Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 69 of 172
Found at i:19356340 original size:27 final size:27
Alignment explanation
Indices: 19356306--19356483 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19356296 TAAATTGTAC
19356306 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19356333 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19356359 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19356387 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19356415 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19356442 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19356469 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19356484 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19356420 original size:82 final size:81
Alignment explanation
Indices: 19356307--19356462 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19356297 AAATTGTACA
* *
19356307 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19356371 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19356388 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19356453 TGCGAGTTGA
65 TGCGAATTGA
19356463 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19356474 original size:82 final size:81
Alignment explanation
Indices: 19356303--19356483 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19356293 GAGTAAATTG
* *
19356303 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19356368 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19356384 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19356448 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19356466 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19356484 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19358400 original size:33 final size:33
Alignment explanation
Indices: 19358308--19358409 Score: 102
Period size: 33 Copynumber: 3.1 Consensus size: 33
19358298 GATTACTCTC
* * * *
19358308 TTCACTC-ATTTCTTTTACAAACTATCTTTCTTT
1 TTCACTCAATTTCTGTT-CAAGCTCTTTTTCTTT
*
19358341 TTCACTCAATTTCTGTTCAAGCTCTTTTTCCTT
1 TTCACTCAATTTCTGTTCAAGCTCTTTTTCTTT
*
19358374 TTCACTCAGTTTCT-TTCCAATG-TCTTTTTCTTT
1 TTCACTCAATTTCTGTT-CAA-GCTCTTTTTCTTT
19358407 TTC
1 TTC
19358410 TTTTCTTTCA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 2 0.03
33 48 0.81
34 9 0.15
ACGTcount: A:0.16, C:0.25, G:0.04, T:0.55
Consensus pattern (33 bp):
TTCACTCAATTTCTGTTCAAGCTCTTTTTCTTT
Found at i:19358415 original size:28 final size:28
Alignment explanation
Indices: 19358383--19358443 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
19358373 TTTCACTCAG
* *
19358383 TTTCTTTCCAATGTCTTTTTCTTTTTC-T
1 TTTCTTT-CAATGTCATTTTCATTTTCAT
*
19358411 TTTCTTTCAATTTCATTTTCATTTTCAT
1 TTTCTTTCAATGTCATTTTCATTTTCAT
19358439 TTTCT
1 TTTCT
19358444 CACTCGCACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.11, C:0.20, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTCTTTCAATGTCATTTTCATTTTCAT
Found at i:19368048 original size:47 final size:47
Alignment explanation
Indices: 19367986--19368075 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
19367976 TAGCTCCAGC
* * *
19367986 AAAGACAAGTTTAATGTCTAGATTCAGCTGGACAAATTAAATAGTACG
1 AAAGACAAGATTAATGACTAAATTCAGCTGGA-AAATTAAATAGTACG
*
19368034 AAAGACAA-ATTAATGACTAAATTCGGCTGGAAAATTAAATAG
1 AAAGACAAGATTAATGACTAAATTCAGCTGGAAAATTAAATAG
19368076 CAGCAGCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 11 0.29
47 19 0.50
48 8 0.21
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.26
Consensus pattern (47 bp):
AAAGACAAGATTAATGACTAAATTCAGCTGGAAAATTAAATAGTACG
Found at i:19369152 original size:17 final size:17
Alignment explanation
Indices: 19369098--19369155 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
19369088 GGAAAGTAGT
19369098 TTTGAGTGAAAATTCTC
1 TTTGAGTGAAAATTCTC
* ** * * *
19369115 TTTGAATTCAGATTTTT
1 TTTGAGTGAAAATTCTC
19369132 TTTGAGTGAAAATTCTC
1 TTTGAGTGAAAATTCTC
19369149 TTTGAGT
1 TTTGAGT
19369156 TTCTTCAAGA
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (17 bp):
TTTGAGTGAAAATTCTC
Found at i:19384003 original size:27 final size:26
Alignment explanation
Indices: 19383967--19384046 Score: 142
Period size: 27 Copynumber: 3.0 Consensus size: 26
19383957 AACATAAAAG
19383967 GGGGTTGCTAAGTGCTGATTCCTCCAA
1 GGGGTTGCTAAGTGCTGATTCC-CCAA
19383994 GGGGTTGCTAAGTGCTGATTCCCTCAA
1 GGGGTTGCTAAGTGCTGATTCCC-CAA
19384021 GGGGTTGCTAAGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
19384047 ATCATCAGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
26 4 0.08
27 48 0.92
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:19384073 original size:33 final size:33
Alignment explanation
Indices: 19384023--19384225 Score: 100
Period size: 33 Copynumber: 5.6 Consensus size: 33
19384013 TCCCTCAAGG
* *
19384023 GGTTGCTAAGTGCTGATTCCCCAAATCATCAGT
1 GGTTGCTAAGTGTTGATTCCCCAAATCATAAGT
*** *
19384056 GGTTGCTAAGTGTTGATTCCACCGTGTCTTTGGATATGAAAGG
1 GGTTGCTAAGTGTTGATTCC-CCAAATC-------AT--AAGT
* **
19384099 GGTTGCTAAGTGCTGATTCCCCAAATCATCGGT
1 GGTTGCTAAGTGTTGATTCCCCAAATCATAAGT
* * *
19384132 GGTTGCTAAGTGTTGATTCCACTGTAACGGATTGTATAAGG
1 GGTTGCTAAGTGTTGATTCC-C--CAA---A-T-CATAAGT
* **
19384173 GGTTGCTAAGTGTTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGTTGATTCCCCAAATCATAAGT
*
19384206 GGTTGCTAAGTGTTAATTCC
1 GGTTGCTAAGTGTTGATTCC
19384226 ACCATATTTT
Statistics
Matches: 126, Mismatches: 26, Indels: 36
0.67 0.14 0.19
Matches are distributed among these distances:
33 61 0.48
34 6 0.05
35 3 0.02
36 2 0.02
38 1 0.01
39 1 0.01
40 2 0.02
41 25 0.20
42 4 0.03
43 21 0.17
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGTTGATTCCCCAAATCATAAGT
Found at i:19384145 original size:76 final size:74
Alignment explanation
Indices: 19384019--19384274 Score: 309
Period size: 76 Copynumber: 3.4 Consensus size: 74
19384009 TGATTCCCTC
*
19384019 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCAGTGGTTGCTAAGTGTTGATTCCACCGTGTC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCACC-TGT-
19384084 TTTGGATATG-A
64 TTTGGAT-TGAA
**
19384095 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCA-CTGTAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCACCTGTTT
* *
19384159 CGGATTGTAT
66 TGGATTG-AA
* * * * *
19384169 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTAATTCCACCATATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCACC-T-GT
*
19384234 TTTGAATGTGCAA
64 TTTGGAT-TG-AA
19384247 AAGGGGGTTGCTAAGTGCTGATTTCCCC
1 AA-GGGGTTGCTAAGTGCTGA-TTCCCC
19384275 CAAGGGGTCG
Statistics
Matches: 155, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
72 2 0.01
73 4 0.03
74 57 0.37
75 2 0.01
76 58 0.37
77 4 0.03
78 5 0.03
79 17 0.11
80 6 0.04
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (74 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCACCTGTTT
TGGATTGAA
Found at i:19384207 original size:74 final size:75
Alignment explanation
Indices: 19384019--19384227 Score: 298
Period size: 74 Copynumber: 2.8 Consensus size: 75
19384009 TGATTCCCTC
*
19384019 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCAGTGGTTGCTAAGTGTTGATTCCACCGTGTC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCA-CGTGTC
***
19384084 TTTGGATATGA
65 AACGGATATGA
19384095 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCAC-TGT-A
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCACGTGTCA
19384158 ACGGAT-TGTA
66 ACGGATATG-A
* * * *
19384168 TAAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTAATTCCAC
1 -AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCAC
19384228 CATATTTTTG
Statistics
Matches: 123, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
72 2 0.02
73 5 0.04
74 58 0.47
75 1 0.01
76 57 0.46
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGTTGATTCCACGTGTCA
ACGGATATGA
Found at i:19386775 original size:18 final size:19
Alignment explanation
Indices: 19386747--19386782 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19386737 CGAATCTATC
19386747 AATTGAACACGAAACAGAA
1 AATTGAACACGAAACAGAA
*
19386766 AATT-AACACGCAACAGA
1 AATTGAACACGAAACAGA
19386783 TCACAACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.19, G:0.14, T:0.11
Consensus pattern (19 bp):
AATTGAACACGAAACAGAA
Found at i:19396338 original size:74 final size:75
Alignment explanation
Indices: 19396148--19396357 Score: 257
Period size: 74 Copynumber: 2.8 Consensus size: 75
19396138 TGATTCCCCC
* * * *
19396148 AAGGGGTTGCTAAGTGATAATTCCCCAAATCATCGGTGGTTGCTAAGTGTTTATTCCACCGTGTC
1 AAGGGGTTGCTAAGTGATGATTCCCTAAATCATCGGTGGTTGCTAAGTGTTGATTCCACCG-GTA
*
19396213 CTCGGATATGA
65 ATCGGATATGA
*
19396224 AAGGGGTTGCTAAGT-ACTGATTCCCTAAATCATCGGTGGTTGCTAAGTGCTGATTCCACC-GTA
1 AAGGGGTTGCTAAGTGA-TGATTCCCTAAATCATCGGTGGTTGCTAAGTGTTGATTCCACCGGTA
19396287 AT-GGAT-TGTA
65 ATCGGATATG-A
* * * * *
19396297 TAAGTGGTTGCTAAGTGTTGATTCCCTGAATCATTGGTGGTTGCTAAGTTTTGATTCCACC
1 -AAGGGGTTGCTAAGTGATGATTCCCTAAATCATCGGTGGTTGCTAAGTGTTGATTCCACC
19396358 ATATTTTTGA
Statistics
Matches: 118, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
72 2 0.02
73 5 0.04
74 56 0.47
75 1 0.01
76 54 0.46
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGATGATTCCCTAAATCATCGGTGGTTGCTAAGTGTTGATTCCACCGGTAA
TCGGATATGA
Found at i:19400107 original size:18 final size:18
Alignment explanation
Indices: 19400094--19400142 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
19400084 CACTTTTTTG
*
19400094 ATTTCTTTTTCTTTTGCA
1 ATTTCTTTTTCTTTTTCA
19400112 ATTTCTTTTTCTTTTTCA
1 ATTTCTTTTTCTTTTTCA
* *
19400130 CTTTATTTTTCTT
1 ATTTCTTTTTCTT
19400143 CTTTTTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.10, C:0.16, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTCTTTTTCTTTTTCA
Found at i:19402282 original size:20 final size:20
Alignment explanation
Indices: 19402257--19402301 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
19402247 TAAATACACA
19402257 TAATTAAAATT-AGACACAAT
1 TAATT-AAATTAAGACACAAT
*
19402277 TAATTAAGTTAAGACACAAT
1 TAATTAAATTAAGACACAAT
19402297 TAATT
1 TAATT
19402302 CGGTTAGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (20 bp):
TAATTAAATTAAGACACAAT
Found at i:19402307 original size:20 final size:19
Alignment explanation
Indices: 19402266--19402311 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
19402256 ATAATTAAAA
19402266 TTAGACACAATTAATTAAG
1 TTAGACACAATTAATTAAG
**
19402285 TTAAGACACAATTAATTCGG
1 TT-AGACACAATTAATTAAG
19402305 TTAGACA
1 TTAGACA
19402312 AGACATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (19 bp):
TTAGACACAATTAATTAAG
Found at i:19403264 original size:47 final size:47
Alignment explanation
Indices: 19403202--19403291 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
19403192 TAGCTCCAGC
* * *
19403202 AAAGACAAGTTTAATGTCTAGATTCAGCTGGACAAATTAAATAGTAGG
1 AAAGACAAGATTAATGACTAAATTCAGCTGGA-AAATTAAATAGTAGG
*
19403250 AAAGACAA-ATTAATGACTAAATTCGGCTGGAAAATTAAATAG
1 AAAGACAAGATTAATGACTAAATTCAGCTGGAAAATTAAATAG
19403292 CAGCAGCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 11 0.29
47 19 0.50
48 8 0.21
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.26
Consensus pattern (47 bp):
AAAGACAAGATTAATGACTAAATTCAGCTGGAAAATTAAATAGTAGG
Found at i:19404192 original size:20 final size:20
Alignment explanation
Indices: 19404167--19404209 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
19404157 CTTTAAATAC
19404167 TTAGTTTTAATTTTTAGACT
1 TTAGTTTTAATTTTTAGACT
19404187 TTAGTTTTAATTTTTAGACT
1 TTAGTTTTAATTTTTAGACT
19404207 TTA
1 TTA
19404210 TGAATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (20 bp):
TTAGTTTTAATTTTTAGACT
Found at i:19404387 original size:17 final size:17
Alignment explanation
Indices: 19404333--19404390 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
19404323 GGAAAGTAGT
19404333 TTTGAGTGAAAATTCTC
1 TTTGAGTGAAAATTCTC
* ** * * *
19404350 TTTGAATTCAGATTTTT
1 TTTGAGTGAAAATTCTC
19404367 TTTGAGTGAAAATTCTC
1 TTTGAGTGAAAATTCTC
19404384 TTTGAGT
1 TTTGAGT
19404391 TTCTCCAAGA
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (17 bp):
TTTGAGTGAAAATTCTC
Found at i:19418857 original size:20 final size:20
Alignment explanation
Indices: 19418832--19418876 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
19418822 TAAATACACA
19418832 TAATTAAAATT-AGACACAAT
1 TAATT-AAATTAAGACACAAT
*
19418852 TAATTAAGTTAAGACACAAT
1 TAATTAAATTAAGACACAAT
19418872 TAATT
1 TAATT
19418877 CAGTTGGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (20 bp):
TAATTAAATTAAGACACAAT
Found at i:19418881 original size:20 final size:20
Alignment explanation
Indices: 19418843--19418881 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19418833 AATTAAAATT
19418843 AGACACAATTAATTAAGTTA
1 AGACACAATTAATTAAGTTA
*
19418863 AGACACAATTAATTCAGTT
1 AGACACAATTAATTAAGTT
19418882 GGATAAGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (20 bp):
AGACACAATTAATTAAGTTA
Found at i:19425452 original size:18 final size:16
Alignment explanation
Indices: 19425418--19425453 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
19425408 CAATATAATA
19425418 TATTTTTAATAACTTT
1 TATTTTTAATAACTTT
19425434 TATTTTATAATATACTTT
1 TATTTT-TAATA-ACTTT
19425452 TA
1 TA
19425454 AAAGCCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTTAATAACTTT
Found at i:19430610 original size:8 final size:8
Alignment explanation
Indices: 19430597--19430628 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
19430587 GAAGATAATG
19430597 AAGAAAAA
1 AAGAAAAA
19430605 AAGAAAAA
1 AAGAAAAA
19430613 GAAGAAAAA
1 -AAGAAAAA
19430622 AAGAAAA
1 AAGAAAA
19430629 TGGACAGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:19430616 original size:17 final size:17
Alignment explanation
Indices: 19430596--19430628 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19430586 TGAAGATAAT
19430596 GAAGAAAAAAAGAAAAA
1 GAAGAAAAAAAGAAAAA
19430613 GAAGAAAAAAAGAAAA
1 GAAGAAAAAAAGAAAA
19430629 TGGACAGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
GAAGAAAAAAAGAAAAA
Found at i:19432031 original size:88 final size:88
Alignment explanation
Indices: 19431877--19432191 Score: 468
Period size: 88 Copynumber: 3.6 Consensus size: 88
19431867 AACAGATCAG
* * *
19431877 TGAATATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGAAGACACCAGCATTGCCT
1 TGAAGATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
19431942 CCATCGGTTGTAGTGGATCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
*
19431965 TGAAGATAGTAGATCTTGCCTTCCTGCAACGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
19432030 CCCTCGGTTGCAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* * ** * ** *
19432053 TAAAAATAACAGATCTTGCCTTCCTACACCGACAATGAAGCAGATCGAAGACACCAACCTTGCCT
1 TGAAGATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
19432118 CCCTCGGTTGCAGTGGAGCAGGT
66 CCCTCGGTTGCAGTGGAGCAGGT
* * *
19432141 TGAAGATAGTAGATCTTGCCTTCCTGCATCGATAGCGAAGCAGTTCGAAGA
1 TGAAGATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA
19432192 TGGTAAGCCC
Statistics
Matches: 201, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 201 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (88 bp):
TGAAGATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTCGGTTGCAGTGGAGCAGGT
Found at i:19432159 original size:44 final size:44
Alignment explanation
Indices: 19431915--19432161 Score: 119
Period size: 44 Copynumber: 5.6 Consensus size: 44
19431905 CCGACAGCGA
* * * *
19431915 AGCAGATTGAAGACACCAG--CATTGCCTCCATCGGTTGTAGTGG
1 AGCAGGTTGAAGATACCAGATC-TTGCCTCCCTCGGTTGCAGTGG
* ** * *** * *
19431958 ATCAGGTTGAAGATAGTAGATCTTGCCTTCCT-GCAACGACAGCGA
1 AGCAGGTTGAAGATACCAGATCTTGCCTCCCTCG-GTTG-CAGTGG
* * * *
19432003 AGCAGATCGAAGACACCAG-CCTTGCCTCCCTCGGTTGCAGTGG
1 AGCAGGTTGAAGATACCAGATCTTGCCTCCCTCGGTTGCAGTGG
* * * * *** * *
19432046 AGCAGGTTAAAAATAACAGATCTTGCCTTCCTAC-ACCGACAATGA
1 AGCAGGTTGAAGATACCAGATCTTGCCTCCCT-CGGTTG-CAGTGG
* * * *
19432091 AGCAGATCGAAGACACCA-ACCTTGCCTCCCTCGGTTGCAGTGG
1 AGCAGGTTGAAGATACCAGATCTTGCCTCCCTCGGTTGCAGTGG
**
19432134 AGCAGGTTGAAGATAGTAGATCTTGCCT
1 AGCAGGTTGAAGATACCAGATCTTGCCT
19432162 TCCTGCATCG
Statistics
Matches: 136, Mismatches: 58, Indels: 19
0.64 0.27 0.09
Matches are distributed among these distances:
43 50 0.37
44 51 0.38
45 35 0.26
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (44 bp):
AGCAGGTTGAAGATACCAGATCTTGCCTCCCTCGGTTGCAGTGG
Found at i:19432236 original size:44 final size:44
Alignment explanation
Indices: 19432200--19432430 Score: 306
Period size: 44 Copynumber: 5.2 Consensus size: 44
19432190 GATGGTAAGC
* *
19432200 CCTATCTCCCTGACCAGTAGTGGAATAGGTGGAAGATTGTAAGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTATGT
*
19432244 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTATGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTATGT
* * *
19432288 CCTATCTCCCTGACTAGCAGCGGAATAGAG-AGAAGATTGTATGT
1 CCTATCTCCCTGACCAGCAGTGGAATAG-GTGGAAGATTGTATGT
* * *
19432332 CCTATCTCCCTAACCAGTAGTGGAATAGCTGGAAGATTGTATGT
1 CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTATGT
* *
19432376 CCTATCTCCCTGAACAACAGTGGAATAGGTTGG-AGATTGTA-GAT
1 CCTATCTCCCTGACCAGCAGTGGAATAGG-TGGAAGATTGTATG-T
*
19432420 CCTGTCTCCCT
1 CCTATCTCCCT
19432431 AAGCAGTAGT
Statistics
Matches: 165, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
43 1 0.01
44 160 0.97
45 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGACCAGCAGTGGAATAGGTGGAAGATTGTATGT
Found at i:19432455 original size:88 final size:87
Alignment explanation
Indices: 19432185--19432455 Score: 278
Period size: 88 Copynumber: 3.1 Consensus size: 87
19432175 GCGAAGCAGT
* * * * *
19432185 TCGAAGATGGTAAGCCCTATCTCCCTGACCAGTAGTGGAATAGGTGGAAGATTGTA-AGTCCTAT
1 TCGAAGATTGTATGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGG-AGATTGTAGA-TCCTAT
* * * *
19432249 CTCCCTGACCAGCAGTGGAATAGG
64 CTCCCTAACCAGTAGTGGAACAGA
* * * *
19432273 TTGAAGATTGTATGTCCTATCTCCCTG-ACTAGCAGCGGAATAGAGAGAAGATTGTATG-TCCTA
1 TCGAAGATTGTATGTCCTATCTCCCTGAAC-AGCAGTGGAATAG-GTGGAGATTGTA-GATCCTA
* *
19432336 TCTCCCTAACCAGTAGTGGAATAGC
63 TCTCCCTAACCAGTAGTGGAACAGA
* * *
19432361 TGGAAGATTGTATGTCCTATCTCCCTGAACAACAGTGGAATAGGTTGGAGATTGTAGATCCTGTC
1 TCGAAGATTGTATGTCCTATCTCCCTGAACAGCAGTGGAATAGG-TGGAGATTGTAGATCCTATC
* * *
19432426 TCCCTAAGCAGTAGTAGAGCAGA
65 TCCCTAACCAGTAGTGGAACAGA
19432449 TCGAAGA
1 TCGAAGA
19432456 CGGCGAATCT
Statistics
Matches: 152, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
87 3 0.02
88 145 0.95
89 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (87 bp):
TCGAAGATTGTATGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAGATTGTAGATCCTATCT
CCCTAACCAGTAGTGGAACAGA
Found at i:19432455 original size:132 final size:134
Alignment explanation
Indices: 19432179--19432455 Score: 359
Period size: 132 Copynumber: 2.1 Consensus size: 134
19432169 TCGATAGCGA
* * *
19432179 AGCAGTTCGAAGATGGTAAGCCCTATCTCCCTGACCAGTAGTGGAATAGGTGGAAGATTGTAAGT
1 AGCAGATCGAAGATGGTAAGCCCTATCTCCCTAACCAGTAGTGGAATAGCTGGAAGATTGTAAGT
* *
19432244 CCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTATGTCCTATCTCCCTGACTAGCAGC
66 CCTATCTCCCTGAACAACAGTGGAATAGGTTGAAGATTGTATGTCCTATCTCCCTGAC-AGCAGC
* *
19432309 GGAAT
130 AGAAG
* * * *
19432314 AG-AGA--GAAGATTGTATGTCCTATCTCCCTAACCAGTAGTGGAATAGCTGGAAGATTGTATGT
1 AGCAGATCGAAGATGGTAAGCCCTATCTCCCTAACCAGTAGTGGAATAGCTGGAAGATTGTAAGT
* * *
19432376 CCTATCTCCCTGAACAACAGTGGAATAGGTTGGAGATTGTA-GATCCTGTCTCCCT-A-AGCAGT
66 CCTATCTCCCTGAACAACAGTGGAATAGGTTGAAGATTGTATG-TCCTATCTCCCTGACAGCAGC
*
19432438 AGTAG
130 AGAAG
19432443 AGCAGATCGAAGA
1 AGCAGATCGAAGA
19432456 CGGCGAATCT
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
129 9 0.07
130 3 0.02
131 2 0.02
132 105 0.85
134 2 0.02
135 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (134 bp):
AGCAGATCGAAGATGGTAAGCCCTATCTCCCTAACCAGTAGTGGAATAGCTGGAAGATTGTAAGT
CCTATCTCCCTGAACAACAGTGGAATAGGTTGAAGATTGTATGTCCTATCTCCCTGACAGCAGCA
GAAG
Found at i:19433987 original size:23 final size:21
Alignment explanation
Indices: 19433956--19434002 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
19433946 AAATCAGCCC
*
19433956 ATTGTTTTATTAATTAGTTTAAT
1 ATTGATTTATT-ATTA-TTTAAT
*
19433979 ATTGATTTATTATTATTTATT
1 ATTGATTTATTATTATTTAAT
19434000 ATT
1 ATT
19434003 TTTATTGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 4 0.18
23 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (21 bp):
ATTGATTTATTATTATTTAAT
Found at i:19434209 original size:18 final size:16
Alignment explanation
Indices: 19434175--19434210 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
19434165 TAATATAATA
19434175 TATTTTTAATAACTTT
1 TATTTTTAATAACTTT
19434191 TATTTTATAATATACTTT
1 TATTTT-TAATA-ACTTT
19434209 TA
1 TA
19434211 AAAGCCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTTAATAACTTT
Found at i:19436496 original size:18 final size:19
Alignment explanation
Indices: 19436468--19436503 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
19436458 CGAATCTATC
19436468 AATTGAACACGAAACAGAA
1 AATTGAACACGAAACAGAA
*
19436487 AATT-AACACGCAACAGA
1 AATTGAACACGAAACAGA
19436504 TCACAACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.19, G:0.14, T:0.11
Consensus pattern (19 bp):
AATTGAACACGAAACAGAA
Found at i:19443763 original size:15 final size:15
Alignment explanation
Indices: 19443726--19443776 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
19443716 TTGAGTGAGA
* *
19443726 AAAAGAAAAATAGAG
1 AAAAGAAAAAGAGTG
*
19443741 -AAACAAAAAGAGTG
1 AAAAGAAAAAGAGTG
*
19443755 AAAAGAAAAAGAATG
1 AAAAGAAAAAGAGTG
*
19443770 AACAGAA
1 AAAAGAA
19443777 TGATGAAAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.06
Consensus pattern (15 bp):
AAAAGAAAAAGAGTG
Found at i:19450342 original size:33 final size:33
Alignment explanation
Indices: 19450300--19450424 Score: 108
Period size: 33 Copynumber: 3.5 Consensus size: 33
19450290 ATATGAAAGG
*
19450300 GGTTGCTAAGTACTGATTCCCCAAATCATCGGT
1 GGTTGCTAAGTACTGATTCCCCAAATCATAGGT
* *
19450333 GGTTGCTAAGTGCTGATTCCACCGTAACGGATTGTATAAGG-
1 GGTTGCTAAGTACTGATTCC-CC--AA---A-T-CAT-AGGT
* * *
19450374 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTACTGATTCCCCAAATCATAGGT
19450407 GGTTGCTAAGTACTGATT
1 GGTTGCTAAGTACTGATT
19450425 TCACCATATT
Statistics
Matches: 75, Mismatches: 7, Indels: 20
0.74 0.07 0.20
Matches are distributed among these distances:
32 2 0.03
33 38 0.51
34 3 0.04
35 1 0.01
36 2 0.03
38 1 0.01
39 1 0.01
40 3 0.04
41 22 0.29
42 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTACTGATTCCCCAAATCATAGGT
Found at i:19450408 original size:74 final size:75
Alignment explanation
Indices: 19450220--19450429 Score: 264
Period size: 74 Copynumber: 2.8 Consensus size: 75
19450210 TGATTCCCCC
* * * * *
19450220 AAGGGGTTGCTAAGTGATAATTCCCCAAATCATCAGTGGTTGCTAAGTGTTTATTCCACCGTGTC
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCG-GTC
**
19450285 TTCGGATATGA
65 AACGGATATGA
*
19450296 AAGGGGTTGCTAAGTACTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACC-GT-A
1 AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCGGTCA
19450359 ACGGAT-TGTA
66 ACGGATATG-A
* * * *
19450369 TAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATTTCACC
1 -AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACC
19450430 ATATTTTTGA
Statistics
Matches: 119, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
72 2 0.02
73 6 0.05
74 57 0.48
76 54 0.45
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCAAATCATCGGTGGTTGCTAAGTGCTGATTCCACCGGTCA
ACGGATATGA
Found at i:19453987 original size:18 final size:18
Alignment explanation
Indices: 19453905--19454027 Score: 72
Period size: 18 Copynumber: 6.6 Consensus size: 18
19453895 ATTTTCTCTC
*
19453905 TTTTCTTTTTT-ATCATCT
1 TTTTCTTTTTTAAT-TTCT
*
19453923 TTTTCTTTTTCAATTTTCTT
1 TTTTCTTTTTTAA-TTTC-T
19453943 TTCTTCTTCTTCTT--TTTCT
1 TT-TTCTT-TT-TTAATTTCT
* ** *
19453962 CTCACTTTTTTGATTTCT
1 TTTTCTTTTTTAATTTCT
**
19453980 TTTTCTTTTGCAATTTCT
1 TTTTCTTTTTTAATTTCT
* *
19453998 TTTTCTTTTTCACTTTCT
1 TTTTCTTTTTTAATTTCT
19454016 TTTTCTTCTTTT
1 TTTTCTT-TTTT
19454028 TCATTTTTAT
Statistics
Matches: 81, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
16 2 0.02
17 2 0.02
18 53 0.65
19 8 0.10
20 8 0.10
21 5 0.06
22 2 0.02
23 1 0.01
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTCTTTTTTAATTTCT
Found at i:19454034 original size:6 final size:6
Alignment explanation
Indices: 19453920--19454022 Score: 64
Period size: 6 Copynumber: 16.7 Consensus size: 6
19453910 TTTTTTATCA
* * * * *
19453920 TCTTTT TCTTTT TCAATTT TCTTTTCT TCTTCT TCTTTT TCTCTC ACTTTT
1 TCTTTT TCTTTT TC-TTTT TC-TTT-T TCTTTT TCTTTT TCTTTT TCTTTT
* * ** **
19453971 T-TGATT TCTTTT TCTTTT GCAATT TCTTTT TCTTTT TCACTT TCTTTT
1 TCT-TTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
19454019 TCTT
1 TCTT
19454023 CTTTTTCATT
Statistics
Matches: 70, Mismatches: 23, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
5 1 0.01
6 56 0.80
7 10 0.14
8 3 0.04
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (6 bp):
TCTTTT
Found at i:19456434 original size:19 final size:20
Alignment explanation
Indices: 19456399--19456436 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19456389 CAAGCTGATT
*
19456399 TTAGCTCAATTTTAGCTCCC
1 TTAGCTCAATTTCAGCTCCC
19456419 TTAGCTC-ATTTCAGCTCC
1 TTAGCTCAATTTCAGCTCC
19456437 AACCAGCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (20 bp):
TTAGCTCAATTTCAGCTCCC
Found at i:19456662 original size:13 final size:14
Alignment explanation
Indices: 19456636--19456668 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19456626 AATAGCTATG
19456636 TTTTTAATTAATTA
1 TTTTTAATTAATTA
19456650 TTTTTAATT-ATTA
1 TTTTTAATTAATTA
19456663 TGTTTT
1 T-TTTT
19456669 GTTGCTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTTTAATTAATTA
Found at i:19458903 original size:18 final size:18
Alignment explanation
Indices: 19458869--19458911 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
19458859 ATGTGAAAAA
19458869 GAAAAAGAAAAAGAAATT
1 GAAAAAGAAAAAGAAATT
* *
19458887 GCAAAAGAAAAATAAATT
1 GAAAAAGAAAAAGAAATT
19458905 GAAAAAG
1 GAAAAAG
19458912 TGAGAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAATT
Found at i:19461117 original size:19 final size:19
Alignment explanation
Indices: 19461093--19461141 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
19461083 TTTTAGTTCA
*
19461093 ATTTCAGCTCC-CTTAGCTC
1 ATTTCAGCTCCAC-CAGCTC
19461112 ATTTCAGCTCCAACCAGCTC
1 ATTTCAGCTCC-ACCAGCTC
19461132 ATTTCAGCTC
1 ATTTCAGCTC
19461142 AATTCTATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.41
20 15 0.56
21 1 0.04
ACGTcount: A:0.20, C:0.37, G:0.10, T:0.33
Consensus pattern (19 bp):
ATTTCAGCTCCACCAGCTC
Found at i:19461355 original size:15 final size:16
Alignment explanation
Indices: 19461318--19461355 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19461308 TTTAATAGCC
*
19461318 ATGTTTTTAATTAATT
1 ATGTTTTTAATTAACT
*
19461334 ATTTTTTTAATT-ACT
1 ATGTTTTTAATTAACT
19461349 ATGTTTT
1 ATGTTTT
19461356 GTTGCTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
ATGTTTTTAATTAACT
Found at i:19476902 original size:19 final size:19
Alignment explanation
Indices: 19476878--19476916 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
19476868 AATAAATTAC
*
19476878 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
19476897 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
19476916 T
1 T
19476917 GCTGGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:19476970 original size:19 final size:19
Alignment explanation
Indices: 19476932--19476970 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19476922 AATAAATTAC
* *
19476932 TCATCTTGGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
*
19476951 TCATCTTAGTTCATTAAGT
1 TCATCTTAGTTAATTAAGT
19476970 T
1 T
19476971 GTTGGAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:19477016 original size:54 final size:54
Alignment explanation
Indices: 19476856--19477035 Score: 272
Period size: 54 Copynumber: 3.3 Consensus size: 54
19476846 CAACCCATTT
* *
19476856 TTAATTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAA
1 TTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTCA
*
19476910 TTAAGTTGCTGGAATAAATTACTCATCTTGGTTAATTGAGTTCATCTTAGTTCA
1 TTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTCA
* * *
19476964 TTAAGTTGTTGGAATAAATTACTCATCTTAGTTAATTAAGTTCAACTTAGTTCA
1 TTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTCA
* *
19477018 CTT-AGTTGATGGATTAAA
1 -TTAAGTTGCTGGAATAAA
19477036 CTTTTAATGT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 114 0.98
55 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (54 bp):
TTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTCA
Found at i:19494366 original size:11 final size:11
Alignment explanation
Indices: 19494350--19494389 Score: 59
Period size: 10 Copynumber: 3.9 Consensus size: 11
19494340 CTTCAAAAAA
19494350 AATTTTTTTTG
1 AATTTTTTTTG
19494361 AA-TTTTTTTG
1 AATTTTTTTTG
19494371 AATTTTTTTT-
1 AATTTTTTTTG
19494381 -ATTTTTTTT
1 AATTTTTTTT
19494390 CAAATTTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.32
10 10 0.36
11 9 0.32
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:19494395 original size:21 final size:21
Alignment explanation
Indices: 19494349--19494396 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
19494339 ACTTCAAAAA
19494349 AAATTTTTTTTGAATTTTTTT
1 AAATTTTTTTTGAATTTTTTT
* *
19494370 GAATTTTTTTT-ATTTTTTTT
1 AAATTTTTTTTGAATTTTTTT
19494390 CAAATTT
1 -AAATTT
19494397 CCTCTTCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (21 bp):
AAATTTTTTTTGAATTTTTTT
Found at i:19500218 original size:20 final size:19
Alignment explanation
Indices: 19500173--19500225 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
19500163 AGCTCCAATT
*
19500173 AGCTCATTTCCAGCTCCATG
1 AGCTCATTT-CAACTCCATG
* *
19500193 AACTCATTTCAACTCCTTTG
1 AGCTCATTTCAACTCC-ATG
19500213 AGCTCAATTTCAA
1 AGCTC-ATTTCAA
19500226 AATTTGAGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.22
20 14 0.52
21 7 0.26
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.34
Consensus pattern (19 bp):
AGCTCATTTCAACTCCATG
Found at i:19506521 original size:20 final size:20
Alignment explanation
Indices: 19506498--19506558 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
19506488 CAACTCCGAC
*
19506498 CAGCTCAATTGAGCACATTT
1 CAGCTCAATTGAGCTCATTT
*
19506518 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
19506539 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
19506559 ATTTTATTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 22 0.63
21 13 0.37
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:19507925 original size:11 final size:12
Alignment explanation
Indices: 19507902--19507938 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
19507892 AAAAAAATCG
19507902 AAATTCAAAAAA
1 AAATTCAAAAAA
19507914 AAATTCAAAAAA
1 AAATTCAAAAAA
* *
19507926 AAAGTGAAAAAA
1 AAATTCAAAAAA
19507938 A
1 A
19507939 TCGAGCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:19507950 original size:27 final size:27
Alignment explanation
Indices: 19507920--19507993 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
19507910 AAAAAAATTC
19507920 AAAAAAAAAGTGAAAAAAA-TCGAGCAA
1 AAAAAAAAAGTGAAAAAAAGT-GAGCAA
*
19507947 AAAAAAAGAA-AGAAAAAAAGTGAGCAA
1 AAAAAAA-AAGTGAAAAAAAGTGAGCAA
* *
19507974 AAAAAATCAAGTTAAAAAAA
1 AAAAAA-AAAGTGAAAAAAA
19507994 AAGTGAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 29 0.74
28 10 0.26
ACGTcount: A:0.73, C:0.05, G:0.14, T:0.08
Consensus pattern (27 bp):
AAAAAAAAAGTGAAAAAAAGTGAGCAA
Found at i:19508890 original size:18 final size:18
Alignment explanation
Indices: 19508869--19508903 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19508859 AGAAAAGAAA
19508869 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
19508887 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
19508904 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:19510990 original size:10 final size:10
Alignment explanation
Indices: 19510974--19511031 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
19510964 CAACTCCGAC
19510974 CAGCTCAATT
1 CAGCTCAATT
* *
19510984 GAGCTCATTT
1 CAGCTCAATT
19510994 CAGCTCAA-T
1 CAGCTCAATT
19511003 CGAGCTCAATT
1 C-AGCTCAATT
*
19511014 TAGCTACAATT
1 CAGCT-CAATT
19511025 CAGCTCA
1 CAGCTCA
19511032 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:19510997 original size:20 final size:20
Alignment explanation
Indices: 19510974--19511034 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
19510964 CAACTCCGAC
19510974 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
19510994 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
19511015 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
19511035 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:19520376 original size:21 final size:20
Alignment explanation
Indices: 19520350--19520398 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
19520340 TTCTTTTTCA
19520350 TTTTCTTTTGAATCACTC-TCT
1 TTTTCTTTT--ATCACTCATCT
19520371 TTTTC-TTTATCACTCATCT
1 TTTTCTTTTATCACTCATCT
*
19520390 TTTTGTTTT
1 TTTTCTTTT
19520399 TCCTCTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 7 0.28
20 6 0.24
21 5 0.20
ACGTcount: A:0.12, C:0.20, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTCTTTTATCACTCATCT
Found at i:19523975 original size:48 final size:47
Alignment explanation
Indices: 19523896--19524001 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
19523886 GAGTGTCATG
*
19523896 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
19523944 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
19523992 GAAAAAGAAA
1 GAAAAAGAAA
19524002 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:19525720 original size:20 final size:20
Alignment explanation
Indices: 19525674--19525720 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
19525664 AGCTCGTTTC
*
19525674 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
19525694 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
19525714 CAGCTCA
1 CAGCTCA
19525721 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:19528401 original size:48 final size:47
Alignment explanation
Indices: 19528322--19528427 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
19528312 GAGTGTCATG
*
19528322 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
19528370 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
19528418 GAAAAAGAAA
1 GAAAAAGAAA
19528428 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:19530142 original size:20 final size:20
Alignment explanation
Indices: 19530096--19530142 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
19530086 AGCTCGTTTC
*
19530096 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
19530116 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
19530136 CAGCTCA
1 CAGCTCA
19530143 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:19535495 original size:24 final size:24
Alignment explanation
Indices: 19535468--19535513 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
19535458 GAAACATCAT
19535468 GTGAAAAAGAAAAAGAAAAAGAGC
1 GTGAAAAAGAAAAAGAAAAAGAGC
*** *
19535492 GTGAGCGAGAAAATGAAAAAGA
1 GTGAAAAAGAAAAAGAAAAAGA
19535514 AAAAGAAATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.61, C:0.04, G:0.28, T:0.07
Consensus pattern (24 bp):
GTGAAAAAGAAAAAGAAAAAGAGC
Found at i:19535529 original size:15 final size:16
Alignment explanation
Indices: 19535509--19535540 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
19535499 AGAAAATGAA
19535509 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
19535524 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
19535540 A
1 A
19535541 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:19536427 original size:12 final size:12
Alignment explanation
Indices: 19536410--19536436 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19536400 GACGTCAAGC
19536410 CAAGGTGAGTAT
1 CAAGGTGAGTAT
19536422 CAAGGTGAGTAT
1 CAAGGTGAGTAT
19536434 CAA
1 CAA
19536437 ATTGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.22
Consensus pattern (12 bp):
CAAGGTGAGTAT
Found at i:19537235 original size:41 final size:41
Alignment explanation
Indices: 19537170--19537255 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
19537160 TTTAATTAGG
*
19537170 TGTTTTAAATATGTCTGGACGAATTTAATGCTGCCACTACA
1 TGTTATAAATATGTCTGGACGAATTTAATGCTGCCACTACA
* *
19537211 TGTTATAAATATGTCTGGATGAATTTAATGCTGCTACTACA
1 TGTTATAAATATGTCTGGACGAATTTAATGCTGCCACTACA
19537252 TGTT
1 TGTT
19537256 TGGCCGAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (41 bp):
TGTTATAAATATGTCTGGACGAATTTAATGCTGCCACTACA
Found at i:19545923 original size:13 final size:13
Alignment explanation
Indices: 19545907--19545945 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
19545897 TGAAGTAAGT
19545907 ATTTGAAAAAAAA
1 ATTTGAAAAAAAA
19545920 ATTTG-AAAAAAA
1 ATTTGAAAAAAAA
*
19545932 A-TTCAAAAAAAA
1 ATTTGAAAAAAAA
19545944 AT
1 AT
19545946 ATTATTTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 16 0.70
13 5 0.22
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (13 bp):
ATTTGAAAAAAAA
Found at i:19549844 original size:47 final size:47
Alignment explanation
Indices: 19549775--19550465 Score: 1094
Period size: 47 Copynumber: 14.4 Consensus size: 47
19549765 CGGCCAAGAC
*
19549775 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
19549822 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
19549869 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
19549918 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
19549965 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
19550014 AAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
19550061 AAAGTGTATATATGTGAAAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
19550108 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
19550157 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
19550204 AAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
19550255 AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
19550302 AAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
19550351 AAGGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * * * * *
19550398 AAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGACGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
19550445 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
19550466 TTCCGAAGGG
Statistics
Matches: 600, Mismatches: 32, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
47 373 0.62
49 181 0.30
51 46 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:19549889 original size:96 final size:95
Alignment explanation
Indices: 19549775--19550465 Score: 1079
Period size: 96 Copynumber: 7.2 Consensus size: 95
19549765 CGGCCAAGAC
19549775 AAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 AAAGTGTTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19549839 TAAGGCCTAATGGCCGATGTGATGAATGTG
66 TAAGGCCTAATGGCCGATGTGATGAATGTG
*
19549869 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 AAAGTGT-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
19549934 ATAAGGCCTAATAGCCGATGTGATGAATGTG
65 ATAAGGCCTAATGGCCGATGTGATGAATGTG
*
19549965 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 AAAGTGT-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG
*
19550030 ATAAGGCCGAATGGCCGATGTGATGAATGTG
65 ATAAGGCCTAATGGCCGATGTGATGAATGTG
*
19550061 AAAGTG-TATATATGTGAAAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 AAAGTGTTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGT
19550125 GATAAGGCCTAATGGCCGATGTGATGAATGTG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTG
19550157 AAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATAT
1 AAAGTGTTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG----TATATAT
19550221 GTGATAAGGCCTAATGGCCGATGTGATGAATGTG
62 GTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * *
19550255 AAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGT
1 AAAGTGTTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGT
*
19550319 GATAAGGCCTAATGGTCGATGTGATGAATGTG
64 GATAAGGCCTAATGGCCGATGTGATGAATGTG
*
19550351 AAGGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 AAAGTGTTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
19550415 CAGGGCCGAGTGGCCAACGTGATGGACGTG
66 TAAGGCCTAATGGCCGATGTGATGAATGTG
*
19550445 AAAGTG-TATAAATGTGATAAG
1 AAAGTGTTATATATGTGATAAG
19550466 TTCCGAAGGG
Statistics
Matches: 564, Mismatches: 27, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
94 102 0.18
96 369 0.65
98 93 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (95 bp):
AAAGTGTTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:19549948 original size:143 final size:143
Alignment explanation
Indices: 19549775--19550465 Score: 1124
Period size: 143 Copynumber: 4.8 Consensus size: 143
19549765 CGGCCAAGAC
19549775 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
19549840 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
19549905 TGTGATGAATGTG
131 TGTGATGAATGTG
19549918 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
*
19549983 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCC
64 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
19550046 GATGTGATGAATGTG
129 GATGTGATGAATGTG
*
19550061 AAAGTGTATATATGTGAAAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTG
*
19550126 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCC
64 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
19550189 GATGTGATGAATGTG
129 GATGTGATGAATGTG
*
19550204 AAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 AAAGTG----TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATG
* *
19550269 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
62 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
*
19550334 TCGATGTGATGAATGTG
127 CCGATGTGATGAATGTG
* *
19550351 AAGGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
* * * * * * *
19550416 AGGGCCGAGTGGCCAACGTGATGGACGTGAAAGTGTATA-A-ATGTGATAAG
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
19550466 TTCCGAAGGG
Statistics
Matches: 522, Mismatches: 18, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
141 10 0.02
142 1 0.00
143 330 0.63
145 92 0.18
147 89 0.17
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTG
Found at i:19550685 original size:37 final size:37
Alignment explanation
Indices: 19550584--19550685 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
19550574 CCGAGCTCTA
*
19550584 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
19550621 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
19550658 AAGATCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
19550686 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:19553171 original size:23 final size:23
Alignment explanation
Indices: 19553145--19553202 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
19553135 GGTTTGTTAT
* *
19553145 GAAATGGTAATGTGATTTGGTTC
1 GAAATGGTAATGCGATTTGGTAC
* *
19553168 GAAATGGTATTACGATTTGGTAC
1 GAAATGGTAATGCGATTTGGTAC
19553191 GAAATGGTAATG
1 GAAATGGTAATG
19553203 GTTCAAAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.34
Consensus pattern (23 bp):
GAAATGGTAATGCGATTTGGTAC
Found at i:19557296 original size:15 final size:16
Alignment explanation
Indices: 19557278--19557316 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
19557268 TCTTTTCTCG
*
19557278 CTTTCTTTT-CATTTT
1 CTTTCTTTTGAATTTT
19557293 CTTT-TTTTGAATTTT
1 CTTTCTTTTGAATTTT
19557308 CTTTCTTTT
1 CTTTCTTTT
19557317 TTTCATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 13 0.62
16 4 0.19
ACGTcount: A:0.08, C:0.15, G:0.03, T:0.74
Consensus pattern (16 bp):
CTTTCTTTTGAATTTT
Found at i:19557331 original size:12 final size:11
Alignment explanation
Indices: 19557279--19557344 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 11
19557269 CTTTTCTCGC
*
19557279 TTTCTTTTCAT
1 TTTCTTTTTAT
19557290 TTTCTTTTTTTGAAT
1 TTTC--TTTTT--AT
*
19557305 TTTCTTTCTTTT
1 TTTCTTT-TTAT
19557317 TTTCATTTTTAT
1 TTTC-TTTTTAT
19557329 TTTCTTTTGTAT
1 TTTCTTTT-TAT
19557341 TTTC
1 TTTC
19557345 GCTCTTTTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
11 8 0.18
12 19 0.42
13 10 0.22
14 2 0.04
15 6 0.13
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTCTTTTTAT
Found at i:19557332 original size:20 final size:20
Alignment explanation
Indices: 19557279--19557336 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
19557269 CTTTTCTCGC
*
19557279 TTTC-TTTTCATTTTCTTTT
1 TTTCATTTTTATTTTCTTTT
* * *
19557298 TTTGAATTTT-CTTTCTTTT
1 TTTCATTTTTATTTTCTTTT
19557317 TTTCATTTTTATTTTCTTTT
1 TTTCATTTTTATTTTCTTTT
19557337 GTATTTTCGC
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.09, C:0.12, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTCATTTTTATTTTCTTTT
Found at i:19559791 original size:23 final size:23
Alignment explanation
Indices: 19559763--19559819 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
19559753 GTTTGTTACA
*
19559763 AAATGGTAATGTGATTTGGT-TAG
1 AAATGGTAATGCGATTTGGTAT-G
* * *
19559786 ATATGGTATTACGATTTGGTATG
1 AAATGGTAATGCGATTTGGTATG
19559809 AAATGGTAATG
1 AAATGGTAATG
19559820 GTTCAAAAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.39
Consensus pattern (23 bp):
AAATGGTAATGCGATTTGGTATG
Found at i:19561755 original size:19 final size:19
Alignment explanation
Indices: 19561731--19561823 Score: 79
Period size: 19 Copynumber: 5.1 Consensus size: 19
19561721 AATAAATTAC
*
19561731 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
19561750 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * *
19561769 T--GC-TAGAATAAATT-A-C
1 TCATCTTAG--TTAATTAAGT
* *
19561785 TCATCTTGGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
19561804 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
19561823 T
1 T
19561824 GCTGGAATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
16 4 0.07
17 7 0.12
18 7 0.12
19 39 0.68
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:19561778 original size:54 final size:54
Alignment explanation
Indices: 19561712--19561865 Score: 272
Period size: 54 Copynumber: 2.9 Consensus size: 54
19561702 ATAAGTATTT
19561712 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* *
19561766 AGTTGCTAGAATAAATTACTCATCTTGGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* *
19561820 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCAACTTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTA
19561866 ATTCACTTAG
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
Found at i:19562193 original size:91 final size:91
Alignment explanation
Indices: 19562038--19562224 Score: 320
Period size: 91 Copynumber: 2.1 Consensus size: 91
19562028 TAGGTCAATT
19562038 AATTATTTAAAATCAGATGTTACATGGATTGGAATTAAAGGGAGGAATGAATTCAACTGTTATGA
1 AATTATTTAAAATCAGATGTTACATGGATTGGAATTAAAGGGAGGAATGAATTCAACTGTTATGA
* *
19562103 AGATTTAATTAAAGGCTAACAAGTTG
66 AGATTGAATTAAAGGCCAACAAGTTG
* * * *
19562129 AATTATTTAAAATCAGCTGTTACATGGTTTGGCATTAAAGGGAGGAATGAATTCAGCTGTTATGA
1 AATTATTTAAAATCAGATGTTACATGGATTGGAATTAAAGGGAGGAATGAATTCAACTGTTATGA
19562194 AGATTGAATTAAAGGCCAACAAGTTG
66 AGATTGAATTAAAGGCCAACAAGTTG
19562220 AATTA
1 AATTA
19562225 AAGGCCAGCA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (91 bp):
AATTATTTAAAATCAGATGTTACATGGATTGGAATTAAAGGGAGGAATGAATTCAACTGTTATGA
AGATTGAATTAAAGGCCAACAAGTTG
Found at i:19563046 original size:30 final size:30
Alignment explanation
Indices: 19562978--19563049 Score: 119
Period size: 29 Copynumber: 2.4 Consensus size: 30
19562968 ACGAAGGAAA
*
19562978 AAGAAAATCAGGATTCACTTTCTTATTTTC
1 AAGAAAATCAAGATTCACTTTCTTATTTTC
*
19563008 AA-AAAATCAAGATTCACTTTCTTGTTTTC
1 AAGAAAATCAAGATTCACTTTCTTATTTTC
19563037 AAGAAAATCAAGA
1 AAGAAAATCAAGA
19563050 AACCGAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 27 0.69
30 12 0.31
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (30 bp):
AAGAAAATCAAGATTCACTTTCTTATTTTC
Found at i:19583616 original size:38 final size:38
Alignment explanation
Indices: 19583567--19583642 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
19583557 TTATCACTGG
19583567 TGGCAAACCGTTTTGAGGGGTACCCAGGCTGAGAGACT
1 TGGCAAACCGTTTTGAGGGGTACCCAGGCTGAGAGACT
* *
19583605 TGGCAAGCCGTTTTGAGGGGTTCCCAGGCTGAGAGACT
1 TGGCAAACCGTTTTGAGGGGTACCCAGGCTGAGAGACT
19583643 GACTTGGGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.22
Consensus pattern (38 bp):
TGGCAAACCGTTTTGAGGGGTACCCAGGCTGAGAGACT
Found at i:19590398 original size:27 final size:27
Alignment explanation
Indices: 19590364--19590834 Score: 545
Period size: 27 Copynumber: 17.6 Consensus size: 27
19590354 CGAAAAGGTT
*
19590364 GTAAAATGACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* ** *
19590391 GTAAAATGACCGTAATGCATCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
19590418 ATAAAATGACCGTAATACCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
19590445 GTAAAATGACTGTAATACCCCT-TAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
19590471 GTAAAATGACCGTAATACCCCTATAGC
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
19590498 GTAAAATGACCATAATACCCTTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
19590525 ATAAAATAATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
19590552 GTAAAATGACCGTAATACCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * * *
19590579 GTAAAATGACCATAATGCTCCTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
19590606 ATAAAATGACCGTAATACCCTTATAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
19590633 GTAAAATGACTGTAATGCCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
** *
19590660 GTAAAATG-TTGTAATA-CCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
19590685 GTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
19590712 GTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
19590739 GTAAAATGACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * ** *
19590766 GTAAAATAATCGTAATGTCGCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
***
19590793 GTAAAAT-ATAATAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
19590819 GTAAAATGACCGTAAT
1 GTAAAATGACCGTAAT
19590835 TCCCTGGTGG
Statistics
Matches: 375, Mismatches: 65, Indels: 8
0.84 0.15 0.02
Matches are distributed among these distances:
25 17 0.05
26 57 0.15
27 301 0.80
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:19590906 original size:24 final size:24
Alignment explanation
Indices: 19590874--19590933 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
19590864 CTCAAGGTCA
19590874 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
*
19590898 TATGACTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
19590922 AATGACTGATTT
1 AATGACTGATTT
19590934 TGAGCATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.20, C:0.08, G:0.25, T:0.47
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:19591057 original size:27 final size:27
Alignment explanation
Indices: 19591001--19591060 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
19590991 GGAAGTACAG
* *
19591001 TACTGGTGGCTCTGCCACAATCGCTGT
1 TACTGGTGGCTCTGCCACAATCACTAT
19591028 TACTGGTGGC-CTGGCCACATAT-ACTAT
1 TACTGGTGGCTCT-GCCACA-ATCACTAT
19591055 TACTGG
1 TACTGG
19591061 CAGCTTTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACAATCACTAT
Found at i:19591113 original size:26 final size:26
Alignment explanation
Indices: 19591058--19591113 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
19591048 ATACTATTAC
* *
19591058 TGGCAGCTTTGCTGCGATACTGCTGC
1 TGGCAGCTTTGCTGCGATACTACTGA
*
19591084 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTGCGATACTACTGA
19591110 TGGC
1 TGGC
19591114 TTTGTGCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.30
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTACTGA
Found at i:19591147 original size:32 final size:32
Alignment explanation
Indices: 19591104--19591242 Score: 154
Period size: 32 Copynumber: 4.4 Consensus size: 32
19591094 GCTGCGATGC
**
19591104 TACTGATGGCTTTGTGCTGATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * *
19591136 TGCTGATGGCTTTGTACCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * * * * *
19591168 TACTGATGGCTGTGTTCTAATCATATCACTGC
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
*
19591200 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
*
19591231 TACTTATGGCTT
1 TACTGATGGCTT
19591243 GTAGCCATTC
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 11 0.12
32 80 0.88
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATTACCGT
Found at i:19591467 original size:28 final size:28
Alignment explanation
Indices: 19591434--19591487 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
19591424 CAAACTGATA
* *
19591434 CTGTATCGGGCTTAGGCCCATACTGTTT
1 CTGTATCGGGCTAAGGCCCACACTGTTT
*
19591462 CTGTATTGGGCTAAGGCCCACACTGT
1 CTGTATCGGGCTAAGGCCCACACTGT
19591488 ACTATTACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.31
Consensus pattern (28 bp):
CTGTATCGGGCTAAGGCCCACACTGTTT
Found at i:19597340 original size:126 final size:126
Alignment explanation
Indices: 19597115--19597359 Score: 427
Period size: 126 Copynumber: 1.9 Consensus size: 126
19597105 GCTCACCCCT
* * * *
19597115 TTTAAATTTTAATTTCTCATATAATCGAGGTTAGGATGGGCTCAGTTTACGGTGGTGCTCTTGAT
1 TTTAAATTCTAATTTCTCATATAATCAAGGTTAGGATGGGCTCAGTTTACGGAGGTGCACTTGAT
19597180 CATTTTTCAGTAAACTATTTGTTTTGGGTATTTGATAATGTGGGATGTGTTTATGATGATA
66 CATTTTTCAGTAAACTATTTGTTTTGGGTATTTGATAATGTGGGATGTGTTTATGATGATA
* *
19597241 TTTAAATTCTAATTTCTCATATAATTAAGGTTAGGATGGGCTCGGTTTACGGAGGTGCACTTGAT
1 TTTAAATTCTAATTTCTCATATAATCAAGGTTAGGATGGGCTCAGTTTACGGAGGTGCACTTGAT
*
19597306 CATTTTTCAGTAAACTATTTGTTTTGGGTATTTGATAATTTGGGATGTGTTTAT
66 CATTTTTCAGTAAACTATTTGTTTTGGGTATTTGATAATGTGGGATGTGTTTAT
19597360 AACGTGATCC
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.44
Consensus pattern (126 bp):
TTTAAATTCTAATTTCTCATATAATCAAGGTTAGGATGGGCTCAGTTTACGGAGGTGCACTTGAT
CATTTTTCAGTAAACTATTTGTTTTGGGTATTTGATAATGTGGGATGTGTTTATGATGATA
Found at i:19597601 original size:19 final size:19
Alignment explanation
Indices: 19597577--19597669 Score: 88
Period size: 19 Copynumber: 5.1 Consensus size: 19
19597567 AATAAATTAC
*
19597577 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
19597596 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * *
19597615 T--GC-TAGAATAAATT-A-C
1 TCATCTTAG--TTAATTAAGT
19597631 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
19597650 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
19597669 T
1 T
19597670 TCTTAAATCA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.07
17 7 0.12
18 7 0.12
19 41 0.69
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:19597624 original size:54 final size:54
Alignment explanation
Indices: 19597558--19597669 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 54
19597548 ATAAGTTTTT
* *
19597558 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
*
19597612 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
19597666 AGTT
1 AGTT
19597670 TCTTAAATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (54 bp):
AGTTGCTAGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:19602285 original size:18 final size:18
Alignment explanation
Indices: 19602262--19602296 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19602252 AGGAGAGAAT
19602262 GCCATCAGAGATAGTTGC
1 GCCATCAGAGATAGTTGC
*
19602280 GCCATCAGAGATGGTTG
1 GCCATCAGAGATAGTTG
19602297 TGAGGGAAAA
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:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (18 bp):
GCCATCAGAGATAGTTGC
Found at i:19604440 original size:47 final size:47
Alignment explanation
Indices: 19604362--19604647 Score: 446
Period size: 47 Copynumber: 6.1 Consensus size: 47
19604352 CCCTTCGGGA
* * * * * * *
19604362 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
19604409 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19604456 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19604503 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19604550 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19604597 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19604644 CTTA
1 CTTA
19604648 CTATCATTTC
Statistics
Matches: 223, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 223 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19608118 original size:40 final size:40
Alignment explanation
Indices: 19608061--19608243 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
19608051 CCAGCATGAT
* *
19608061 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
19608101 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
19608141 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
19608182 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
19608222 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
19608244 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:19608590 original size:29 final size:29
Alignment explanation
Indices: 19608551--19608629 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
19608541 CTTAATAATC
*
19608551 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
19608581 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
19608610 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
19608630 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:19608672 original size:43 final size:43
Alignment explanation
Indices: 19608611--19608756 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
19608601 TGCATTTCAA
19608611 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
19608654 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
19608697 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
19608740 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
19608757 TGAAAACCAA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:19610880 original size:47 final size:47
Alignment explanation
Indices: 19610763--19611142 Score: 609
Period size: 47 Copynumber: 8.1 Consensus size: 47
19610753 CCCTTCGGGA
* * * * * * *
19610763 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
19610810 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19610856 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19610903 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19610950 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19610997 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19611044 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19611091 CTTATCACACATATACACTTTCACATATCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACAT-TCATCACATCGGCCATTAGGC
19611139 CTTA
1 CTTA
19611143 CTATCATTTC
Statistics
Matches: 315, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
46 37 0.12
47 253 0.80
48 25 0.08
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19624811 original size:23 final size:22
Alignment explanation
Indices: 19624759--19624813 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
19624749 TCCTTGTCTT
*
19624759 TTTCTTTTTTTTCTTTTTCTAA
1 TTTCTTTTTCTTCTTTTTCTAA
* *
19624781 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTT-TCTTCTTT-TTCTAA
19624804 TTTCTTTTTC
1 TTTCTTTTTC
19624814 ACTTTTCTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
22 8 0.31
23 15 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCTTTTTCTTCTTTTTCTAA
Found at i:19624825 original size:18 final size:18
Alignment explanation
Indices: 19624804--19624887 Score: 55
Period size: 18 Copynumber: 4.5 Consensus size: 18
19624794 CTTTCTTCAA
19624804 TTTCTTTTTCACTTTTCT
1 TTTCTTTTTCACTTTTCT
* * *
19624822 TTTCTATTTCACATTCCT
1 TTTCTTTTTCACTTTTCT
**
19624840 TTTCACTTTCAATCTCTTT-T
1 TTTCTTTTTC-A-CT-TTTCT
*
19624860 TTCTCTTTTTCA-TTCTCTT
1 TT-TCTTTTTCACTTTTC-T
19624879 TTTCTTTTT
1 TTTCTTTTT
19624888 TTTCACTTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
17 2 0.04
18 31 0.62
19 4 0.08
20 5 0.10
21 8 0.16
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTTTCACTTTTCT
Found at i:19624867 original size:19 final size:20
Alignment explanation
Indices: 19624839--19624881 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
19624829 TTCACATTCC
19624839 TTTTCAC-TTTCAATCTCTT
1 TTTTCACTTTTCAATCTCTT
* *
19624858 TTTTCTCTTTTTCATTCTCTT
1 TTTTCAC-TTTTCAATCTCTT
19624879 TTT
1 TTT
19624882 CTTTTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTCACTTTTCAATCTCTT
Found at i:19624882 original size:20 final size:20
Alignment explanation
Indices: 19624846--19624888 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
19624836 TCCTTTTCAC
19624846 TTTCAATCTCTTTTTTCTCTT
1 TTTCAATCTCTTTTTTCT-TT
*
19624867 TTTCATTCTC-TTTTTCTTT
1 TTTCAATCTCTTTTTTCTTT
19624886 TTT
1 TTT
19624889 TTCACTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 7 0.33
21 9 0.43
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTCAATCTCTTTTTTCTTT
Found at i:19624892 original size:21 final size:21
Alignment explanation
Indices: 19624846--19624889 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
19624836 TCCTTTTCAC
19624846 TTTCAATCTCTTTTTTCTCTT
1 TTTCAATCTCTTTTTTCTCTT
* *
19624867 TTTCATTCTC-TTTTTCTTTT
1 TTTCAATCTCTTTTTTCTCTT
19624887 TTT
1 TTT
19624890 TCACTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTCAATCTCTTTTTTCTCTT
Found at i:19628993 original size:15 final size:14
Alignment explanation
Indices: 19628957--19629011 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
19628947 TCTATCGAGC
19628957 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
19628971 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
19628985 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
19629000 GAAAGAAAAGAA
1 GAGA-AAAAGAA
19629012 GGACGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:19644849 original size:31 final size:32
Alignment explanation
Indices: 19644814--19644879 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
19644804 GACAAATAAA
*
19644814 TATAATGCATGACATAATTAAA-ATGCAAACT
1 TATAATGCAAGACATAATTAAAGATGCAAACT
* * *
19644845 TATAATGCAAGCCATTATTAAAGATGCCAACT
1 TATAATGCAAGACATAATTAAAGATGCAAACT
19644877 TAT
1 TAT
19644880 TAAATTGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 19 0.63
32 11 0.37
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (32 bp):
TATAATGCAAGACATAATTAAAGATGCAAACT
Found at i:19664894 original size:17 final size:17
Alignment explanation
Indices: 19664869--19664905 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
19664859 GATAAGTATA
*
19664869 CATTTTCATTACATTTT
1 CATTGTCATTACATTTT
19664886 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
19664903 CAT
1 CAT
19664906 GTTAGTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.19, G:0.03, T:0.54
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:19670333 original size:17 final size:17
Alignment explanation
Indices: 19670311--19670344 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19670301 AGGAAGACAG
19670311 AAAAAGA-AATCGAAAAA
1 AAAAAGAGAAT-GAAAAA
19670328 AAAAAGAGAATGAAAAA
1 AAAAAGAGAATGAAAAA
19670345 GAGAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.76, C:0.03, G:0.15, T:0.06
Consensus pattern (17 bp):
AAAAAGAGAATGAAAAA
Found at i:19672076 original size:22 final size:24
Alignment explanation
Indices: 19672042--19672085 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
19672032 CTTGGACCAA
19672042 GATTTCCAAGATT-T-GAAATCTT
1 GATTTCCAAGATTCTCGAAATCTT
* *
19672064 GATTTTCATGATTCTCGAAATC
1 GATTTCCAAGATTCTCGAAATC
19672086 GCTCCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 1 0.06
24 6 0.33
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (24 bp):
GATTTCCAAGATTCTCGAAATCTT
Found at i:19673552 original size:33 final size:34
Alignment explanation
Indices: 19673515--19673586 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
19673505 GAGTTGGTTT
19673515 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
* *
19673548 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
19673582 ATTAA
1 ATTAA
19673587 TTTGTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:19676695 original size:23 final size:24
Alignment explanation
Indices: 19676649--19676697 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
19676639 TTTAAACTTT
*
19676649 AATTTCATTTTATCTGTTAGTTTA
1 AATTTCATTTTATCTGTTAATTTA
19676673 AATTT-ATTTTATCT-TTATATTTA
1 AATTTCATTTTATCTGTTA-ATTTA
19676696 AA
1 AA
19676698 AATTGAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 3 0.13
23 15 0.65
24 5 0.22
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (24 bp):
AATTTCATTTTATCTGTTAATTTA
Found at i:19677789 original size:15 final size:15
Alignment explanation
Indices: 19677769--19677822 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
19677759 ATACTACAAA
19677769 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
19677784 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
19677801 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
19677818 ATATT
1 ATATT
19677823 AGCATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:19677949 original size:29 final size:30
Alignment explanation
Indices: 19677884--19677949 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
19677874 TTAAAATTTA
19677884 TTATTAAAATAAAATTAAAATATTAAATAAT
1 TTATTAAAATAAAATT-AAATATTAAATAAT
*
19677915 TTATTAAAATAATAATT-TATATT-AATAAT
1 TTATTAAAATAA-AATTAAATATTAAATAAT
19677944 TTATTA
1 TTATTA
19677950 TATGACAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 12 0.36
30 5 0.15
31 12 0.36
32 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATTAAAATAAAATTAAATATTAAATAAT
Found at i:19677950 original size:16 final size:16
Alignment explanation
Indices: 19677903--19677952 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
19677893 TAAAATTAAA
19677903 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
* *
19677920 AAAATAATAA--T-TT
1 ATATTAATAATTTATT
19677933 ATATTAATAATTTATT
1 ATATTAATAATTTATT
19677949 ATAT
1 ATAT
19677953 GACAAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
15 1 0.04
16 11 0.42
17 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:19681176 original size:50 final size:50
Alignment explanation
Indices: 19681061--19681245 Score: 246
Period size: 50 Copynumber: 3.7 Consensus size: 50
19681051 GATAATAACA
* * ** * *
19681061 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTCTCATATTGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
19681112 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* *
19681162 TGCCAACGCCATGT-CCAAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAA-ACATGGTCTTACATGGGACCTCTCATCTCGG
19681212 TGCCAATGCCATGTCCCAAACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATG
19681246 CTTTACCTAA
Statistics
Matches: 117, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
49 4 0.03
50 77 0.66
51 36 0.31
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:19681236 original size:100 final size:101
Alignment explanation
Indices: 19681061--19681242 Score: 285
Period size: 100 Copynumber: 1.8 Consensus size: 101
19681051 GATAATAACA
* * * * *
19681061 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTCTCATATTGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCAAGACATGGTCTTACATGAGATACTCTCATATCGGTGCCAATGCCATGT
19681126 CCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
66 CCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
* * *
19681162 TGCCAACGCCATGTCCAAGACATGGTCTTACATGAGA-CCTCTCATCTCGGTGCCAATGCCATGT
1 TGCCAAAGCCATGTCCAAGACATGGTCTTACATGAGATACTCTCATATCGGTGCCAATGCCATGT
19681226 CCCAAACATGGTCTTAC
66 CCCAAACATGGTCTTAC
19681243 ATGCTTTACC
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 39 0.53
101 34 0.47
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (101 bp):
TGCCAAAGCCATGTCCAAGACATGGTCTTACATGAGATACTCTCATATCGGTGCCAATGCCATGT
CCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
Found at i:19683129 original size:20 final size:20
Alignment explanation
Indices: 19683104--19683144 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19683094 AATTAATTAA
19683104 TTTATTCTAAATTTTCAAAT
1 TTTATTCTAAATTTTCAAAT
* **
19683124 TTTATTTTATGTTTTCAAAT
1 TTTATTCTAAATTTTCAAAT
19683144 T
1 T
19683145 ATCATTAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATTCTAAATTTTCAAAT
Found at i:19688265 original size:15 final size:15
Alignment explanation
Indices: 19688247--19688277 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19688237 TATATCCCAA
19688247 AAAGGTATAAGGTGT
1 AAAGGTATAAGGTGT
19688262 AAAGGTATAAGGTGT
1 AAAGGTATAAGGTGT
19688277 A
1 A
19688278 CAACGACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (15 bp):
AAAGGTATAAGGTGT
Found at i:19689857 original size:50 final size:49
Alignment explanation
Indices: 19689750--19690026 Score: 259
Period size: 50 Copynumber: 5.5 Consensus size: 49
19689740 TGTCAAAGCT
* ** * * * * *
19689750 ATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTACTGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGTGCCAACGCC
* * * ** * *
19689799 ATATCCCAGATATGTTCTTACATGGGAGTTCTCATATAGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATA-GTGCCAACGCC
** *
19689849 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-AGTGCCAACGCC
* *
19689899 ATGTCCCAGACATGGTCTTACAT-GGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-AGTGCCAACGCC
**
19689948 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAACGATGCCAATTCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-G-TGCCAACGCC
19690004 ATGTCCCAGACATGGTCTTACAT
1 ATGTCCCAGACATGGTCTTACAT
19690027 AGGATATCTT
Statistics
Matches: 190, Mismatches: 29, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
49 77 0.41
50 79 0.42
51 1 0.01
53 1 0.01
55 1 0.01
56 31 0.16
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGTGCCAACGCC
Found at i:19689940 original size:99 final size:104
Alignment explanation
Indices: 19689789--19690026 Score: 306
Period size: 99 Copynumber: 2.3 Consensus size: 104
19689779 TTTCTTGTAC
* * * ** * *
19689789 TGCCAATGCCATATCCCAGATATGTTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTC
*
19689854 CCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-A-G-
66 CCAGACATGGTCTTACAGGGGACCTCTCAATCTCAACGA
* * *
19689889 TGCCAACGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTC
*
19689953 CCAGACATGGTCTTACATGGGACCTCTCATAATCTCAACGA
66 CCAGACATGGTCTTACAGGGGACCTCTC--AATCTCAACGA
*
19689994 TGCCAATTCCATGTCCCAGACATGGTCTTACAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
19690027 AGGATATCTT
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
99 51 0.43
100 29 0.25
102 5 0.04
103 1 0.01
104 1 0.01
105 31 0.26
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (104 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCAATCTCAACGA
Found at i:19692746 original size:47 final size:47
Alignment explanation
Indices: 19692681--19693230 Score: 802
Period size: 47 Copynumber: 11.6 Consensus size: 47
19692671 CCCTTCGGGA
* * *
19692681 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19692728 CGTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19692775 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19692822 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19692869 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
19692916 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
19692963 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19693012 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19693059 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
19693108 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
19693155 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
19693204 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
19693231 TATTCAAATA
Statistics
Matches: 473, Mismatches: 22, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 334 0.71
49 137 0.29
50 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:19693025 original size:96 final size:96
Alignment explanation
Indices: 19692681--19693230 Score: 823
Period size: 96 Copynumber: 5.8 Consensus size: 96
19692671 CCCTTCGGGA
* * * *
19692681 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCGTATCACATATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
19692744 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
19692775 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
19692837 CA-TGTTCACATTCATCACATTGGCCATTCGGC
65 CACT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
19692869 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
19692931 CA-TGTTCACATTCATCACATTGGCCATTCGGC
65 CACT-TTCACATTCATCACATTGGCCATTCGGC
19692963 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
19693028 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
* *
19693059 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
19693124 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
*
19693155 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
19693220 ACTTTCACATT
66 ACTTTCACATT
19693231 TATTCAAATA
Statistics
Matches: 425, Mismatches: 23, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
93 3 0.01
94 175 0.41
96 245 0.58
97 2 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:19694741 original size:53 final size:56
Alignment explanation
Indices: 19694680--19694796 Score: 204
Period size: 53 Copynumber: 2.1 Consensus size: 56
19694670 TATTAGTTTA
19694680 TTGCCCATGCTTCTTATTTTATTCTTCCATT-A-AC-ACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
19694733 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19694789 TTGCCCAT
1 TTGCCCAT
19694797 CATCCCTTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
53 30 0.50
54 1 0.02
55 2 0.03
56 27 0.45
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:19702385 original size:25 final size:25
Alignment explanation
Indices: 19702341--19702391 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
19702331 ACTCTTCTTA
** *
19702341 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCAATCATTATTC
*
19702366 TCTCTTCATTTCTCAATCATTATTC
1 TCTCTTCACTTCTCAATCATTATTC
19702391 T
1 T
19702392 TCATTCCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.55
Consensus pattern (25 bp):
TCTCTTCACTTCTCAATCATTATTC
Found at i:19708720 original size:20 final size:20
Alignment explanation
Indices: 19708695--19708738 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
19708685 GCTCGAGCTC
19708695 AATGAGTTAGAAGAATTCTG
1 AATGAGTTAGAAGAATTCTG
19708715 AATGAGTTAGAAGAATTCTG
1 AATGAGTTAGAAGAATTCTG
19708735 AATG
1 AATG
19708739 TTTTCATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (20 bp):
AATGAGTTAGAAGAATTCTG
Found at i:19713479 original size:25 final size:25
Alignment explanation
Indices: 19713435--19713485 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
19713425 ACTCTTCTTA
** *
19713435 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCAATCATTATTC
*
19713460 TCTCTTCATTTCTCAATCATTATTC
1 TCTCTTCACTTCTCAATCATTATTC
19713485 T
1 T
19713486 TCATTCCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.55
Consensus pattern (25 bp):
TCTCTTCACTTCTCAATCATTATTC
Done.