT
1 ATTATATTTAATT
3185824 -TTATATTTATATAT
1 ATTATATTTA-AT-T
3185838 ATATATATTTAATT
1 AT-TATATTTAATT
3185852 -TTATATTTATATT
1 ATTATATTTA-ATT
3185865 A
1 A
3185866 AAAATATTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
11 2 0.04
12 22 0.48
13 9 0.20
14 2 0.04
15 3 0.07
16 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATATTTAATT
Found at i:3185832 original size:16 final size:16
Alignment explanation
Indices: 3185811--3185866 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
3185801 TATTTTTAAT
3185811 TATTTATTTAATTTTA
1 TATTTATTTAATTTTA
*
3185827 TATTTA--T-A-TATA
1 TATTTATTTAATTTTA
*
3185839 TATATATTTAATTTTA
1 TATTTATTTAATTTTA
3185855 TATTTATATTAA
1 TATTTAT-TTAA
3185867 AAATATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
12 8 0.26
13 1 0.03
14 2 0.06
15 1 0.03
16 15 0.48
17 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTATTTAATTTTA
Found at i:3185847 original size:28 final size:27
Alignment explanation
Indices: 3185815--3185885 Score: 101
Period size: 28 Copynumber: 2.7 Consensus size: 27
3185805 TTTAATTATT
* *
3185815 TATTTAATTTTATATTTATATATATATA
1 TATTTAATTTTATATTTATAT-TAAAAA
3185843 TATTTAATTTTATATTTATATTAAAAA
1 TATTTAATTTTATATTTATATTAAAAA
3185870 TA-TT-ATTTTATATTTA
1 TATTTAATTTTATATTTA
3185886 AAAATATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
25 12 0.29
26 2 0.05
27 6 0.15
28 21 0.51
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TATTTAATTTTATATTTATATTAAAAA
Found at i:3185881 original size:19 final size:21
Alignment explanation
Indices: 3185852--3185907 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
3185842 ATATTTAATT
3185852 TTATATTTATA-TTAAAAATA
1 TTATATTTATATTTAAAAATA
3185872 TTAT-TTTATATTTAAAAATA
1 TTATATTTATATTTAAAAATA
* * *
3185892 TTTTATTAATTTTTAA
1 TTATATTTATATTTAA
3185908 TCAGGTCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.19
20 16 0.52
21 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATATTTATATTTAAAAATA
Found at i:3186509 original size:8 final size:8
Alignment explanation
Indices: 3186498--3186527 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
3186488 ATTTTTATGT
3186498 TATATAAA
1 TATATAAA
3186506 TATATAAA
1 TATATAAA
*
3186514 TATATATA
1 TATATAAA
3186522 TATATA
1 TATATA
3186528 CCAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TATATAAA
Found at i:3189355 original size:13 final size:12
Alignment explanation
Indices: 3189331--3189363 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
3189321 ATACAAAAAG
3189331 ATTTATGTACTA
1 ATTTATGTACTA
3189343 ATTTATAGTACTA
1 ATTTAT-GTACTA
3189356 ATTTATGT
1 ATTTATGT
3189364 CCTATAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (12 bp):
ATTTATGTACTA
Found at i:3194836 original size:11 final size:11
Alignment explanation
Indices: 3194808--3194846 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
3194798 ATTTTAAATA
3194808 ATATTATTTTT
1 ATATTATTTTT
*
3194819 GTA-TATTTTT
1 ATATTATTTTT
3194829 ATATTATTTTT
1 ATATTATTTTT
*
3194840 ATGTTAT
1 ATATTAT
3194847 GTCAACGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:3197327 original size:29 final size:31
Alignment explanation
Indices: 3197246--3197327 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 31
3197236 TTCGATTTAA
* *
3197246 AATTAATAAAATATTATTTTTAAAATATAAATT
1 AATTAA-AAAA-ATAATTTATAAAATATAAATT
* * *
3197279 AAATAAAATATATAA-ATATAAAAT-T-AATT
1 AATTAAAA-AAATAATTTATAAAATATAAATT
3197308 AATTAAAAAAATAATTTATA
1 AATTAAAAAAATAATTTATA
3197328 TATATTAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
28 5 0.13
29 15 0.38
30 1 0.03
31 7 0.18
32 5 0.13
33 6 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
AATTAAAAAAATAATTTATAAAATATAAATT
Found at i:3206931 original size:104 final size:104
Alignment explanation
Indices: 3206793--3207000 Score: 371
Period size: 104 Copynumber: 2.0 Consensus size: 104
3206783 TATATGATAA
* *
3206793 TTATGAGCACCTTTTCTCCAGATCCTTGAATTCCTATAACGAAGGACGGAGATATGCTAGTTGAG
1 TTATGAGCACCTTTTCTCAAGAACCTTGAATTCCTATAACGAAGGACGGAGATATGCTAGTTGAG
*
3206858 GGATTAAATCTTCTAGGACTTTATTGATCCTTTAGCATG
66 GGATTAAATCTTCTAGGACTTTATTCATCCTTTAGCATG
* *
3206897 TTATGAGCAGCTTTTCTCAAGAACCTTGAATTCCTATAATGAAGGACGGAGATATGCTAGTTGAG
1 TTATGAGCACCTTTTCTCAAGAACCTTGAATTCCTATAACGAAGGACGGAGATATGCTAGTTGAG
3206962 GGATTAAATCTTCTAGGACTTTATTCATCCTTTAGCATG
66 GGATTAAATCTTCTAGGACTTTATTCATCCTTTAGCATG
3207001 CATATTTTAG
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 99 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (104 bp):
TTATGAGCACCTTTTCTCAAGAACCTTGAATTCCTATAACGAAGGACGGAGATATGCTAGTTGAG
GGATTAAATCTTCTAGGACTTTATTCATCCTTTAGCATG
Found at i:3211899 original size:5 final size:5
Alignment explanation
Indices: 3211889--3211914 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3211879 AATATATGTG
3211889 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
3211915 TTCTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:3211938 original size:13 final size:13
Alignment explanation
Indices: 3211920--3211944 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3211910 AAATATTCTT
3211920 TTTTTCTTTTTCC
1 TTTTTCTTTTTCC
3211933 TTTTTCTTTTTC
1 TTTTTCTTTTTC
3211945 TTGTCTATTA
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTTTTCC
Found at i:3213869 original size:2 final size:2
Alignment explanation
Indices: 3213862--3213908 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
3213852 TGTTGCGCTG
* *
3213862 AT AT AT AT AT AA AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3213904 AT AT A
1 AT AT A
3213909 AAGGCACATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3217125 original size:12 final size:12
Alignment explanation
Indices: 3217104--3217136 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3217094 TTTTTAAATG
3217104 TAAA-AATTAAA
1 TAAATAATTAAA
3217115 TAAATAATTAAA
1 TAAATAATTAAA
*
3217127 AAAATAATTA
1 TAAATAATTA
3217137 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TAAATAATTAAA
Found at i:3217932 original size:3 final size:3
Alignment explanation
Indices: 3217924--3217955 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3217914 TAACTCAAAA
*
3217924 TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3217956 ACCAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3222593 original size:22 final size:22
Alignment explanation
Indices: 3222565--3222645 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
3222555 TTTAAAATTA
*
3222565 ATAAAATATTAT-TTTTATAAAT
1 ATAAAATATTATATATT-TAAAT
3222587 ATAAAATATTATATATTTAAAT
1 ATAAAATATTATATATTTAAAT
* * *
3222609 AT-AAATATTTAAATATATAATT
1 ATAAAATA-TTATATATTTAAAT
3222631 ATATAAATA-TATATA
1 ATA-AAATATTATATA
3222646 ATAAAAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
21 5 0.10
22 37 0.74
23 3 0.06
24 5 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAAATATTATATATTTAAAT
Found at i:3222607 original size:16 final size:14
Alignment explanation
Indices: 3222590--3222645 Score: 67
Period size: 14 Copynumber: 3.8 Consensus size: 14
3222580 TATAAATATA
3222590 AAATATTATATATTT
1 AAATA-TATATATTT
*
3222605 AAATATAAATATTT
1 AAATATATATATTT
*
3222619 AAATATATAATTATAT
1 AAATATAT-A-TATTT
3222635 AAATATATATA
1 AAATATATATA
3222646 ATAAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.47
15 7 0.19
16 12 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATATATATATTT
Found at i:3222616 original size:14 final size:14
Alignment explanation
Indices: 3222580--3222641 Score: 63
Period size: 14 Copynumber: 4.3 Consensus size: 14
3222570 ATATTATTTT
*
3222580 TATAAATA-TAAAA
1 TATAAATATTTAAA
*
3222593 TATTATATATTTAAA
1 TA-TAAATATTTAAA
3222608 TATAAATATTTAAA
1 TATAAATATTTAAA
*
3222622 TATATAATTATATAAA
1 TATA-AA-TATTTAAA
3222638 TATA
1 TATA
3222642 TATAATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
13 2 0.05
14 20 0.49
15 8 0.20
16 11 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATAAATATTTAAA
Found at i:3222641 original size:8 final size:8
Alignment explanation
Indices: 3222580--3222648 Score: 65
Period size: 8 Copynumber: 9.0 Consensus size: 8
3222570 ATATTATTTT
3222580 TATAAATA
1 TATAAATA
3222588 TA-AAATA
1 TATAAATA
*
3222595 T-TATATA
1 TATAAATA
*
3222602 T-TTAA-A
1 TATAAATA
3222608 TATAAATA
1 TATAAATA
*
3222616 TTTAAATA
1 TATAAATA
*
3222624 TATAATTA
1 TATAAATA
3222632 TATAAATA
1 TATAAATA
3222640 TATATAATA
1 TATA-AATA
3222649 AAAAAATTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
6 2 0.04
7 16 0.33
8 27 0.55
9 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TATAAATA
Found at i:3235316 original size:19 final size:20
Alignment explanation
Indices: 3235278--3235316 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3235268 ATAATTATTG
*
3235278 TTAATATAATGTTATCTAATA
1 TTAATATAA-GTTATATAATA
3235299 TTAATATAA-TTATATAAT
1 TTAATATAAGTTATATAAT
3235317 CAAACCCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TTAATATAAGTTATATAATA
Found at i:3236716 original size:29 final size:26
Alignment explanation
Indices: 3236658--3236714 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
3236648 TGGATAATTT
** *
3236658 AAATGATTATTTAATTTTTTTTTATA
1 AAATGATTATTTAATGGTTTTGTATA
3236684 AAATGATTATTTACAGTGGTTTTGTATA
1 AAATGATTATTTA-A-TGGTTTTGTATA
3236712 AAA
1 AAA
3236715 ATATCTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.50
27 1 0.04
28 12 0.46
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.51
Consensus pattern (26 bp):
AAATGATTATTTAATGGTTTTGTATA
Found at i:3237007 original size:121 final size:122
Alignment explanation
Indices: 3236846--3237104 Score: 287
Period size: 125 Copynumber: 2.1 Consensus size: 122
3236836 TAGAAAGGCC
* * * * *
3236846 TTAAATTATCATTTTATTTTTTTCTATTATGGATCATTAAAAA-ATTTCCTTT-A-ATTTATAAA
1 TTAAATGATCATTTTATTTTTTTATATTATGGATAATTAAAAATA-ATCATTTAATATTTATAAA
*
3236908 AGAATTATTTAAGATGTTTTTGAATAAAAA-AGCCTTAAATAATTATTTTATGAAAAAAA
65 AGAATTATTTAAGATGTTTTTGAACAAAAATA-CCTTAAATAATTATTTTAT-AAAAAAA
* *
3236967 TTAAATGATCCTTTTA-TTTTTTATGTTATGGATAATTTAAAAATAATCATTTAATTTATTTATA
1 TTAAATGATCATTTTATTTTTTTATATTATGGATAA-TTAAAAATAATCATTTAA--TATTTATA
* * * * *
3237031 AAAGGATTATTTGAGATTTTTTTGTACAAAAATACCTTAAATAATTTTTTTAT-AAAAAA
63 AAAGAATTATTTAAGATGTTTTTGAACAAAAATACCTTAAATAATTATTTTATAAAAAAA
*
3237090 TTGCAATGATCATTT
1 TT-AAATGATCATTT
3237105 AAGGCATTTG
Statistics
Matches: 115, Mismatches: 15, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
120 16 0.14
121 26 0.23
122 2 0.02
123 8 0.07
124 10 0.09
125 52 0.45
126 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (122 bp):
TTAAATGATCATTTTATTTTTTTATATTATGGATAATTAAAAATAATCATTTAATATTTATAAAA
GAATTATTTAAGATGTTTTTGAACAAAAATACCTTAAATAATTATTTTATAAAAAAA
Found at i:3237589 original size:15 final size:15
Alignment explanation
Indices: 3237569--3237598 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3237559 AAAAATTTGT
3237569 GAATTTTCCTAAATC
1 GAATTTTCCTAAATC
3237584 GAATTTTCCTAAATC
1 GAATTTTCCTAAATC
3237599 AAACTCACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (15 bp):
GAATTTTCCTAAATC
Found at i:3237833 original size:14 final size:14
Alignment explanation
Indices: 3237813--3237859 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
3237803 TAAATATTAA
3237813 TTTTAATAAAATTT
1 TTTTAATAAAATTT
* *
3237827 ATTTAATATAATTT
1 TTTTAATAAAATTT
*
3237841 TTTTTAT-AAATTT
1 TTTTAATAAAATTT
3237854 TTTTAA
1 TTTTAA
3237860 AATTAAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAATAAAATTT
Found at i:3238285 original size:13 final size:13
Alignment explanation
Indices: 3238243--3238288 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
3238233 AATATATATT
*
3238243 TATATATTTTTTA
1 TATATAATTTTTA
3238256 GTAATATAATTTATTA
1 -T-ATATAATTT-TTA
3238272 TATATAATTTTTA
1 TATATAATTTTTA
3238285 TATA
1 TATA
3238289 AAATATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 7 0.24
14 10 0.34
15 9 0.31
16 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATATAATTTTTA
Found at i:3238327 original size:33 final size:33
Alignment explanation
Indices: 3238268--3238358 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
3238258 AATATAATTT
* *
3238268 ATTATATATAATT-TTTATATAAAATATAAAATA
1 ATTATATA-AATTATTAATATATAATATAAAATA
* *
3238301 ATTATATAAATTATTAATATTTAATATAATATA
1 ATTATATAAATTATTAATATATAATATAAAATA
* * *
3238334 AATACATAAATTATTAA-ATCTAATA
1 ATTATATAAATTATTAATATATAATA
3238359 AACAGCATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
32 11 0.22
33 39 0.78
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (33 bp):
ATTATATAAATTATTAATATATAATATAAAATA
Found at i:3239651 original size:20 final size:20
Alignment explanation
Indices: 3239626--3239689 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 20
3239616 AAAAATTATC
3239626 TTTATTTTAAAATAATATTT
1 TTTATTTTAAAATAATATTT
* *
3239646 TTTA-TTTCAAA-AATCTTT
1 TTTATTTTAAAATAATATTT
* **
3239664 TTT-TTTCAAAATTTTATTT
1 TTTATTTTAAAATAATATTT
3239683 TTTATTT
1 TTTATTT
3239690 CACATTTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 14 0.41
19 13 0.38
20 7 0.21
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTATTTTAAAATAATATTT
Found at i:3239674 original size:16 final size:16
Alignment explanation
Indices: 3239642--3239685 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
3239632 TTAAAATAAT
*
3239642 ATTTTTTATTTCAAAA
1 ATTTTTTTTTTCAAAA
3239658 ATCTTTTTTTTTC-AAA
1 AT-TTTTTTTTTCAAAA
3239674 ATTTTATTTTTT
1 ATTTT-TTTTTT
3239686 ATTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 13 0.52
17 9 0.36
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTTTTTTTTCAAAA
Found at i:3239690 original size:20 final size:19
Alignment explanation
Indices: 3239626--3239691 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
3239616 AAAAATTATC
*
3239626 TTTATTTTAAAATAATATTT
1 TTTATTTCAAAAT-ATATTT
*
3239646 TTTATTTCAAAA-ATCTTT
1 TTTATTTCAAAATATATTT
*
3239664 TTT-TTTCAAAATTTTATTT
1 TTTATTTCAAAA-TATATTT
3239683 TTTATTTCA
1 TTTATTTCA
3239692 CATTTATTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.21
18 8 0.21
19 7 0.18
20 16 0.41
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTTCAAAATATATTT
Found at i:3245279 original size:2 final size:2
Alignment explanation
Indices: 3245272--3245308 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3245262 GATATTTTGA
3245272 AT AT 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 AT AT A
3245309 GTATGTGTGT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3247135 original size:61 final size:61
Alignment explanation
Indices: 3247050--3247209 Score: 155
Period size: 61 Copynumber: 2.6 Consensus size: 61
3247040 TCAAATTGCC
* *
3247050 TTCCAATATATTGGTAATGA---TTTTTATTTTATTAAAATAATTTATTAAAATTTTGAATA
1 TTCCAATATATTGGTAA-GATTCTTTTTATTTTATTAAAATAATTTATTAAAAATTTGAACA
* * ** *** * * *
3247109 TTCCAATATGTTGGTAAGATTCTTTTTATTTAAACATTTTTATTTTTTAAAAATTTGAACC
1 TTCCAATATATTGGTAAGATTCTTTTTATTTTATTAAAATAATTTATTAAAAATTTGAACA
* *
3247170 CTCCAATATATTGGTAAGGTTCTTTTTATTTTATTTAAAA
1 TTCCAATATATTGGTAAGATTCTTTTTATTTTA-TTAAAA
3247210 AATATTTTTT
Statistics
Matches: 76, Mismatches: 21, Indels: 5
0.75 0.21 0.05
Matches are distributed among these distances:
58 2 0.03
59 16 0.21
61 57 0.75
62 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.51
Consensus pattern (61 bp):
TTCCAATATATTGGTAAGATTCTTTTTATTTTATTAAAATAATTTATTAAAAATTTGAACA
Found at i:3247225 original size:24 final size:24
Alignment explanation
Indices: 3247192--3247240 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
3247182 GGTAAGGTTC
3247192 TTTTTATTTTATTT-AAAAAATATT
1 TTTTTATTTT-TTTAAAAAAATATT
*
3247216 TTTTTCTTTTTTTAAAAAAATATT
1 TTTTTATTTTTTTAAAAAAATATT
3247240 T
1 T
3247241 ACAGATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTTATTTTTTTAAAAAAATATT
Found at i:3247265 original size:15 final size:15
Alignment explanation
Indices: 3247245--3247283 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
3247235 ATATTTACAG
* *
3247245 ATAAATGAATAACAA
1 ATAAATAAAGAACAA
3247260 ATAAATAAAGAACAA
1 ATAAATAAAGAACAA
3247275 ATAAATAAA
1 ATAAATAAA
3247284 ATAACTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (15 bp):
ATAAATAAAGAACAA
Found at i:3248688 original size:15 final size:15
Alignment explanation
Indices: 3248653--3248691 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
3248643 ATATTTACAG
*
3248653 ATAAATAAATAACAA
1 ATAAATAAAGAACAA
**
3248668 GCAAATAAAGAACAA
1 ATAAATAAAGAACAA
3248683 ATAAATAAA
1 ATAAATAAA
3248692 ATAATAAAAC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (15 bp):
ATAAATAAAGAACAA
Found at i:3248751 original size:18 final size:18
Alignment explanation
Indices: 3248717--3248751 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3248707 TGGAAAACAG
* *
3248717 ATAAATAAATAATTAAAC
1 ATAAATAAAAAAATAAAC
3248735 ATAAATAAAAAAATAAA
1 ATAAATAAAAAAATAAA
3248752 AAATACCATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
ATAAATAAAAAAATAAAC
Done.