Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 20 of 52
Found at i:3109967 original size:30 final size:30
Alignment explanation
Indices: 3109887--3110356 Score: 281
Period size: 30 Copynumber: 15.8 Consensus size: 30
3109877 CAAGGCCAGC
* *
3109887 AAGTTGTGGAATTTA-AAAAGGGTGCCACG
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* * * *
3109916 GAGTTATCGACTTT-TAAAAGGGTGCCACA
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* **
3109945 AAATTGTGGACTTTAGAAAAGGGTGCCATT
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* * * *
3109975 AAGTTATAGACTTTGGAAAATGGTGCCACA
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* * ** *
3110005 GAGTTGTAGACTTTAGAAAAAAGTGCTACA
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* ** * **
3110035 AAGTTGTGGAATTCGGAAATGGAG-GCCATG
1 AAGTTGTGGACTTTAGAAAAGG-GTGCCACA
* * * *
3110065 GAGTTGTAGACTTT-GAAAAGGTTACCACA
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* * *
3110094 AAGTTATGGACTTTAGAAAAAGGTGCCATA
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* * *
3110124 GAGTTGTAGACTTTAGAAAAGGGTACCACA
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* * * * *
3110154 AAATTGTGGACTTTA-AGATGAGTGCCACT
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* ** * *
3110183 AACTCATGGACTTTGGAAAAGGGTGCCACT
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* ** *
3110213 GAGTCATGGACTTTAGAAAAGGGTGCCACT
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
** * **
3110243 AAGTCATGAACTTTAGAAAAGGGGTGCCATG
1 AAGTTGTGGACTTTAGAAAA-GGGTGCCACA
* * * *
3110274 GAGTGGTGGACTTTAGAAAAGGGGTGCAACG
1 AAGTTGTGGACTTTAGAAAA-GGGTGCCACA
* * * *
3110305 GAGTGGTGGGCTTT-GAGAAGGGTGCCA-A
1 AAGTTGTGGACTTTAGAAAAGGGTGCCACA
* *
3110333 GGAGTTGTGGACTTT-GAGAAGGGT
1 -AAGTTGTGGACTTTAGAAAAGGGT
3110357 ACTGAAAGCT
Statistics
Matches: 341, Mismatches: 92, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
29 101 0.30
30 193 0.57
31 47 0.14
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.25
Consensus pattern (30 bp):
AAGTTGTGGACTTTAGAAAAGGGTGCCACA
Found at i:3110039 original size:60 final size:60
Alignment explanation
Indices: 3109888--3110241 Score: 229
Period size: 59 Copynumber: 6.0 Consensus size: 60
3109878 AAGGCCAGCA
* * * ** * * * *
3109888 AGTTGTGGAATTTA-AAAAGGGTGCCACGGAGTTATCGACTTT-TAAAAGGGTGCCACAA
1 AGTTGTAGACTTTAGAAAAAGGTGCCACAAAGTTATGGACTTTGGAAAATGGTGCCACAG
* * * ** *
3109946 AATTGTGGACTTTAGAAAAGGGTGCCATTAAGTTATAGACTTTGGAAAATGGTGCCACAG
1 AGTTGTAGACTTTAGAAAAAGGTGCCACAAAGTTATGGACTTTGGAAAATGGTGCCACAG
* * * * * * **
3110006 AGTTGTAGACTTTAGAAAAAAGTGCTACAAAGTTGTGGAATTCGG-AAATGGAGGCCATGG
1 AGTTGTAGACTTTAGAAAAAGGTGCCACAAAGTTATGGACTTTGGAAAATGG-TGCCACAG
* * * *
3110066 AGTTGTAGACTTT-G-AAAAGGTTACCACAAAGTTATGGACTTTAGAAAAAGGTGCCATAG
1 AGTTGTAGACTTTAGAAAAAGG-TGCCACAAAGTTATGGACTTTGGAAAATGGTGCCACAG
* * * * *
3110125 AGTTGTAGACTTTAGAAAAGGGTACCACAAAATTGTGGACTTT--AAGATGAGTGCCACTA-
1 AGTTGTAGACTTTAGAAAAAGGTGCCACAAAGTTATGGACTTTGGAAAATG-GTGCCAC-AG
* ** * * * ** * * *
3110184 ACTCATGGACTTTGGAAAAGGGTGCCACTGAGTCATGGACTTTAGAAAAGGGTGCCAC
1 AGTTGTAGACTTTAGAAAAAGGTGCCACAAAGTTATGGACTTTGGAAAATGGTGCCAC
3110242 TAAGTCATGA
Statistics
Matches: 233, Mismatches: 52, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
58 21 0.09
59 105 0.45
60 98 0.42
61 9 0.04
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (60 bp):
AGTTGTAGACTTTAGAAAAAGGTGCCACAAAGTTATGGACTTTGGAAAATGGTGCCACAG
Found at i:3110166 original size:89 final size:89
Alignment explanation
Indices: 3110068--3110241 Score: 192
Period size: 89 Copynumber: 2.0 Consensus size: 89
3110058 GGCCATGGAG
* * **
3110068 TTGTAGACTTTGAA-AAG-GTTACCACAAAGTTATGGACTTTAGAAAAAGGTGCCA-TAGAGTTG
1 TTGTAGACTTT-AAGAAGAG-TACCACAAACTCATGGACTTTAGAAAAAGGTGCCACT-GAGTCA
3110130 TAGACTTTAGAAAAGGGTACCACAAAA
63 TAGACTTTAGAAAAGGGTACCACAAAA
* * * * * * *
3110157 TTGTGGACTTTAAGATGAGTGCCACTAACTCATGGACTTTGGAAAAGGGTGCCACTGAGTCATGG
1 TTGTAGACTTTAAGAAGAGTACCACAAACTCATGGACTTTAGAAAAAGGTGCCACTGAGTCATAG
*
3110222 ACTTTAGAAAAGGGTGCCAC
66 ACTTTAGAAAAGGGTACCAC
3110242 TAAGTCATGA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
88 2 0.03
89 66 0.94
90 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (89 bp):
TTGTAGACTTTAAGAAGAGTACCACAAACTCATGGACTTTAGAAAAAGGTGCCACTGAGTCATAG
ACTTTAGAAAAGGGTACCACAAAA
Found at i:3110256 original size:60 final size:61
Alignment explanation
Indices: 3110175--3110296 Score: 176
Period size: 61 Copynumber: 2.0 Consensus size: 61
3110165 TTTAAGATGA
* *
3110175 GTGCCACTAACTCATGGACTTTGGAAAA-GGGTGCCACT-GAGTCATGGACTTTAGAAAAGG
1 GTGCCACTAACTCATGAACTTTAGAAAAGGGGTGCCA-TGGAGTCATGGACTTTAGAAAAGG
* **
3110235 GTGCCACTAAGTCATGAACTTTAGAAAAGGGGTGCCATGGAGTGGTGGACTTTAGAAAAGG
1 GTGCCACTAACTCATGAACTTTAGAAAAGGGGTGCCATGGAGTCATGGACTTTAGAAAAGG
3110296 G
1 G
3110297 GTGCAACGGA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
60 26 0.47
61 29 0.53
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (61 bp):
GTGCCACTAACTCATGAACTTTAGAAAAGGGGTGCCATGGAGTCATGGACTTTAGAAAAGG
Found at i:3110347 original size:29 final size:29
Alignment explanation
Indices: 3110264--3110356 Score: 116
Period size: 29 Copynumber: 3.1 Consensus size: 29
3110254 TTTAGAAAAG
* *
3110264 GGGTGCCATGGAGTGGTGGACTTTAGAAAA
1 GGGTGCCAAGGAGTGGTGGACTTT-GAGAA
*
3110294 GGGGTG-CAACGGAGTGGTGGGCTTTGAGAA
1 -GGGTGCCAA-GGAGTGGTGGACTTTGAGAA
*
3110324 GGGTGCCAAGGAGTTGTGGACTTTGAGAA
1 GGGTGCCAAGGAGTGGTGGACTTTGAGAA
3110353 GGGT
1 GGGT
3110357 ACTGAAAGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
29 27 0.49
30 9 0.16
31 19 0.35
ACGTcount: A:0.23, C:0.10, G:0.45, T:0.23
Consensus pattern (29 bp):
GGGTGCCAAGGAGTGGTGGACTTTGAGAA
Found at i:3111131 original size:13 final size:13
Alignment explanation
Indices: 3111113--3111138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3111103 CATTTTGGGA
3111113 TGTATCGATACAT
1 TGTATCGATACAT
3111126 TGTATCGATACAT
1 TGTATCGATACAT
3111139 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3111135 original size:33 final size:32
Alignment explanation
Indices: 3111093--3111156 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
3111083 TACAAGCCAA
*
3111093 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
3111126 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
3111157 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:3111256 original size:13 final size:13
Alignment explanation
Indices: 3111238--3111262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3111228 ACATTTGGTC
3111238 ATGTATCGATACA
1 ATGTATCGATACA
3111251 ATGTATCGATAC
1 ATGTATCGATAC
3111263 TGTGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3120327 original size:28 final size:28
Alignment explanation
Indices: 3120295--3120364 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
3120285 CCAAGGAGTT
3120295 ATGGACTTTAAAAGGGCACCACGGAATA
1 ATGGACTTTAAAAGGGCACCACGGAATA
** * *
3120323 ATGGACTTTAAAAGGGTGCCACGGAGTT
1 ATGGACTTTAAAAGGGCACCACGGAATA
3120351 ATGGACTTTAAAAG
1 ATGGACTTTAAAAG
3120365 CCACGAAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (28 bp):
ATGGACTTTAAAAGGGCACCACGGAATA
Found at i:3120374 original size:24 final size:25
Alignment explanation
Indices: 3120291--3120389 Score: 94
Period size: 28 Copynumber: 3.8 Consensus size: 25
3120281 GGTACCAAGG
3120291 AGTTATGGACTTTAAAAGGGCACCACGGA
1 AGTTATGGACTTTAAAA-GG--CCAC-GA
* *
3120320 A-TAATGGACTTTAAAAGGGTGCCACGG
1 AGTTATGGACTTTAAAA--G-GCCACGA
3120347 AGTTATGGACTTTAAAA-GCCACGA
1 AGTTATGGACTTTAAAAGGCCACGA
*
3120371 AGTTGTGGACTTTAAAAGG
1 AGTTATGGACTTTAAAAGG
3120390 GTGTCACAGG
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
24 22 0.36
25 1 0.02
27 2 0.03
28 32 0.52
29 3 0.05
30 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.24
Consensus pattern (25 bp):
AGTTATGGACTTTAAAAGGCCACGA
Found at i:3120444 original size:80 final size:80
Alignment explanation
Indices: 3120291--3120444 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 80
3120281 GGTACCAAGG
* *
3120291 AGTTATGGACTTTAAAAGGGCACCACGGAATAATGGACTTTAAAAGGGTGCCACGGAGTTATGGA
1 AGTTATGGACTTTAAAAGGGCACCACGGAATAATAGACTTTAAAAGGGTGCCACAGAGTTATGGA
3120356 CTTTAAAAGCCACGA
66 CTTTAAAAGCCACGA
* *** ** * *
3120371 AGTTGTGGACTTTAAAAGGGTGTCACAGGAATTGTAGACTTTAAAA-GG-GCCATAGAGTTGTGG
1 AGTTATGGACTTTAAAAGGGCACCAC-GGAATAATAGACTTTAAAAGGGTGCCACAGAGTTATGG
3120434 ACTTTGAAAAG
65 ACTTT-AAAAG
3120445 GTGTCATTGA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
79 17 0.27
80 29 0.47
81 16 0.26
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (80 bp):
AGTTATGGACTTTAAAAGGGCACCACGGAATAATAGACTTTAAAAGGGTGCCACAGAGTTATGGA
CTTTAAAAGCCACGA
Found at i:3120461 original size:28 final size:28
Alignment explanation
Indices: 3120324--3120592 Score: 142
Period size: 29 Copynumber: 9.5 Consensus size: 28
3120314 CACGGAATAA
* *
3120324 TGGACTTT-AAAAGGGTGCCACGGAGTTA
1 TGGACTTTGAAAA-GGTGCCACAGAGTTG
3120352 TGGACTTT-AAAA---GCCAC-GAAGTTG
1 TGGACTTTGAAAAGGTGCCACAG-AGTTG
* *
3120376 TGGACTTT-AAAAGGGTGTCACAGGAATTG
1 TGGACTTTGAAAA-GGTGCCACA-GAGTTG
* *
3120405 TAGACTTT-AAAAGG-GCCATAGAGTTG
1 TGGACTTTGAAAAGGTGCCACAGAGTTG
* ** *
3120431 TGGACTTTGAAAAGGTGTCATTGAGTCG
1 TGGACTTTGAAAAGGTGCCACAGAGTTG
* * ***
3120459 TGGACTTTGAGAAGGATGCCACTGAGCCA
1 TGGACTTTGAAAAGG-TGCCACAGAGTTG
* *** *
3120488 TAGACTTTGAAAAGGGTATTATAGAGTTG
1 TGGACTTTGAAAA-GGTGCCACAGAGTTG
* * *
3120517 TGAACTTTAGAAAAAAGGTGTCACGGAGTTG
1 TGGACTTT-G--AAAAGGTGCCACAGAGTTG
* *
3120548 TGGATTTTGAAAAAAGGTGCCACGGAGTTG
1 TGGACTTTG--AAAAGGTGCCACAGAGTTG
3120578 TGGACTTTGGAAAAG
1 TGGACTTT-GAAAAG
3120593 AGATTTGGAG
Statistics
Matches: 190, Mismatches: 36, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.01
24 21 0.11
26 12 0.06
27 10 0.05
28 41 0.22
29 51 0.27
30 32 0.17
31 18 0.09
32 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (28 bp):
TGGACTTTGAAAAGGTGCCACAGAGTTG
Found at i:3120547 original size:31 final size:31
Alignment explanation
Indices: 3120511--3120591 Score: 119
Period size: 30 Copynumber: 2.6 Consensus size: 31
3120501 GGGTATTATA
* *
3120511 GAGTTGTGAACTTTAGAAAAAAGGTGTCACG
1 GAGTTGTGGACTTTAGAAAAAAGGTGCCACG
*
3120542 GAGTTGTGGA-TTTTGAAAAAAGGTGCCACG
1 GAGTTGTGGACTTTAGAAAAAAGGTGCCACG
*
3120572 GAGTTGTGGACTTTGGAAAA
1 GAGTTGTGGACTTTAGAAAA
3120592 GAGATTTGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 28 0.62
31 17 0.38
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (31 bp):
GAGTTGTGGACTTTAGAAAAAAGGTGCCACG
Found at i:3124745 original size:33 final size:32
Alignment explanation
Indices: 3124703--3124807 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 32
3124693 TCTCTTCTCC
*
3124703 AAGTTCACGACTCAGTGGCATCATTTCTTTTCA
1 AAGTCCACGACTCAGTGGCATC-TTTCTTTTCA
*
3124736 AAGTCCACGAATCAGTGGCATC-TT-TTTTCA
1 AAGTCCACGACTCAGTGGCATCTTTCTTTTCA
* * * *
3124766 AAGTCCACAACTCCGTGACACCTTTTTCTTTTCA
1 AAGTCCACGACTCAGTGGCA--TCTTTCTTTTCA
3124800 AAGTCCAC
1 AAGTCCAC
3124808 AACTTTGTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
30 22 0.36
31 2 0.03
32 1 0.02
33 22 0.36
34 14 0.23
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (32 bp):
AAGTCCACGACTCAGTGGCATCTTTCTTTTCA
Found at i:3124766 original size:30 final size:32
Alignment explanation
Indices: 3124703--3124773 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 32
3124693 TCTCTTCTCC
* *
3124703 AAGTTCACGACTCAGTGGCATCATTTCTTTTCA
1 AAGTCCACGAATCAGTGGCATCA-TTCTTTTCA
3124736 AAGTCCACGAATCAGTGGCATC-TT-TTTTCA
1 AAGTCCACGAATCAGTGGCATCATTCTTTTCA
3124766 AAGTCCAC
1 AAGTCCAC
3124774 AACTCCGTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 14 0.39
31 2 0.06
33 20 0.56
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (32 bp):
AAGTCCACGAATCAGTGGCATCATTCTTTTCA
Found at i:3124822 original size:34 final size:34
Alignment explanation
Indices: 3124760--3124838 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
3124750 GTGGCATCTT
*
3124760 TTTTCAAAGTCCACAACTCCGTGACACCTTTTTC
1 TTTTCAAAGTCCACAACTCCGTGACACCTTTTCC
**
3124794 TTTTCAAAGTCCACAACTTTGTTG-CACCTTTTCC
1 TTTTCAAAGTCCACAACTCCG-TGACACCTTTTCC
3124828 TTTT--AAGTCCA
1 TTTTCAAAGTCCA
3124839 TAACATTATG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 7 0.17
34 32 0.78
35 2 0.05
ACGTcount: A:0.23, C:0.29, G:0.09, T:0.39
Consensus pattern (34 bp):
TTTTCAAAGTCCACAACTCCGTGACACCTTTTCC
Found at i:3124876 original size:27 final size:27
Alignment explanation
Indices: 3124826--3124965 Score: 147
Period size: 27 Copynumber: 5.0 Consensus size: 27
3124816 TGCACCTTTT
3124826 CCTTTTAAGTCCATAACAT-TATGGCAC
1 CCTTTTAAGTCCATAAC-TCTATGGCAC
* *
3124853 CCTTTTATGTCCATAACTCCATGGCACC
1 CCTTTTAAGTCCATAACTCTATGGCA-C
* *
3124881 TTTTCCTTTTAAGTCCATAACTCTATTGCAT
1 ----CCTTTTAAGTCCATAACTCTATGGCAC
* *
3124912 CCTTTTAAGTCCATAACTCTATAGCAT
1 CCTTTTAAGTCCATAACTCTATGGCAC
* *
3124939 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCATAACTCTATGGCAC
3124966 TTTTTCCTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
26 1 0.01
27 71 0.74
28 1 0.01
32 23 0.24
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.36
Consensus pattern (27 bp):
CCTTTTAAGTCCATAACTCTATGGCAC
Found at i:3124880 original size:59 final size:59
Alignment explanation
Indices: 3124817--3124944 Score: 186
Period size: 59 Copynumber: 2.2 Consensus size: 59
3124807 CAACTTTGTT
* *
3124817 GCACCTTTTCCTTTTAAGTCCATAACAT-TATGGCACCCTTTTATGTCCATAACTCCATG
1 GCACCTTTTCCTTTTAAGTCCATAAC-TCTATGGCACCCTTTTAAGTCCATAACTCCATA
* * *
3124876 GCACCTTTTCCTTTTAAGTCCATAACTCTATTGCATCCTTTTAAGTCCATAACTCTATA
1 GCACCTTTTCCTTTTAAGTCCATAACTCTATGGCACCCTTTTAAGTCCATAACTCCATA
3124935 GCATCCTTTT
1 GCA-CCTTTT
3124945 AAGTCCACAA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
58 1 0.02
59 55 0.89
60 6 0.10
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (59 bp):
GCACCTTTTCCTTTTAAGTCCATAACTCTATGGCACCCTTTTAAGTCCATAACTCCATA
Found at i:3124943 original size:86 final size:86
Alignment explanation
Indices: 3124766--3124989 Score: 252
Period size: 86 Copynumber: 2.5 Consensus size: 86
3124756 TCTTTTTTCA
* * * * *
3124766 AAGTCCACAACTCCGTGACACCTTTTTCTTTTCAAAGTCCACAACTTTGTTGCACCTTTTCCTTT
1 AAGTCCACAACTCCATGGCACCTTTTCCTTTT--AAGTCCACAACTCTATTGCA-----TCCTTT
*
3124831 TAAGTCCATAACATTATGGCACCCTTTT
59 TAAGTCCATAACATTATAGCACCCTTTT
* * *
3124859 ATGTCCATAACTCCATGGCACCTTTTCCTTTTAAGTCCATAACTCTATTGCATCCTTTTAAGTCC
1 AAGTCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCTATTGCATCCTTTTAAGTCC
*
3124924 ATAAC-TCTATAGCATCCTTTT
66 ATAACAT-TATAGCACCCTTTT
** *
3124945 AAGTCCACAACTCTGTGGCACTTTTTCCTTTTAAGTCCACAACTC
1 AAGTCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTC
3124990 CGTGGCACAT
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
85 1 0.01
86 69 0.61
91 17 0.15
93 27 0.24
ACGTcount: A:0.24, C:0.29, G:0.09, T:0.38
Consensus pattern (86 bp):
AAGTCCACAACTCCATGGCACCTTTTCCTTTTAAGTCCACAACTCTATTGCATCCTTTTAAGTCC
ATAACATTATAGCACCCTTTT
Found at i:3124984 original size:32 final size:31
Alignment explanation
Indices: 3124766--3125010 Score: 156
Period size: 32 Copynumber: 8.1 Consensus size: 31
3124756 TCTTTTTTCA
** * *
3124766 AAGTCCACAACTCCGTGACACCTTTTTCTTTT
1 AAGTCCACAACTCTATGGCA-CTTTTCCTTTT
* * *
3124798 CAAAGTCCACAACTTTGTTGCACCTTTTCCTTTT
1 --AAGTCCACAACTCTATGGCA-CTTTTCCTTTT
*
3124832 AAGTCCATAACAT-TATGGCAC----CCTTTT
1 AAGTCCACAAC-TCTATGGCACTTTTCCTTTT
* * *
3124859 ATGTCCATAACTCCATGGCACCTTTTCCTTTT
1 AAGTCCACAACTCTATGGCA-CTTTTCCTTTT
* *
3124891 AAGTCCATAACTCTATTGCA----TCCTTTT
1 AAGTCCACAACTCTATGGCACTTTTCCTTTT
* *
3124918 AAGTCCATAACTCTATAGCA----TCCTTTT
1 AAGTCCACAACTCTATGGCACTTTTCCTTTT
*
3124945 AAGTCCACAACTCTGTGGCACTTTTTCCTTTT
1 AAGTCCACAACTCTATGGCAC-TTTTCCTTTT
** *
3124977 AAGTCCACAACTCCGTGGCACATTTTTCTTTT
1 AAGTCCACAACTCTATGGCAC-TTTTCCTTTT
3125009 AA
1 AA
3125011 AGCCTACACA
Statistics
Matches: 179, Mismatches: 20, Indels: 26
0.80 0.09 0.12
Matches are distributed among these distances:
26 1 0.01
27 72 0.40
28 1 0.01
31 1 0.01
32 76 0.42
33 1 0.01
34 27 0.15
ACGTcount: A:0.24, C:0.28, G:0.10, T:0.38
Consensus pattern (31 bp):
AAGTCCACAACTCTATGGCACTTTTCCTTTT
Found at i:3125177 original size:129 final size:128
Alignment explanation
Indices: 3125008--3125466 Score: 482
Period size: 129 Copynumber: 3.6 Consensus size: 128
3124998 ATTTTTCTTT
* * * * *
3125008 TAAAGCCTACACAAGTTGGTGGTAACCCTTCTCTAAAGCCCATACAAGTCGATGGCAACCACTTC
1 TAAAGCCTACACAACTCGATGGCAACCCTT-TCTAAAGCCCAAACAAGTCGATGGCAACC-CTTC
* * *
3125073 TCTAAAGCCCACATAAGTCGGTGGCAACCCTTCTAAAGCCCATACAAGTTGGTGGCAACCTTTCT
64 TC-AAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCTATACAAGTTGGTGGCAACCCTTCT
3125138 C
128 C
* * * *
3125139 TGAAG-CTCACACAACTCCG-TGGC-ACCCTTTCTAAAGCCCACACAAGTTGCTGGCAACCCTTC
1 TAAAGCCT-ACACAACT-CGATGGCAACCCTTTCTAAAGCCCAAACAAGTCGATGGCAACCCTTC
* * **
3125201 TCAAAGCCCACACAAGTCTGTGGCAACCATTCTCAAAGCCTATACAAGTCAGTGGCAACCCTTCT
64 TCAAAGCCCACACAAGTCGGTGGCAACCCTTCT-AAAGCCTATACAAGTTGGTGGCAACCCTTCT
*
3125266 T
128 C
* * * * *
3125267 TAAAGCCTACACAAGTCGATGGCAACCC-CTCTCAAAGCCCAAAGAAGTCGGTGGCAACCTTTCT
1 TAAAGCCTACACAACTCGATGGCAACCCTTTCT-AAAGCCCAAACAAGTCGATGGCAACCCTTCT
* * *
3125331 CAAAGCCCACACAAGTCAGGTTGCAATCCTTCTAAAGCCTATACAAGTTGGTGGCAACCCTCCTC
65 CAAAGCCCACACAAGTC-GGTGGCAACCCTTCTAAAGCCTATACAAGTTGGTGGCAACCCTTCTC
* * * * * * * * *
3125396 -AAAGCCCACATAAGTCAATGGCAACCCTCTCAAAAGCCCACACAAGTTGATGGCATCTCCTTCT
1 TAAAGCCTACACAACTCGATGGCAACCCTTTCTAAAGCCCAAACAAGTCGATGGCAAC-CCTTCT
3125460 --AAGCCCA
65 CAAAGCCCA
3125467 ATGTCATTGG
Statistics
Matches: 277, Mismatches: 41, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
127 37 0.13
128 95 0.34
129 111 0.40
130 19 0.07
131 14 0.05
132 1 0.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (128 bp):
TAAAGCCTACACAACTCGATGGCAACCCTTTCTAAAGCCCAAACAAGTCGATGGCAACCCTTCTC
AAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCTATACAAGTTGGTGGCAACCCTTCTC
Found at i:3125207 original size:32 final size:32
Alignment explanation
Indices: 3125009--3125466 Score: 401
Period size: 32 Copynumber: 14.2 Consensus size: 32
3124999 TTTTTCTTTT
* *
3125009 AAAGCCTACACAAGTTGGTGGTAACCCTTCTC
1 AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* * *
3125041 TAAAGCCCATACAAGTCGATGGCAACCACTTCTC
1 -AAAGCCCACACAAGTTGGTGGCAACC-CTTCTC
* *
3125075 TAAAGCCCACATAAGTCGGTGGCAACCCTTCT-
1 -AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* *
3125107 AAAGCCCATACAAGTTGGTGGCAACCTTTCTC
1 AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* * * **
3125139 TGAAGCTCACACAACTCCGTGGC-ACCCTT-TC
1 -AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
*
3125170 TAAAGCCCACACAAGTTGCTGGCAACCCTTCTC
1 -AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
*
3125203 AAAGCCCACACAAGTCT-GTGGCAACCATTCTC
1 AAAGCCCACACAAGT-TGGTGGCAACCCTTCTC
* * ** *
3125235 AAAGCCTATACAAGTCAGTGGCAACCCTTCTTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTC-TC
* * * *
3125268 AAAGCCTACACAAGTCGATGGCAACCCCTCTC
1 AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* * * *
3125300 AAAGCCCAAAGAAGTCGGTGGCAACCTTTCTC
1 AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* * *
3125332 AAAGCCCACACAAGTCAGGTTGCAATCCTTCT-
1 AAAGCCCACACAAGT-TGGTGGCAACCCTTCTC
* * *
3125364 AAAGCCTATACAAGTTGGTGGCAACCCTCCTC
1 AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* ***
3125396 AAAGCCCACATAAGTCAATGGCAACCC-TCTC
1 AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* *
3125427 AAAAGCCCACACAAGTTGATGGCATCTCCTTCT-
1 -AAAGCCCACACAAGTTGGTGGCAAC-CCTTCTC
3125460 -AAGCCCA
1 AAAGCCCA
3125467 ATGTCATTGG
Statistics
Matches: 346, Mismatches: 66, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
31 68 0.20
32 159 0.46
33 86 0.25
34 33 0.10
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTTCTC
Found at i:3125306 original size:193 final size:192
Alignment explanation
Indices: 3125009--3125450 Score: 525
Period size: 193 Copynumber: 2.3 Consensus size: 192
3124999 TTTTTCTTTT
* *
3125009 AAAGCCTACACAAGT-TGGTGGTAACCCTTCTCTAAAGCCCATACAAGTCGATGGCAACCACTTC
1 AAAGCCCACACAAGTCT-GTGGCAA-CCTTCTC-AAAGCCCATACAAGTCGATGGCAACCACTTC
* * * * *
3125073 TCTAAAGCCCACATAAGTCGGTGGCAACCCTTCTAAAGCCCATACAAGTTGGTGGCAACCTTTCT
63 TCTAAAGCCCACACAAGTCGATGGCAACCCCTCTAAAGCCCAAACAAGTCGGTGGCAACCTTTCT
* * *
3125138 CTGAAGCTCACACAACTC-CGTGGC-ACCCTTTCTAAAGCCCACACAAGTTGCTGGCAACCCTTC
128 C-AAAGCCCACACAACTCACGTGGCAACCC-TTCTAAAGCCCACACAAGTTGCTGGCAACCCTCC
3125201 TC
191 TC
*
3125203 AAAGCCCACACAAGTCTGTGGCAACCATTCTCAAAGCCTATACAAGTC-AGTGGCAACC-CTTCT
1 AAAGCCCACACAAGTCTGTGGCAACC-TTCTCAAAGCCCATACAAGTCGA-TGGCAACCACTTCT
* * *
3125266 TTAAAGCCTACACAAGTCGATGGCAACCCCTCTCAAAGCCCAAAGAAGTCGGTGGCAACCTTTCT
64 CTAAAGCCCACACAAGTCGATGGCAACCCCTCT-AAAGCCCAAACAAGTCGGTGGCAACCTTTCT
* * * * * * *
3125331 CAAAGCCCACACAAGTCAGGTTGCAATCCTTCTAAAGCCTATACAAGTTGGTGGCAACCCTCCTC
128 CAAAGCCCACACAACTCACGTGGCAACCCTTCTAAAGCCCACACAAGTTGCTGGCAACCCTCCTC
* ** * * *
3125396 AAAGCCCACATAAGTCAATGGCAACCCTCTCAAAAGCCCACACAAGTTGATGGCA
1 AAAGCCCACACAAGTCTGTGGCAACCTTCTC-AAAGCCCATACAAGTCGATGGCA
3125451 TCTCCTTCTA
Statistics
Matches: 212, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
192 51 0.24
193 131 0.62
194 29 0.14
195 1 0.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (192 bp):
AAAGCCCACACAAGTCTGTGGCAACCTTCTCAAAGCCCATACAAGTCGATGGCAACCACTTCTCT
AAAGCCCACACAAGTCGATGGCAACCCCTCTAAAGCCCAAACAAGTCGGTGGCAACCTTTCTCAA
AGCCCACACAACTCACGTGGCAACCCTTCTAAAGCCCACACAAGTTGCTGGCAACCCTCCTC
Found at i:3125695 original size:52 final size:52
Alignment explanation
Indices: 3125518--3126428 Score: 594
Period size: 52 Copynumber: 16.9 Consensus size: 52
3125508 CATGTCTTTC
* * * * * *
3125518 TAAGTCCAATGTCGCTGACCTTGAATCAGCACATTGGCACATTT-T-TTTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
** * * **
3125568 TAAGTCCAATATCATTGGCCTTAAATCAGCATATTGGTAGTTTTGTCAT-TT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * * * * * *
3125619 TAAGCCCAATGTTGTTGACCTTGAATCAACACATTGGCATCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * *
3125671 TAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTTGTCATTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * **
3125723 TAAG-CCTAATGTTGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTT
1 TAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * * * * *
3125775 TAA-ACTTAAAATCACTGGCCTTGAATCAGCATATCGACACCTTTATCGTTCTTTTCATCT
1 TAAGTC-CAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-G-TC--ATC-T-T
* * * *
3125835 TAAGTCTAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCATTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * ** * * *
3125887 TAAGCCCAATATTGCTAACCTTGAATCAGTACATTGGCACTTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * *
3125939 TAAGTCTAATATCGATGGCAC-TAAATCAGCATATTGGCACCTTTATCATTCTTCTCATCT
1 TAAGTCCAATATCGCTGGC-CTTGAATCAGCATATTGGCACCTTTGTCA------TC-T-T
*
3125999 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
** * * * * * ** *
3126051 TAAACCCAATGTTGTTGGCCATGAATCAGCACATTGGTGCCTTTATCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * *
3126103 TAAATCCAATATCGCTGGCCTTGAATCCGCATATTGGCATCTTTATCGTTCTTCTCATCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-T-G-TC--ATC-T-T
* * *
3126163 TATGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * ** *
3126215 TAAGCCCAATGTTACTGGCCTTGAATCAGCAAATTGGCACCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * * *** * *
3126267 TATA-TCTAATATCGCTAGCCTTAAATCAACATATCAACACTTTTATCATTCTTCTCATCTA
1 TA-AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC------C--T-TTGTCATCTT
* * * * *
3126328 TAAGTCCAATGTCGATGGCCTTGAATCAACACATTAGCACCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * * * * *
3126380 TAGGCCCAATATTGCCGGCCTTGAATCAGCTTATTGGCACATTTATCAT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
3126429 TTTTCTCTTT
Statistics
Matches: 664, Mismatches: 153, Indels: 86
0.74 0.17 0.10
Matches are distributed among these distances:
50 35 0.05
51 43 0.06
52 387 0.58
53 11 0.02
54 5 0.01
55 2 0.00
56 8 0.01
57 2 0.00
58 9 0.01
59 9 0.01
60 114 0.17
61 39 0.06
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (52 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
Found at i:3125881 original size:164 final size:164
Alignment explanation
Indices: 3125664--3126428 Score: 951
Period size: 164 Copynumber: 4.7 Consensus size: 164
3125654 GGCATCTTTG
* *
3125664 TCATCTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTTGTCATTTTTAAGCC
1 TCATC-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCC
* ** *
3125729 TAATGTTGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTTTAAA-CTTAAAATCACTGG
65 CAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAATC-TAATATCACTGG
* * *
3125793 CCTTGAATCAGCATATCGACACCTTTATCGTTCTTT
129 CCTTAAATCAGCATATCGACACCTTTATCATTCTTC
* * *
3125829 TCATCTTAAGTCTAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCC
1 TCATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCC
* ** * * *
3125894 AATATTGCTAACCTTGAATCAGTACATTGGCACTTTTGTCATCTTTAAGTCTAATATCGA-TGGC
66 AATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAATCTAATATC-ACTGGC
* *
3125958 AC-TAAATCAGCATATTGGCACCTTTATCATTCTTC
130 -CTTAAATCAGCATATCGACACCTTTATCATTCTTC
*
3125993 TCATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAACCC
1 TCATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCC
* * ** * * *
3126058 AATGTTGTTGGCCATGAATCAGCACATTGGTGCCTTTATCATCTTTAAATCCAATATCGCTGGCC
66 AATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAATCTAATATCACTGGCC
* * * * * *
3126123 TTGAATCCGCATATTGGCATCTTTATCGTTCTTC
131 TTAAATCAGCATATCGACACCTTTATCATTCTTC
* *
3126157 TCATCTTATGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCC
1 TCATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCC
* * * * *
3126222 AATGTTACTGGCCTTGAATCAGCAAATTGGCACCTTTGTCATCTTTATATCTAATATCGCTAGCC
66 AATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAATCTAATATCACTGGCC
* * *
3126287 TTAAATCAACATATCAACACTTTTATCATTCTTC
131 TTAAATCAGCATATCGACACCTTTATCATTCTTC
* * * * * * *
3126321 TCATCTATAAGTCCAATGTCGATGGCCTTGAATCAACACATTAGCACCTTTGTCATCTTTAGGCC
1 TCATCT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCC
* * ** * *
3126386 CAATATTGCCGGCCTTGAATCAGCTTATTGGCACATTTATCAT
65 CAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
3126429 TTTTCTCTTT
Statistics
Matches: 515, Mismatches: 79, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
163 1 0.00
164 421 0.82
165 93 0.18
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (164 bp):
TCATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCC
AATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAATCTAATATCACTGGCC
TTAAATCAGCATATCGACACCTTTATCATTCTTC
Found at i:3126078 original size:216 final size:214
Alignment explanation
Indices: 3125567--3126268 Score: 563
Period size: 216 Copynumber: 3.3 Consensus size: 214
3125557 CATTTTTTTT
* * * **
3125567 TTAAGTCCAATATCATTGGCCTTAAATCAGCATATTGGTAGTTTTGTCA-TTTTAAGCCCAATGT
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCCAATGT
* * * *
3125631 TGTTGACCTTGAATCAACACATTGGCATCTTTGTCATCTTTAAGTCCAATATCACTGGCCTTGAA
66 TGTTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
* * * * * * *
3125696 TCAACATATTGGCACCTTTGTCATTTTTAAGCCTAATGTTGCTGGCCTTGAATCAGCACATTGGT
131 TCAACACATTGGCACCTTTGTCATCTTTAAGCCTAATATCGATGGCCTTAAATCAGCACATTGGC
* *
3125761 GCCTTTGTCATCTTTAAAC
196 ACCTTTATCATCTTTAAAC
* * *
3125780 TT-A----AA-ATCACTGGCCTTGAATCAGCATATCGACACCTTTATCGTTCTTTTCATCTTAAG
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACC-TT-T-G-TC-ATT--T-TTAAG
* * * * * * * * * *
3125839 TCTAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCCAATATTGCTA
58 CCCAATGTTGTTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCCAATATCGCTG
* ** * *
3125904 ACCTTGAATCAGTACATTGGCACTTTTGTCATCTTTAAGTCTAATATCGATGGCAC-TAAATCAG
123 GCCTTGAATCAACACATTGGCACCTTTGTCATCTTTAAGCCTAATATCGATGGC-CTTAAATCAG
* * *
3125968 CATATTGGCACCTTTATCATTCTTCTCATC
187 CACATTGGCACCTTTATCA-TCTT-TAAAC
* *
3125998 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAACCCAATGT
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCCAATGT
* ** * *
3126063 TGTTGGCCATGAATCAGCACATTGGTGCCTTTATCATCTTTAAATCCAATATCGCTGGCCTTGAA
66 TGTTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
** * * * * *
3126128 TCCGCATATTGGCATCTTTATCGTTCTTCTCATCTTATGTCC-AATATC-ACTGGCCTTGAATCA
131 TCAACACATTGGCA-CCTT-T-G-TC--ATC-T-TTAAG-CCTAATATCGA-TGGCCTTAAATCA
* *
3126191 GCATATTGGCACCTTTGTCA--TTT----
186 GCACATTGGCACCTTTATCATCTTTAAAC
* * * * *
3126214 TTAAGCCCAATGTTACTGGCCTTGAATCAGCAAATTGGCACCTTTGTCATCTTTA
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTA
3126269 TATCTAATAT
Statistics
Matches: 386, Mismatches: 74, Indels: 55
0.75 0.14 0.11
Matches are distributed among these distances:
207 24 0.06
208 4 0.01
209 1 0.00
210 1 0.00
211 2 0.01
212 1 0.00
213 3 0.01
215 1 0.00
216 243 0.63
217 10 0.03
218 6 0.02
219 4 0.01
220 5 0.01
221 3 0.01
222 3 0.01
223 7 0.02
224 67 0.17
225 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (214 bp):
TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAGCCCAATGT
TGTTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
TCAACACATTGGCACCTTTGTCATCTTTAAGCCTAATATCGATGGCCTTAAATCAGCACATTGGC
ACCTTTATCATCTTTAAAC
Found at i:3126087 original size:112 final size:111
Alignment explanation
Indices: 3125825--3126489 Score: 435
Period size: 112 Copynumber: 6.1 Consensus size: 111
3125815 CTTTATCGTT
* * * *
3125825 CTTT-TCATC-TTAAGTCTAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTTGTCA----T
1 CTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTT
* ** * *
3125884 -T--TTTAAGCCCAATATTGCTAACCTTGAATCAGTACATTGGCAC
66 CTCATTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * *
3125927 TTTTGTCATCTTTAAGTCTAATATCGATGGCAC-TAAATCAGCATATTGGCACCTTTATCATTCT
1 CTTTGTCATCTTTAAGTCCAATATCGCTGGC-CTTGAATCAGCATATTGGCACCTTTATCATTCT
*
3125991 TCTCATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
65 TCTCAT-TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* ** * * * * * **
3126039 CTTTGTCATTTTTAAACCCAATGTTGTTGGCCATGAATCAGCACATTGGTGCCTTTATCA-TCTT
1 CTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTT
* *
3126103 -T-A---AA-TCCAATATCGCTGGCCTTGAATCCGCATATTGGCATC
66 CTCATTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C
* * * * *
3126144 TTTATCGTTCTTCTCATCTTATGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGT
1 CTT-T-G-TC--ATC-T-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* ** *
3126209 CA----T-T--TTTAAGCCCAATGTTACTGGCCTTGAATCAGCAAATTGGCAC
59 CATTCTTCTCATTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * * *** *
3126255 CTTTGTCATCTTTATA-TCTAATATCGCTAGCCTTAAATCAACATATCAACACTTTTATCATTCT
1 CTTTGTCATCTTTA-AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCT
* * * * * *
3126319 TCTCATCTATAAGTCCAATGTCGATGGCCTTGAATCAACACATTAGCAC
65 TCTCAT-T-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * * * * *
3126368 CTTTGTCATCTTTAGGCCCAATATTGCCGGCCTTGAATCAGCTTATTGGCACATTTATCATTTTT
1 CTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTT
* * * * * * * *
3126433 CTCTTTTTCAAGCCCGATATCACTGGTCGTGAATTAGCATGTTAGCAC
66 CTC-ATTT-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
3126481 CTTTATCAT
1 CTTTGTCAT
3126490 TCTTCGCATT
Statistics
Matches: 433, Mismatches: 93, Indels: 63
0.74 0.16 0.11
Matches are distributed among these distances:
102 3 0.01
103 5 0.01
104 113 0.26
105 7 0.02
106 3 0.01
107 1 0.00
108 6 0.01
109 6 0.01
110 3 0.01
111 13 0.03
112 149 0.34
113 123 0.28
114 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (111 bp):
CTTTGTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTT
CTCATTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:3126267 original size:328 final size:328
Alignment explanation
Indices: 3125664--3126409 Score: 1048
Period size: 328 Copynumber: 2.3 Consensus size: 328
3125654 GGCATCTTTG
*
3125664 TCATCTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTTGTCATTTTTAAGCC
1 TCATC-TTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATTTTTAAGCC
* * *
3125729 TAATGTTGCTGGCCTTGAATCAGCACATTGGTGCCTTTGTCATCTTTAAACTTAAAATCACTGGC
65 CAATGTTGCTGGCCTTGAATCAGCACATTGGTGCCTTTATCATCTTTAAACTCAAAATCACTGGC
* * **
3125794 CTTGAATCAGCATATCGACACCTTTATCGTTCTTTTCATCTTAAGTCTAATATTGCTAGCCTTGA
130 CTTGAATCAGCATATCGACACCTTTATCGTTCTTCTCATCTTAAGTCCAATATCACTAGCCTTGA
* * *
3125859 ATCAGCATATTGGCACCTTTGTCATTTTTAAGCCCAATATTGCTAACCTTGAATCAGTACATTGG
195 ATCAGCATATTGGCACCTTTGTCATTTTTAAGCCCAATATTACTAACCTTGAATCAGCAAATTGG
* * * ***
3125924 CACTTTTGTCATCTTTA-AGTCTAATATCGATGGCAC-TAAATCAGCATATTGGCACCTTTATCA
260 CACCTTTGTCATCTTTATA-TCTAATATCGATAGC-CTTAAATCAACATATCAACACCTTTATCA
3125987 TTCTTC
323 TTCTTC
* *
3125993 TCATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATTTTTAAACCC
1 TCATCTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATTTTTAAGCCC
* * * *
3126058 AATGTTGTTGGCCATGAATCAGCACATTGGTGCCTTTATCATCTTTAAA-TCCAATATCGCTGGC
66 AATGTTGCTGGCCTTGAATCAGCACATTGGTGCCTTTATCATCTTTAAACT-CAAAATCACTGGC
* * * * * *
3126122 CTTGAATCCGCATATTGGCATCTTTATCGTTCTTCTCATCTTATGTCCAATATCACTGGCCTTGA
130 CTTGAATCAGCATATCGACACCTTTATCGTTCTTCTCATCTTAAGTCCAATATCACTAGCCTTGA
* **
3126187 ATCAGCATATTGGCACCTTTGTCATTTTTAAGCCCAATGTTACTGGCCTTGAATCAGCAAATTGG
195 ATCAGCATATTGGCACCTTTGTCATTTTTAAGCCCAATATTACTAACCTTGAATCAGCAAATTGG
* *
3126252 CACCTTTGTCATCTTTATATCTAATATCGCTAGCCTTAAATCAACATATCAACACTTTTATCATT
260 CACCTTTGTCATCTTTATATCTAATATCGATAGCCTTAAATCAACATATCAACACCTTTATCATT
3126317 CTTC
325 CTTC
* * * * * *
3126321 TCATCTATAAGTCCAATGTCGATGGCCTTGAATCAACACATTAGCACCTTTGTCATCTTTAGGCC
1 TCATCT-TAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATTTTTAAGCC
* *
3126386 CAATATTGCCGGCCTTGAATCAGC
65 CAATGTTGCTGGCCTTGAATCAGC
3126410 TTATTGGCAC
Statistics
Matches: 367, Mismatches: 46, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
327 2 0.01
328 289 0.79
329 76 0.21
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.36
Consensus pattern (328 bp):
TCATCTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCATTTTTAAGCCC
AATGTTGCTGGCCTTGAATCAGCACATTGGTGCCTTTATCATCTTTAAACTCAAAATCACTGGCC
TTGAATCAGCATATCGACACCTTTATCGTTCTTCTCATCTTAAGTCCAATATCACTAGCCTTGAA
TCAGCATATTGGCACCTTTGTCATTTTTAAGCCCAATATTACTAACCTTGAATCAGCAAATTGGC
ACCTTTGTCATCTTTATATCTAATATCGATAGCCTTAAATCAACATATCAACACCTTTATCATTC
TTC
Found at i:3126425 original size:113 final size:113
Alignment explanation
Indices: 3126230--3126435 Score: 250
Period size: 113 Copynumber: 1.8 Consensus size: 113
3126220 CCAATGTTAC
* * * * * *
3126230 TGGCCTTGAATCAGCAAATTGGCACCTTTGTCATCTTTATATCTAATATCGCTAGCCTTAAATCA
1 TGGCCTTGAATCAACAAATTAGCACCTTTGTCATCTTTAGACCCAATATCGCCAGCCTTAAATCA
*
3126295 ACATATCAACACTTTTATCATTCTTCTCATCTATAAGTCCAATGTCGA
66 ACATATCAACACATTTATCATTCTTCTCATCTATAAGTCCAATGTCGA
* * * * *
3126343 TGGCCTTGAATCAACACATTAGCACCTTTGTCATCTTTAGGCCCAATATTGCCGGCCTTGAATCA
1 TGGCCTTGAATCAACAAATTAGCACCTTTGTCATCTTTAGACCCAATATCGCCAGCCTTAAATCA
* * *** *
3126408 GCTTATTGGCACATTTATCATTTTTCTC
66 ACATATCAACACATTTATCATTCTTCTC
3126436 TTTTTCAAGC
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
113 75 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (113 bp):
TGGCCTTGAATCAACAAATTAGCACCTTTGTCATCTTTAGACCCAATATCGCCAGCCTTAAATCA
ACATATCAACACATTTATCATTCTTCTCATCTATAAGTCCAATGTCGA
Found at i:3127168 original size:20 final size:20
Alignment explanation
Indices: 3127130--3127199 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
3127120 TTACAATTTG
3127130 TATCGATATAAAT-AGTAAATA
1 TATCGATAT--ATGAGTAAATA
*
3127151 TATCGATATATGAGTAAATG
1 TATCGATATATGAGTAAATA
* **
3127171 TATCGATACATGCCTGAAATA
1 TATCGATATATGAGT-AAATA
3127192 TATCGATA
1 TATCGATA
3127200 GAAAACCACC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.05
20 19 0.45
21 21 0.50
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (20 bp):
TATCGATATATGAGTAAATA
Found at i:3132975 original size:20 final size:19
Alignment explanation
Indices: 3132926--3132984 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
3132916 GCTACCCTAA
*
3132926 GTGAAATGTATCGATATAT
1 GTGAAATGTATCGATACAT
* *
3132945 GGGACATTGTATCGATACAT
1 GTGA-AATGTATCGATACAT
3132965 GATGAAATGTATCGATACAT
1 G-TGAAATGTATCGATACAT
3132985 TGTGCCCAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 3 0.09
20 28 0.85
21 2 0.06
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (19 bp):
GTGAAATGTATCGATACAT
Found at i:3134404 original size:27 final size:27
Alignment explanation
Indices: 3134365--3134428 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
3134355 AACAGGATTG
*
3134365 GAGTATCCTCTCGGAGGAATGGGGTTA
1 GAGTATCCCCTCGGAGGAATGGGGTTA
*
3134392 GAGTATCCCCTCGGAGGAATGGGGTTG
1 GAGTATCCCCTCGGAGGAATGGGGTTA
3134419 GAGTATCCCC
1 GAGTATCCCC
3134429 GTTGATGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.23
Consensus pattern (27 bp):
GAGTATCCCCTCGGAGGAATGGGGTTA
Found at i:3143100 original size:21 final size:20
Alignment explanation
Indices: 3143076--3143123 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
3143066 CAAATCCTTT
3143076 TCAAAATTCATC-ATTTTCACA
1 TCAAAATT-ATCTATTTT-ACA
* *
3143097 TCAAAACTATCTATTTTTCA
1 TCAAAATTATCTATTTTACA
3143117 TCAAAAT
1 TCAAAAT
3143124 ATTTTTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (20 bp):
TCAAAATTATCTATTTTACA
Found at i:3145625 original size:13 final size:13
Alignment explanation
Indices: 3145603--3145655 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
3145593 GATACATGGG
3145603 ACATTGTATCGAT
1 ACATTGTATCGAT
*
3145616 ACATTTTATCGAT
1 ACATTGTATCGAT
3145629 ACA-TG-AT-GA-
1 ACATTGTATCGAT
3145638 A-A-TGTATCGAT
1 ACATTGTATCGAT
3145649 ACATTGT
1 ACATTGT
3145656 GCCCAACGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 4 0.12
11 3 0.09
12 2 0.06
13 18 0.55
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:3145631 original size:33 final size:33
Alignment explanation
Indices: 3145589--3145653 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3145579 AAGTGAAATG
*
3145589 TATCGATACATG-GGACATTGTATCGATACATTT
1 TATCGATACATGAGGA-AATGTATCGATACATTT
*
3145622 TATCGATACATGATGAAATGTATCGATACATT
1 TATCGATACATGAGGAAATGTATCGATACATT
3145654 GTGCCCAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
TATCGATACATGAGGAAATGTATCGATACATTT
Found at i:3145713 original size:20 final size:20
Alignment explanation
Indices: 3145684--3145732 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
3145674 TCAAATGCAT
*
3145684 GTATCGATACATTATGAAAA
1 GTATCAATACATTATGAAAA
3145704 GTATCAATACATTATGAAAA
1 GTATCAATACATTATGAAAA
3145724 GTATCAATA
1 GTATCAATA
3145733 TATAGTAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (20 bp):
GTATCAATACATTATGAAAA
Found at i:3146595 original size:95 final size:94
Alignment explanation
Indices: 3146411--3146596 Score: 264
Period size: 95 Copynumber: 2.0 Consensus size: 94
3146401 GAGCTTATAG
* * *
3146411 ATGACAATTTAGGAAAATTAAGATTTAAATCTTGACAAGTTTAAAAATGGGGTTGGAGTATCCCA
1 ATGACAATTTAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAGGGTTGGAGTATCCCA
** * **
3146476 TCGGAAGAATGGGGTTGGAGTATCCCGAT
66 TAAGAAAAATGGGGTTAAAGTATCCCGAT
* *
3146505 ATGACAATTTAAGCAAAAATATGATTTAAATCTTGACGAGTTTAAAAATAGGGTTGGAGTATCCC
1 ATGACAATTT-AGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAGGGTTGGAGTATCCC
*
3146570 TTAAGAAAAATGGGGTTAAAGTATCCC
65 ATAAGAAAAATGGGGTTAAAGTATCCC
3146597 CATGAATAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 10 0.12
95 70 0.88
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (94 bp):
ATGACAATTTAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAGGGTTGGAGTATCCCA
TAAGAAAAATGGGGTTAAAGTATCCCGAT
Found at i:3149232 original size:20 final size:21
Alignment explanation
Indices: 3149207--3149259 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
3149197 ATTTCAAGCA
**
3149207 TGTATCGATACATTCTCTTG-
1 TGTATCGATACATTAACTTGT
3149227 TGTATCGATACATTAACTTGT
1 TGTATCGATACATTAACTTGT
3149248 TGTATCGATACA
1 TGTATCGATACA
3149260 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTAACTTGT
Found at i:3151213 original size:12 final size:12
Alignment explanation
Indices: 3151198--3151241 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
3151188 TCATGACTTT
3151198 TTTTATTTTTTA
1 TTTTATTTTTTA
*
3151210 TTTTATTTTTCA
1 TTTTATTTTTTA
3151222 -TTTATTTTTTA
1 TTTTATTTTTTA
3151233 TTTTGATTT
1 TTTT-ATTT
3151242 GATTTTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.36
12 14 0.50
13 4 0.14
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:3151247 original size:18 final size:18
Alignment explanation
Indices: 3151196--3151236 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
3151186 TTTCATGACT
* *
3151196 TTTTTTATTTTTTATTTTA
1 TTTTTCATTTATT-TTTTA
3151215 TTTTTCATTTATTTTTTA
1 TTTTTCATTTATTTTTTA
3151233 TTTT
1 TTTT
3151237 GATTTGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCATTTATTTTTTA
Found at i:3151248 original size:23 final size:21
Alignment explanation
Indices: 3151198--3151249 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
3151188 TCATGACTTT
*
3151198 TTTTATTTTTTATTTTATTTT
1 TTTTATTTTTTATTTTATTTA
3151219 TCATTTATTTTTTATTTTGATTTGA
1 T--TTTATTTTTTATTTT-ATTT-A
3151244 TTTTAT
1 TTTTAT
3151250 CTTAATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.04
23 20 0.77
24 4 0.15
25 1 0.04
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (21 bp):
TTTTATTTTTTATTTTATTTA
Found at i:3155672 original size:167 final size:167
Alignment explanation
Indices: 3155316--3156071 Score: 683
Period size: 166 Copynumber: 4.5 Consensus size: 167
3155306 ATTGATCCAA
* * * * * **
3155316 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT-TATCTTCCAAAAATTCAA-
1 AATTTTTAAAATTCATAAAATATCATCATTTAACTCATATTAAATCCAT-TTTAAAAAATT-AAT
* * * * * * * *
3155379 TTATTTTCATAACTTATTTAA--TTTTTCCTTGAAAATTCCTTATT-TCTAAAATA-CGGAGTTT
64 TTATTTTCATGAGTT-TTGAATTTTTTTCTTTGAAATTTTCTT-TTCCCTAAAAAATC-GAGTTT
** * * *
3155440 TCTACTT--AGTAAATTTTTTTGTGGGGATTTTTCTCAGTTTTC
126 TCTA-TTCCA-TAAATGCTTTTGAGGGGATTTTTCTTAGTTTTT
* * *
3155482 AATTGTTAAAATTCATTAAATATCACCATTTAAAC-CATATTAAATCCATTTTAAAAAATTAATT
1 AATTTTTAAAATTCATAAAATATCATCATTT-AACTCATATTAAATCCATTTTAAAAAATTAATT
*
3155546 AATTTTCATGAGTTTTGAATTTTTTTCTTTGAAATTTTCTTTTCCCTAAAAAATCGAGTTTTCTA
65 TATTTTCATGAGTTTTGAATTTTTTTCTTTGAAATTTTCTTTTCCCTAAAAAATCGAGTTTTCTA
*
3155611 TTCCGTAAATGCTTTTGAGGGGATTTTTCTTAGTTTTT
130 TTCCATAAATGCTTTTGAGGGGATTTTTCTTAGTTTTT
* * * *
3155649 AATTTTTAAAATTAATAAAATATCATCATTTAACTCATATTATAT-CATTTTTGAAAAACTAATT
1 AATTTTTAAAATTCATAAAATATCATCATTTAACTCATATTAAATCCA-TTTTAAAAAATTAATT
* * *
3155713 TATTTTCATGAGTTTTGAATTTTTTTCTTTGAAATTTCCCTTTCCGC-AAAAAATCAAGTTTTCT
65 TATTTTCATGAGTTTTGAATTTTTTTCTTTGAAATTTTCTTTTCC-CTAAAAAATCGAGTTTTCT
3155777 A--CCTATAAATGCTTTT-AGGGAGATTTTTCTTAGTTTTT
129 ATTCC-ATAAATGCTTTTGAGGG-GATTTTTCTTAGTTTTT
* ** * *
3155815 AATTTTTAAAATTCATCAAATATCATCATTTAACTCATATTAAATCGGTTTTTAAAAATTTATTT
1 AATTTTTAAAATTCATAAAATATCATCATTTAACTCATATTAAATCCATTTTAAAAAATTAATTT
*
3155880 ATTTTCATGAGTTTTGAA-TTTTTTCTTTGAAATTTTTCTGTTT-TCT-AAAAATCGAG-TTTCT
66 ATTTTCATGAGTTTTGAATTTTTTTCTTTGAAA-TTTTCT-TTTCCCTAAAAAATCGAGTTTTCT
** * * * **
3155941 ATTCCATAAATATTTTTTG-GAGGAATTTTTCTCAATTTAA
129 ATTCCATAAAT-GCTTTTGAG-GGGATTTTTCTTAGTTTTT
** * * * * * *
3155981 AATTTTTAAAATTCATCTAATATTATTATTAAACTC-TCATTAAGT-TAGTTTTAAGAAATTCAA
1 AATTTTTAAAATTCATAAAATATCATCATTTAACTCAT-ATTAAATCCA-TTTTAAAAAATT-AA
* *
3156044 TTTA-TTTCATGAATTTTAAATGTTTTTT
63 TTTATTTTCATGAGTTTTGAAT-TTTTTT
3156072 GTATACACTA
Statistics
Matches: 495, Mismatches: 67, Indels: 54
0.80 0.11 0.09
Matches are distributed among these distances:
164 6 0.01
165 43 0.09
166 253 0.51
167 185 0.37
168 8 0.02
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.49
Consensus pattern (167 bp):
AATTTTTAAAATTCATAAAATATCATCATTTAACTCATATTAAATCCATTTTAAAAAATTAATTT
ATTTTCATGAGTTTTGAATTTTTTTCTTTGAAATTTTCTTTTCCCTAAAAAATCGAGTTTTCTAT
TCCATAAATGCTTTTGAGGGGATTTTTCTTAGTTTTT
Found at i:3156048 original size:333 final size:333
Alignment explanation
Indices: 3155465--3156071 Score: 784
Period size: 333 Copynumber: 1.8 Consensus size: 333
3155455 TTTTTGTGGG
*
3155465 GATTTTTCTCAGTTTTCAATTGTTAAAATTCATTAAATATCACCATTTAAACCATATTAAATCCA
1 GATTTTTCTCAGTTTTCAATTGTTAAAATTCATCAAATATCACCATTTAAACCATATTAAATCCA
3155530 TTTTAAAAAATTAATTAATTTTCATGAGTTTTGAATTTTTTTCTTTGAAATTTTCTTTTCCCTAA
66 TTTTAAAAAATTAATTAATTTTCATGAGTTTTGAATTTTTTTCTTTGAAATTTTCTTTTCCCTAA
* * * * **
3155595 AAAATCGAGTTTTCTATTCCGTAAATGCTTTTGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAA
131 AAAATCGAGTTTTCTATTCCATAAATGCTTTTGAGGGAATTTTTCTCAATTTAAAATTTTTAAAA
* * *
3155660 TTAATAAAATATCATCATTTAACTCATATTATATCATTTTTGAAAAACTAATTTATTTTCATGAG
196 TTAATAAAATATCATCATTAAACTCATATTATATCAGTTTTGAAAAACTAATTTA-TTTCATGAA
*
3155725 TTTTGAAT-TTTTTTCTTTGAAATTTCCCTTTCCGCAAAAAATCAAGTTTTCTACCTATAAATGC
260 TTTTAAATGTTTTTTCTTTGAAATTTCCCTTTCCGCAAAAAATCAAGTTTTCTACCTATAAATGC
3155789 TTTTAGGGA
325 TTTTAGGGA
* * * * *
3155798 GATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATCATCATTT-AACTCATATTAAATCG
1 GATTTTTCTCAGTTTTCAATTGTTAAAATTCATCAAATATCACCATTTAAAC-CATATTAAATCC
* * * * *
3155862 GTTTTTAAAAATTTATTTATTTTCATGAGTTTTGAA-TTTTTTCTTTGAAATTTTTCTGTTT-TC
65 ATTTTAAAAAATTAATTAATTTTCATGAGTTTTGAATTTTTTTCTTTGAAA-TTTTCT-TTTCCC
**
3155925 T-AAAAATCGAG-TTTCTATTCCATAAATATTTTTTG-GAGGAATTTTTCTCAATTTAAAATTTT
128 TAAAAAATCGAGTTTTCTATTCCATAAAT-GCTTTTGAG-GGAATTTTTCTCAATTTAAAATTTT
* ** * * * *
3155987 TAAAATTCATCTAATATTATTATTAAACTC-TCATTA-AGTTAGTTTT-AAGAAATTCAATTTAT
191 TAAAATTAATAAAATATCATCATTAAACTCAT-ATTATA-TCAGTTTTGAA-AAACT-AATTTAT
3156049 TTCATGAATTTTAAATGTTTTTT
252 TTCATGAATTTTAAATGTTTTTT
3156072 GTATACACTA
Statistics
Matches: 234, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
331 20 0.09
332 105 0.45
333 106 0.45
334 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (333 bp):
GATTTTTCTCAGTTTTCAATTGTTAAAATTCATCAAATATCACCATTTAAACCATATTAAATCCA
TTTTAAAAAATTAATTAATTTTCATGAGTTTTGAATTTTTTTCTTTGAAATTTTCTTTTCCCTAA
AAAATCGAGTTTTCTATTCCATAAATGCTTTTGAGGGAATTTTTCTCAATTTAAAATTTTTAAAA
TTAATAAAATATCATCATTAAACTCATATTATATCAGTTTTGAAAAACTAATTTATTTCATGAAT
TTTAAATGTTTTTTCTTTGAAATTTCCCTTTCCGCAAAAAATCAAGTTTTCTACCTATAAATGCT
TTTAGGGA
Found at i:3156399 original size:20 final size:20
Alignment explanation
Indices: 3156374--3156412 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3156364 GAACTCAACA
* *
3156374 AAAGAAGAGAGAGAAAAAAG
1 AAAGAAAAGAAAGAAAAAAG
3156394 AAAGAAAAGAAAGAAAAAA
1 AAAGAAAAGAAAGAAAAAA
3156413 CAAGAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
AAAGAAAAGAAAGAAAAAAG
Found at i:3157130 original size:13 final size:13
Alignment explanation
Indices: 3157112--3157136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3157102 CATTGTTCAT
3157112 TGTATCGATACAC
1 TGTATCGATACAC
3157125 TGTATCGATACA
1 TGTATCGATACA
3157137 TTCTGGGTTT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:3159526 original size:28 final size:27
Alignment explanation
Indices: 3159492--3159563 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
3159482 TTCATCTCGA
3159492 GGATACTCCAACCTCGTTA-TTTCATCGG
1 GGATACTCCAACCTCGTTATTTTCA--GG
**
3159520 GGATACTCCAACCTTATTATTTTCGAGG
1 GGATACTCCAACCTCGTTATTTTC-AGG
*
3159548 GGATACTTCAACCTCG
1 GGATACTCCAACCTCG
3159564 ATTTTATTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (27 bp):
GGATACTCCAACCTCGTTATTTTCAGG
Found at i:3161912 original size:13 final size:13
Alignment explanation
Indices: 3161894--3161919 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3161884 TACAGCAAGT
3161894 ATGTATCGATACA
1 ATGTATCGATACA
3161907 ATGTATCGATACA
1 ATGTATCGATACA
3161920 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3166001 original size:15 final size:15
Alignment explanation
Indices: 3165981--3166011 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3165971 TAAAAATGTC
*
3165981 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
3165996 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
3166011 C
1 C
3166012 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:3168104 original size:20 final size:21
Alignment explanation
Indices: 3168026--3168103 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
3168016 ATGTCCAAAA
*
3168026 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
3168046 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
3168070 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
3168091 TGTATCGATACAT
1 TGTATCGATACAT
3168104 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:3168108 original size:13 final size:13
Alignment explanation
Indices: 3168090--3168128 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3168080 ACATTTTTTG
3168090 TTGTATCGATACA
1 TTGTATCGATACA
3168103 TTGTATCGATACA
1 TTGTATCGATACA
*
3168116 CTGTATCGATACA
1 TTGTATCGATACA
3168129 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3168273 original size:21 final size:21
Alignment explanation
Indices: 3168249--3168295 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
3168239 AAATCTTTTG
3168249 CAAAAT-ACTT-GTTCTTCACTT
1 CAAAATAACTTCGTTCTTCA--T
3168270 C-AAATAACTTCGTTCTTCAT
1 CAAAATAACTTCGTTCTTCAT
3168290 CAAAAT
1 CAAAAT
3168296 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.38
Consensus pattern (21 bp):
CAAAATAACTTCGTTCTTCAT
Found at i:3168292 original size:20 final size:19
Alignment explanation
Indices: 3168251--3168293 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
3168241 ATCTTTTGCA
3168251 AAATACTTGTTCTTCACTTC
1 AAATACTTGTTCTTCAC-TC
3168271 AAATAACTTCGTTCTTCA-TC
1 AAAT-ACTT-GTTCTTCACTC
3168291 AAA
1 AAA
3168294 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (19 bp):
AAATACTTGTTCTTCACTC
Found at i:3169958 original size:32 final size:32
Alignment explanation
Indices: 3169922--3169985 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
3169912 AATTTTGATA
*
3169922 TGAATTACTTGATTAAGGGGGAGATTTTTTTT
1 TGAATTACTTGATTAAGGGGGAAATTTTTTTT
3169954 TGAATTACTTGATTAAGGGGGAAATTTTTTTT
1 TGAATTACTTGATTAAGGGGGAAATTTTTTTT
3169986 AAACGGGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.23, T:0.47
Consensus pattern (32 bp):
TGAATTACTTGATTAAGGGGGAAATTTTTTTT
Found at i:3170712 original size:13 final size:13
Alignment explanation
Indices: 3170694--3170719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3170684 TACAGCAAGT
3170694 ATGTATCGATACA
1 ATGTATCGATACA
3170707 ATGTATCGATACA
1 ATGTATCGATACA
3170720 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3177164 original size:13 final size:13
Alignment explanation
Indices: 3177146--3177171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3177136 AATTTTTTTG
3177146 TGTATCGATACAT
1 TGTATCGATACAT
3177159 TGTATCGATACAT
1 TGTATCGATACAT
3177172 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3179265 original size:21 final size:20
Alignment explanation
Indices: 3179236--3179278 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
3179226 GGCTAATATG
* *
3179236 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
3179257 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
3179277 GG
1 GG
3179279 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:3181845 original size:15 final size:15
Alignment explanation
Indices: 3181825--3181855 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3181815 ATTTCGTTTG
*
3181825 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3181840 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3181855 G
1 G
3181856 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3185937 original size:13 final size:13
Alignment explanation
Indices: 3185919--3185944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3185909 AATTTTTTTG
3185919 TGTATCGATACAT
1 TGTATCGATACAT
3185932 TGTATCGATACAT
1 TGTATCGATACAT
3185945 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3191675 original size:12 final size:12
Alignment explanation
Indices: 3191658--3191692 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
3191648 CTTTTTTTAG
3191658 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
3191670 AAAAAACAAAAC
1 AAAAAAAAAAAC
3191682 AAAGAAAAAAA
1 AAA-AAAAAAA
3191693 GAGAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.89, C:0.09, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:3192834 original size:94 final size:94
Alignment explanation
Indices: 3192709--3192946 Score: 325
Period size: 94 Copynumber: 2.5 Consensus size: 94
3192699 GATGCCTTCT
* *
3192709 CCTTTTAAAGCCCAAACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGTAGGACGCTCTCTCCTT
1 CCTTTTAAAGCCCAAACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAAGACGCTCTCTCCTT
* *
3192774 TTACCCTTTAGAT-CTCAAAAAGCAGGACG
66 TCACCCTTTAG-TCCTCAAAAAGCAAGACG
* * * *
3192803 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAATACGCTTTCTCCTT
1 CCTTTTAAAGCCCAAACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAAGACGCTCTCTCCTT
*
3192868 TCACCCTTTAGTCCTCAAAGAGCAAGACG
66 TCACCCTTTAGTCCTCAAAAAGCAAGACG
* * * * * *
3192897 TCTTTCAAAGCCCATACAAGTTGGTGGCATTTTCTAGTCCTCAATGAGCA
1 CCTTTTAAAGCCCAAACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCA
3192947 GAACGCCTTT
Statistics
Matches: 127, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
93 1 0.01
94 126 0.99
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (94 bp):
CCTTTTAAAGCCCAAACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAAGACGCTCTCTCCTT
TCACCCTTTAGTCCTCAAAAAGCAAGACG
Found at i:3193076 original size:62 final size:62
Alignment explanation
Indices: 3192898--3193446 Score: 764
Period size: 62 Copynumber: 9.0 Consensus size: 62
3192888 AGCAAGACGT
* * * * *
3192898 CTTTCAAAGCCCATACAAGTTGGTGGCA-TTTTCTAGTCCTCAATGAGCAGAACGCC-TTT-
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * * *
3192957 C----AAAGCCCACACAAGCTGGTGGCAC-CTT-TAGTCCTCAAAAAGTAGGATGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
3193013 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
*
3193075 CTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * **
3193136 CTTTTAAAGCCCACACAAGTTGATGGCACTTTTCTAGTCCTCAAAGAGCAAGACACCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
3193198 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * * *
3193260 CTTTTAAAGCCCACACAAGTTGGTTGAAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* *
3193321 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * * * * *
3193383 ATTTTAAAGTCCACACAAGTTGCTAGCAC-CTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TC
3193444 CTT
1 CTT
3193447 GCGAAGCCCA
Statistics
Matches: 437, Mismatches: 41, Indels: 22
0.87 0.08 0.04
Matches are distributed among these distances:
54 18 0.04
55 26 0.06
56 1 0.00
59 1 0.00
60 27 0.06
61 143 0.33
62 221 0.51
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (62 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
Found at i:3193142 original size:123 final size:123
Alignment explanation
Indices: 3192898--3193495 Score: 779
Period size: 123 Copynumber: 4.9 Consensus size: 123
3192888 AGCAAGACGT
* * * *
3192898 CTTTCAAAGCCCATACAAGTTGGTGGCA-TTTTCTAGTCCTCAATGAGCAGAACGCC-TTT-C--
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
* * *
3192958 --AAAGCCCACACAAGCTGGTGGCACCTT-TAGTCCTCAAAAAGTAGGATGCCTTTTC
66 TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
*
3193013 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
3193078 TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
66 TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * *
3193136 CTTTTAAAGCCCACACAAGTTGATGGCACTTTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
*
3193201 TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
66 TTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * *
3193260 CTTTTAAAGCCCACACAAGTTGGTTGAAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
* * *
3193324 TTAAAGCCCACACAAGTTGGTGGCACTTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTC
66 TTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * * * * * *
3193383 ATTTTAAAGTCCACACAAGTTGCTAGCAC-CTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTT-TCCT
*** * * * * *
3193446 TGCGAAGCCCATC-CAAGCTAGTGGCACCTGCTAGTCCCCAAGGAGCAGGA
65 TTTAAAGCCCA-CACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA
3193496 GCTATTTCAT
Statistics
Matches: 433, Mismatches: 39, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
115 26 0.06
116 25 0.06
117 3 0.01
118 1 0.00
122 47 0.11
123 273 0.63
124 58 0.13
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (123 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTT
TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
Found at i:3193214 original size:185 final size:184
Alignment explanation
Indices: 3192898--3193495 Score: 811
Period size: 185 Copynumber: 3.3 Consensus size: 184
3192888 AGCAAGACGT
* ** * *
3192898 CTTTCAAAGCCCATACAAGTTGGTGGCATTTTCTAGTCCTCAATGAGCAGAACGCC-TTT-C---
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
* * *
3192958 -AAAGCCCACACAAGCTGGTGGCAC-CTTTAGTCCTCAAAAAGTAGGATGCCTTTTCCTTTTAAA
66 TAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAA
3193021 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
131 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* *
3193075 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
* * * **
3193140 TAAAGCCCACACAAGTTGATGGCACTTTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAA
66 TAAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAA
3193205 AGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
130 AGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
* * *
3193260 CTTTTAAAGCCCACACAAGTTGGTTGAACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
*
3193325 TAAAGCCCACACAAGTTGGTGGCACTTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCATTTTAA
66 TAAAGCCCACACAAGTTGGTGGCAC-TTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAA
* * * * *
3193390 AGTCCACACAAGTTGCTAGCAC-CTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTC
130 AGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TC
* * * * * * *
3193444 CTTGCGAAGCCCATC-CAAGCTAGTGGCACCTGCTAGTCCCCAAGGAGCAGGA
1 CTTTCAAAGCCCA-CACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA
3193496 GCTATTTCAT
Statistics
Matches: 371, Mismatches: 39, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
177 49 0.13
178 3 0.01
179 1 0.00
183 26 0.07
184 67 0.18
185 221 0.60
186 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (184 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
TAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAA
GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTC
Found at i:3195322 original size:13 final size:13
Alignment explanation
Indices: 3195304--3195329 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3195294 ACATTTTGGG
3195304 ATGTATCGATACA
1 ATGTATCGATACA
3195317 ATGTATCGATACA
1 ATGTATCGATACA
3195330 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3195346 original size:32 final size:33
Alignment explanation
Indices: 3195282--3195349 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
3195272 CGTTACAAGC
*
3195282 CAATGTATAGATACATTTTGGGATGTATCGATA
1 CAATGTATAGATACATATTGGGATGTATCGATA
* *
3195315 CAATGTATCGATACATATTGTG-TGTATCGATA
1 CAATGTATAGATACATATTGGGATGTATCGATA
3195347 CAA
1 CAA
3195350 ATTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (33 bp):
CAATGTATAGATACATATTGGGATGTATCGATA
Found at i:3195418 original size:20 final size:22
Alignment explanation
Indices: 3195371--3195423 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
3195361 GCCAATGACC
**
3195371 TGTATCGATACATTCTTTTCAA
1 TGTATCGATACATTCTGGTCAA
3195393 -GTATCGATACATT-TGGT-AA
1 TGTATCGATACATTCTGGTCAA
3195412 TGTATCGATACA
1 TGTATCGATACA
3195424 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 13 0.46
21 13 0.46
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (22 bp):
TGTATCGATACATTCTGGTCAA
Found at i:3195428 original size:13 final size:13
Alignment explanation
Indices: 3195410--3195435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3195400 TACATTTGGT
3195410 AATGTATCGATAC
1 AATGTATCGATAC
3195423 AATGTATCGATAC
1 AATGTATCGATAC
3195436 TGTGCAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3197249 original size:28 final size:28
Alignment explanation
Indices: 3197188--3197259 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
3197178 TTTTTATCTC
*
3197188 GGGGATACTCCAACCTTGTTATTTCATCA
1 GGGGATACTCCAACCTTATTATTT-ATCA
* *
3197217 -AGGATACTCTAACCTTATTATTT-TCGA
1 GGGGATACTCCAACCTTATTATTTATC-A
*
3197244 GGGGATAATCCAACCT
1 GGGGATACTCCAACCT
3197260 CGGTTTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
26 2 0.06
27 1 0.03
28 32 0.91
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (28 bp):
GGGGATACTCCAACCTTATTATTTATCA
Found at i:3198995 original size:5 final size:5
Alignment explanation
Indices: 3198987--3199020 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
3198977 GAAATTTTCA
3198987 AAAAT AAAAAT AATAAT AAAAT AAAAT AAAAT AA
1 AAAAT -AAAAT AA-AAT AAAAT AAAAT AAAAT AA
3199021 CAAATAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 17 0.63
6 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:3199026 original size:22 final size:22
Alignment explanation
Indices: 3198987--3199028 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3198977 GAAATTTTCA
*
3198987 AAAATAAAAATAATAATAAAAT
1 AAAATAAAAATAAAAATAAAAT
3199009 AAAAT-AAAATAACAAATAAA
1 AAAATAAAAATAA-AAATAAA
3199029 TTCTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAATAAAAATAAAAATAAAAT
Found at i:3199028 original size:17 final size:16
Alignment explanation
Indices: 3198987--3199020 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
3198977 GAAATTTTCA
3198987 AAAATAAAAATAATAAT
1 AAAAT-AAAATAATAAT
3199004 AAAATAAAATAA-AAT
1 AAAATAAAATAATAAT
3199019 AA
1 AA
3199021 CAAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAAATAATAAT
Found at i:3206229 original size:256 final size:259
Alignment explanation
Indices: 3205759--3206257 Score: 598
Period size: 256 Copynumber: 1.9 Consensus size: 259
3205749 TCTTATCTTC
* *
3205759 TTTTTTTTCATTTTTTACATTAAAAATAAGTGACTTATAAGTCTTAAGAGACTAGACAAAACCTA
1 TTTTTTTTCATTTTTTACATTAAAAATAAGTGACTTATAAGTCTTAAAAGACTAGAAAAAACCTA
* * * * *
3205824 TATAGCCATATTCTTACTTATAAGAGATAGATAAGTTGAAAAAAAAAAACAAAATCAAGTTAGCA
66 TAGAGCCACAGTCTTACTTATAAAAGATAGATAAGTTG--AAAAAAAAACAAAATCAAATTA-CA
* * *
3205889 CTTAATATAAAAATTAAATAATGTATTTTCAAAACATGAGGCATTAGAATGCCACAAGATGAGCA
128 CTTAATATAAAAATTAAATAATGTATCTTAAAAACATGA-GAATTAGAATGCCACAAGATGAGCA
3205954 TCTAAATGCGCTCTATTGCACACTAAATCTCAAACTTCTTTCAAAATCTTACAAGTTTCCCTTTC
192 TCTAAATGCGCTCTATTGCACACTAAATCTCAAACTTCTTTCAAAATCTTACAAGTTTCCCTTTC
3206019 AAT
257 AAT
* * * * *
3206022 TTTTTTTTCATTTTTT-TATTAAAAATAAGTGACTTATAAGTTTTAAAAGGCTAGAAAAAACTTG
1 TTTTTTTTCATTTTTTACATTAAAAATAAGTGACTTATAAGTCTTAAAAGACTAGAAAAAACCTA
* * * *
3206086 TAGAGCC-CAGT-TTACTTGTAAAAGATAGATAAGTTG-GAAAAAAGCATAATCAAATATA-ACT
66 TAGAGCCACAGTCTTACTTATAAAAGATAGATAAGTTGAAAAAAAAACAAAATCAAAT-TACACT
* * * * * *
3206147 TAATATAAAAATTAAGTAGTGTCTCTTAAAAACATGA-AATGTCTGAATGCCATAAGATGGGCAT
130 TAATATAAAAATTAAATAATGTATCTTAAAAACATGAGAAT-T-AGAATGCCACAAGATGAGCAT
* * * * * *
3206211 TTGAATGTC-CTTTATTGCACATTAAATTTCAAACTTGTTTCAAAATC
193 CTAAATG-CGCTCTATTGCACACTAAATCTCAAACTTCTTTCAAAATC
3206258 ATTTAAAATC
Statistics
Matches: 201, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
254 2 0.01
255 1 0.00
256 92 0.46
257 16 0.08
258 2 0.01
260 23 0.11
261 2 0.01
262 47 0.23
263 16 0.08
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (259 bp):
TTTTTTTTCATTTTTTACATTAAAAATAAGTGACTTATAAGTCTTAAAAGACTAGAAAAAACCTA
TAGAGCCACAGTCTTACTTATAAAAGATAGATAAGTTGAAAAAAAAACAAAATCAAATTACACTT
AATATAAAAATTAAATAATGTATCTTAAAAACATGAGAATTAGAATGCCACAAGATGAGCATCTA
AATGCGCTCTATTGCACACTAAATCTCAAACTTCTTTCAAAATCTTACAAGTTTCCCTTTCAAT
Found at i:3208153 original size:13 final size:13
Alignment explanation
Indices: 3208135--3208160 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3208125 CAATTTTTTG
3208135 TGTATCGATACAT
1 TGTATCGATACAT
3208148 TGTATCGATACAT
1 TGTATCGATACAT
3208161 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3210313 original size:13 final size:13
Alignment explanation
Indices: 3210295--3210320 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3210285 ATAATCACCC
3210295 TGTATCGATACAA
1 TGTATCGATACAA
3210308 TGTATCGATACAA
1 TGTATCGATACAA
3210321 GGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3214256 original size:21 final size:21
Alignment explanation
Indices: 3214227--3214271 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3214217 AAGTTTTCAT
*
3214227 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3214247 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3214269 TTT
1 TTT
3214272 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3216507 original size:13 final size:13
Alignment explanation
Indices: 3216489--3216514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3216479 CAATCTTTTG
3216489 TGTATCGATACAT
1 TGTATCGATACAT
3216502 TGTATCGATACAT
1 TGTATCGATACAT
3216515 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3218208 original size:87 final size:87
Alignment explanation
Indices: 3217659--3218205 Score: 404
Period size: 87 Copynumber: 6.3 Consensus size: 87
3217649 TCGATAACCA
* * * * ** * *
3217659 AGATGGAATTTCCCCGAGGATAAAATTATA-GAAAGAAAAATTCAAATTTTCATTAAAACGA-GT
1 AGATGGAGTTTCCCCAAAGATAAAATTATACG-AAGGAAAATTTGAATTTT-GTTAGAACGAGGT
* * *
3217722 TGGAGTATCCTCTCAGAATAATAGG
64 TGGAGTATCCCCTCAGAAGAGT-GG
* ** * * *
3217747 -GATAGAGTTTCCTTAAGGATAAAATTATAC-AAAGAAAACTTTGAATTTT-TT-GAAGAGTAGA
1 AGATGGAGTTTCCCCAAAGATAAAATTATACGAAGGAAAA-TTTGAATTTTGTTAGAA-CG-AG-
** * **
3217808 GTCAGAGTGTCCCCTTGGAAGAGTAGG
62 GTTGGAGTATCCCCTCAGAAGAGT-GG
** * *
3217835 -GATATAGTTTCCCCAAAGATAAAATTATATGAA-GAAAATTTTGAATTTTGTTAGAGCGAGGTT
1 AGATGGAGTTTCCCCAAAGATAAAATTATACGAAGGAAAA-TTTGAATTTTGTTAGAACGAGGTT
* * *
3217898 GGAGCATCCCCTTAGAGGAGTGG
65 GGAGTATCCCCTCAGAAGAGTGG
* * * * *
3217921 AGATGGAGTTT-TCCAAAGATAAAATT-TCACGAAGAAAAATTT-AATTTTTTTGGAGAGCGGGG
1 AGATGGAGTTTCCCCAAAGATAAAATTAT-ACGAAGGAAAATTTGAATTTTGTT--AGAACGAGG
* * **
3217983 TTGGAGTGTCCCCTCGGTGGAGTGG
63 TTGGAGTATCCCCTCAGAAGAGTGG
* * *
3218008 AGATGGAGTTTCCCCAAAGATAAAATCATACGAAGGAAAATTTGAATTTT-TAATGAACGGGGTT
1 AGATGGAGTTTCCCCAAAGATAAAATTATACGAAGGAAAATTTGAATTTTGTTA-GAACGAGGTT
* *
3218072 GGAGTGTTCCCTCA-AAGGAGTGG
65 GGAGTATCCCCTCAGAA-GAGTGG
* * * *
3218095 TGATGGAGTTTCCCCAAAGATAAAATTAAATGAAGGAAAATTTGAATTTTGTTAGAACGATGTTG
1 AGATGGAGTTTCCCCAAAGATAAAATTATACGAAGGAAAATTTGAATTTTGTTAGAACGAGGTTG
* *
3218160 GAGTATCCCCTCAGAATAGT-A
66 GAGTATCCCCTCAGAAGAGTGG
*
3218181 AGGATGGAGTTTCCCTAAA-ATAAAA
1 A-GATGGAGTTTCCCCAAAGATAAAA
3218206 ATTTTTTAAT
Statistics
Matches: 370, Mismatches: 67, Indels: 46
0.77 0.14 0.10
Matches are distributed among these distances:
84 2 0.01
85 12 0.03
86 37 0.10
87 213 0.58
88 92 0.25
89 12 0.03
90 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (87 bp):
AGATGGAGTTTCCCCAAAGATAAAATTATACGAAGGAAAATTTGAATTTTGTTAGAACGAGGTTG
GAGTATCCCCTCAGAAGAGTGG
Found at i:3221300 original size:18 final size:16
Alignment explanation
Indices: 3221251--3221308 Score: 89
Period size: 16 Copynumber: 3.5 Consensus size: 16
3221241 CACGTTTTTT
3221251 AGATTCGACATGTGGA
1 AGATTCGACATGTGGA
3221267 AGATTCGACATGTGGA
1 AGATTCGACATGTGGA
*
3221283 AGATTCGACGTGTGTGGA
1 AGATTCGAC--ATGTGGA
3221301 AGATTCGA
1 AGATTCGA
3221309 TAATTTGAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
16 25 0.64
18 14 0.36
ACGTcount: A:0.29, C:0.12, G:0.33, T:0.26
Consensus pattern (16 bp):
AGATTCGACATGTGGA
Found at i:3221540 original size:20 final size:20
Alignment explanation
Indices: 3221515--3221614 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 20
3221505 TTTCAACGAT
3221515 TTGTATCGATACATAAAATA
1 TTGTATCGATACATAAAATA
3221535 TTGTATCGATAC-------A
1 TTGTATCGATACATAAAATA
3221548 TTGTATCGATACATAAAATA
1 TTGTATCGATACATAAAATA
3221568 TTGTATCGATAC-------A
1 TTGTATCGATACATAAAATA
3221581 TTGTATCGATACATAAAATA
1 TTGTATCGATACATAAAATA
*
3221601 TTATATCGATACAT
1 TTGTATCGATACAT
3221615 TGTATCGATA
Statistics
Matches: 65, Mismatches: 1, Indels: 28
0.69 0.01 0.30
Matches are distributed among these distances:
13 26 0.40
20 39 0.60
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATAAAATA
Found at i:3221552 original size:13 final size:13
Alignment explanation
Indices: 3221534--3221594 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
3221524 TACATAAAAT
3221534 ATTGTATCGATAC
1 ATTGTATCGATAC
3221547 ATTGTATCGATAC
1 ATTGTATCGATAC
* *
3221560 A---TA---AAAT
1 ATTGTATCGATAC
3221567 ATTGTATCGATAC
1 ATTGTATCGATAC
3221580 ATTGTATCGATAC
1 ATTGTATCGATAC
3221593 AT
1 AT
3221595 AAAATATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
7 3 0.08
10 4 0.11
13 31 0.82
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:3221552 original size:33 final size:33
Alignment explanation
Indices: 3221515--3221629 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
3221505 TTTCAACGAT
3221515 TTGTATCGATACATAAAATATTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
3221548 TTGTATCGATACATAAAATATTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
*
3221581 TTGTATCGATACATAAAATATTATATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
3221614 TTGTATCGATACATAA
1 TTGTATCGATACATAA
3221630 GTTTTATATC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATAAAATATTGTATCGATACA
Found at i:3221777 original size:52 final size:52
Alignment explanation
Indices: 3221721--3221849 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3221711 CACTGATCTT
*
3221721 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
3221773 TGTATCGATACATACAGGTAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3221825 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3221850 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3226440 original size:11 final size:11
Alignment explanation
Indices: 3226424--3226448 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3226414 GAGTTGATCT
3226424 AAAAATAGTCC
1 AAAAATAGTCC
3226435 AAAAATAGTCC
1 AAAAATAGTCC
3226446 AAA
1 AAA
3226449 GTTGGGTGAA
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAAATAGTCC
Found at i:3228304 original size:19 final size:19
Alignment explanation
Indices: 3228280--3228329 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
3228270 AGCGATACAT
3228280 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
**
3228299 TGTATCGATACAGCACTTA
1 TGTATCGATACAAAACTTA
3228318 TGTATCGATACA
1 TGTATCGATACA
3228330 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:3228336 original size:13 final size:13
Alignment explanation
Indices: 3228318--3228342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3228308 ACAGCACTTA
3228318 TGTATCGATACAT
1 TGTATCGATACAT
3228331 TGTATCGATACA
1 TGTATCGATACA
3228343 AATTGTTGAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3230787 original size:165 final size:165
Alignment explanation
Indices: 3230383--3230818 Score: 583
Period size: 164 Copynumber: 2.7 Consensus size: 165
3230373 TCGAAATGTC
* * *
3230383 ATTTCGTACCTTAATGGAAACCCAAAAAGATACGAAACA-TTTTTGAAACCTTTTATACCCCTAT
1 ATTTCGTACATTAATGGAAACCCAAAAAGATACGAAA-AGTTTTTGAAATCTTTTATACCCCTAC
* * * *
3230447 GGGCCCCCATAGGAATATAAAAGATTAGAAAAATAATTAATATTTATTTCACTCGTGAAAGTGTT
65 AGACCCCCATAGGAATATAAAAGATTAGAAAAATAATTAATATTTATTTCAATCATGAAAGTGTT
* *
3230512 AATTTAATTTAATTTATTTATTTCCAAAAATTACCT
130 AATTTAATTTAATTTATTTATTTCCAAAAATAAACT
* * *
3230548 -TTTCATACTTTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTACACCCCTACA
1 ATTTCGTACATTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACA
* * * * *
3230612 GACACCCATAGGATTATGAAAGATTAGAAAAATAATTAATATTTATTTCAATTATGGAAGTGTTA
66 GACCCCCATAGGAATATAAAAGATTAGAAAAATAATTAATATTTATTTCAATCATGAAAGTGTTA
* * **
3230677 ATTTAATTTTATTTACTTTTTTTTGAAAAA-AAACT
131 ATTTAATTTAATTTA-TTTATTTCCAAAAATAAACT
* * * *
3230712 ATTTCGTACATTAATGGAAACTCAAAAAGATACGAAAAGTTTTAGAAATCTTTTATAACTCTACA
1 ATTTCGTACATTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACA
* *
3230777 GACCCCCATAGGAATATAAAAGTTTA-AAAAATGATTAATATT
66 GACCCCCATAGGAATATAAAAGATTAGAAAAATAATTAATATT
3230819 GAAATATCTT
Statistics
Matches: 236, Mismatches: 32, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
163 1 0.00
164 145 0.61
165 90 0.38
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (165 bp):
ATTTCGTACATTAATGGAAACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACA
GACCCCCATAGGAATATAAAAGATTAGAAAAATAATTAATATTTATTTCAATCATGAAAGTGTTA
ATTTAATTTAATTTATTTATTTCCAAAAATAAACT
Found at i:3232678 original size:165 final size:164
Alignment explanation
Indices: 3232332--3232711 Score: 355
Period size: 165 Copynumber: 2.3 Consensus size: 164
3232322 ATGATTGAAT
* * * *
3232332 TTTTGAAAAATAATTTAATAGGAATTAAATAATAATATTTGATGAATTTTAAAACTAAAAACAAG
1 TTTTCAAAAATGATTTAATAGAAATTAAATAATAATATTTGATGAATTTTAAAAATAAAAACAAG
* * * *
3232397 AAAAATCCCTCCAAAAAAATTTACAGAGAAGAAAACTCCATATTTTAAAAATAGAAAAATTTTAA
66 AAAAATCCCTCCAAAAAAATTTACAGAGAAAAAAACACCATAATTTAAAAATAGAAAAATTTCAA
* * *
3232462 GGAAAAAATTCAAAATCTCATTAAAATGAATGAAT
131 -GAAAAAATTCAAAATCTCATTAAAATAAAAGAAA
* * * *
3232497 TTTTGAAAAATGATTTAATATAAATTAAGTGATAATATTTGATGAATTTTAAAAAATAAAAACTA
1 TTTTCAAAAATGATTTAATAGAAATTAAATAATAATATTTGATGAATTTT-AAAAATAAAAAC-A
* * **
3232562 AG-AAAAT-CCTCCCAAAAAAATTTAC-GAAGAAAAAAACACCGTAATTTGAAAATAGGAGGAAT
64 AGAAAAATCCCT-CCAAAAAAATTTACAG-AGAAAAAAACACCATAATTTAAAAATA-GAAAAAT
* *
3232624 TTCAA-AAGAAAA-TGAACAAGT-T-A-TGAAATAAAAGAAAA
126 TTCAAGAA-AAAATTCAA-AA-TCTCATTAAAATAAAAG-AAA
* * * * * *
3232662 TTTTCAAAACTGATTTAACAGAAGA-AAAATGATGATATTTGAAGAATTTT
1 TTTTCAAAAATGATTTAATAGAA-ATTAAATAATAATATTTGATGAATTTT
3232712 GATTTATGAA
Statistics
Matches: 178, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
164 8 0.04
165 97 0.54
166 60 0.34
167 13 0.07
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (164 bp):
TTTTCAAAAATGATTTAATAGAAATTAAATAATAATATTTGATGAATTTTAAAAATAAAAACAAG
AAAAATCCCTCCAAAAAAATTTACAGAGAAAAAAACACCATAATTTAAAAATAGAAAAATTTCAA
GAAAAAATTCAAAATCTCATTAAAATAAAAGAAA
Found at i:3233658 original size:42 final size:41
Alignment explanation
Indices: 3233612--3233941 Score: 204
Period size: 42 Copynumber: 7.9 Consensus size: 41
3233602 GCCTAAGCCA
* * *
3233612 ACGGGTAGATAAAGGACAAAGAAGTCTCTTGAGTCTGATCTG
1 ACGGGTAAAAAAAGGATAAAGAAGTCTCTTGAGTCTGATC-G
* * * *
3233654 ACGGGCAAAAAAAGGATAAAAAAGTCTCTTGGGTTTGAGTCG
1 ACGGGTAAAAAAAGGATAAAGAAGTCTCTTGAGTCTGA-TCG
* * *
3233696 ACGGGTAGAAAAAGGATAAAGAAGTCTCTCGAGTCTGAGCCG
1 ACGGGTAAAAAAAGGATAAAGAAGTCTCTTGAGTCTGA-TCG
* * * *
3233738 ATGGGTAAACAAAGGATAAAGAAGTCTCTTGGGTCTGAGTCA
1 ACGGGTAAAAAAAGGATAAAGAAGTCTCTTGAGTCTGA-TCG
** * * * * *
3233780 ACAAGCAAACAAAGGATAAAGAAGTCT-ATCAGTTCTAAGTCG
1 ACGGGTAAAAAAAGGATAAAGAAGTCTCTTGAG-TCTGA-TCG
* * * *
3233822 ATGGGCAAATAAAA-GATAAAGAAGTCTCCTGAG-CTTGAGCTG
1 ACGGGTAAA-AAAAGGATAAAGAAGTCTCTTGAGTC-TGATC-G
* * * * * * *
3233864 ACGGGTAGACAAA-GAAAATAGAAGTTTCTCGAGTCAGAATCT
1 ACGGGTAAAAAAAGGATAA-AGAAGTCTCTTGAGTCTG-ATCG
*
3233906 ATGGG-AAGACAAAA-GATAAAGAAGTCTCTTGAGTCT
1 ACGGGTAA-A-AAAAGGATAAAGAAGTCTCTTGAGTCT
3233942 AAGTTGACAA
Statistics
Matches: 221, Mismatches: 56, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
41 12 0.05
42 191 0.86
43 18 0.08
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.21
Consensus pattern (41 bp):
ACGGGTAAAAAAAGGATAAAGAAGTCTCTTGAGTCTGATCG
Found at i:3233732 original size:84 final size:84
Alignment explanation
Indices: 3233612--3234234 Score: 345
Period size: 84 Copynumber: 7.4 Consensus size: 84
3233602 GCCTAAGCCA
* * * * *
3233612 ACGGGTAGATAAAGGACAAAGAAGTCTCTTGAGTCTGATCTGACGGGCAAA-AAAAGGATAAAAA
1 ACGGGTAGAAAAAGGATAAAGAAGTCTCTCGAGTCTGATCTGATGGGCAAACAAAA-GATAAAGA
3233676 AGTCTCTTGGGTTTGAGTCG
65 AGTCTCTTGGGTTTGAGTCG
* * * *
3233696 ACGGGTAGAAAAAGGATAAAGAAGTCTCTCGAGTCTGAGCCGATGGGTAAACAAAGGATAAAGAA
1 ACGGGTAGAAAAAGGATAAAGAAGTCTCTCGAGTCTGATCTGATGGGCAAACAAAAGATAAAGAA
* *
3233761 GTCTCTTGGGTCTGAGTCA
66 GTCTCTTGGGTTTGAGTCG
** * * * *
3233780 ACAAGCA-AACAAAGGATAAAGAAGTCTATC-AGTTCTAAGTC-GATGGGCAAATAAAAGATAAA
1 ACGGGTAGAA-AAAGGATAAAGAAGTCTCTCGAG-TCTGA-TCTGATGGGCAAACAAAAGATAAA
* * *
3233842 GAAGTCTCCTGAGCTTGAG-CTG
63 GAAGTCTCTTGGGTTTGAGTC-G
* * * *
3233864 ACGGGTAGACAAA-GAAAATAGAAGTTTCTCGAGTCAGAATCT-ATGGG-AAGACAAAAGATAAA
1 ACGGGTAGAAAAAGGATAA-AGAAGTCTCTCGAGTCTG-ATCTGATGGGCAA-ACAAAAGATAAA
* * * *
3233926 GAAGTCTCTTGAGTCTAAGTTG
63 GAAGTCTCTTGGGTTTGAGTCG
* * * * * * * * * * * * *
3233948 ACAAGCT-GACAAAAAGATGAAGAAAGTTTCCCAAGCCTAAGTC-GACGGACAGACAAAAGATGA
1 AC-GGGTAGA-AAAAGGATAAAG-AAGTCTCTCGAGTCTGA-TCTGATGGGCAAACAAAAGATAA
* * ** * *
3234011 AGAAGTCTCCTAGGCCTAAGTTG
62 AGAAGTCTCTTGGGTTTGAGTCG
* * * * * * * ** *
3234034 TCAGGTAGACAAAGGATAAAAAAGT-TGCTCGGGTCTGAGTC-AATGGGTAGGCAAAAAGATGAA
1 ACGGGTAGAAAAAGGATAAAGAAGTCT-CTCGAGTCTGA-TCTGATGGGCAAAC-AAAAGATAAA
*** * *
3234097 GAAGTCTCTCAAGTTTAAGCCG
63 GAAGTCTCTTGGGTTTGAGTCG
* * *
3234119 ATGGGCAGACAAAA-GATAAAGAAAGTCTCTCGAGTCTGAGCTGATGGGCAAACAAAAGATAAAG
1 ACGGGTAGA-AAAAGGATAAAG-AAGTCTCTCGAGTCTGATCTGATGGGCAAACAAAAGATAAAG
*** ** *
3234183 AAGTCTCCCAGGCCTGAGTTG
64 AAGTCTCTTGGGTTTGAGTCG
* *
3234204 ATGGGTAGAAAAAGGATAAAGAAATCTCTCG
1 ACGGGTAGAAAAAGGATAAAGAAGTCTCTCG
3234235 GGATTGAGCC
Statistics
Matches: 409, Mismatches: 103, Indels: 54
0.72 0.18 0.10
Matches are distributed among these distances:
83 12 0.03
84 217 0.53
85 103 0.25
86 75 0.18
87 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (84 bp):
ACGGGTAGAAAAAGGATAAAGAAGTCTCTCGAGTCTGATCTGATGGGCAAACAAAAGATAAAGAA
GTCTCTTGGGTTTGAGTCG
Found at i:3233861 original size:126 final size:126
Alignment explanation
Indices: 3233589--3233877 Score: 282
Period size: 126 Copynumber: 2.3 Consensus size: 126
3233579 AAAGAGATGG
* * * * * * * *
3233589 AGAAGTCTCCCAAGCCTAAGCCAACGGGTAGATAAAGGACAAAGAAGTCTCTTGAGTCTGATCTG
1 AGAAGTCTCTCGAGTCTGAGCCGACGGGTAAACAAAGGACAAAGAAGTCTCTTGAGTCTGATCTA
** * ** * * *
3233654 ACGGGCAAAAAAAGGATAAAAAAGTCTCTTGGGTTTGAGTCGACGGGTAGAAAAAGGATAA
66 ACAAGCAAAAAAAGGATAAAAAAGTCTCATCAGTTTAAGTCGACGGGCAGAAAAAAGATAA
* * *
3233715 AGAAGTCTCTCGAGTCTGAGCCGATGGGTAAACAAAGGATAAAGAAGTCTCTTGGGTCTGAGTC-
1 AGAAGTCTCTCGAGTCTGAGCCGACGGGTAAACAAAGGACAAAGAAGTCTCTTGAGTCTGA-TCT
* * *
3233779 AACAAGCAAACAAAGGATAAAGAAGTCT-ATCAGTTCTAAGTCGATGGGCA-AATAAAAGATAA
65 AACAAGCAAAAAAAGGATAAAAAAGTCTCATCAGTT-TAAGTCGACGGGCAGAA-AAAAGATAA
* *
3233841 AGAAGTCTC-CTGAG-CTTGAGCTGACGGGTAGACAAAG
1 AGAAGTCTCTC-GAGTC-TGAGCCGACGGGTAAACAAAG
3233878 AAAATAGAAG
Statistics
Matches: 133, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
125 8 0.06
126 123 0.92
127 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.20
Consensus pattern (126 bp):
AGAAGTCTCTCGAGTCTGAGCCGACGGGTAAACAAAGGACAAAGAAGTCTCTTGAGTCTGATCTA
ACAAGCAAAAAAAGGATAAAAAAGTCTCATCAGTTTAAGTCGACGGGCAGAAAAAAGATAA
Found at i:3234044 original size:42 final size:42
Alignment explanation
Indices: 3233912--3234046 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 42
3233902 ATCTATGGGA
* * * *
3233912 AGACAAAAGATAAAGAAGTCT-CTTGAGTCTAAGTTGACAAGCT
1 AGACAAAAGATGAAGAAGTCTCCTAG-GCCTAAGTTGAC-AGGT
* * * * *
3233955 -GACAAAAAGATGAAGAAAGTTTCCCAAGCCTAAGTCGAC-GGAC
1 AGAC-AAAAGATGAAG-AAGTCTCCTAGGCCTAAGTTGACAGG-T
*
3233998 AGACAAAAGATGAAGAAGTCTCCTAGGCCTAAGTTGTCAGGT
1 AGACAAAAGATGAAGAAGTCTCCTAGGCCTAAGTTGACAGGT
3234040 AGACAAA
1 AGACAAA
3234047 GGATAAAAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
42 29 0.41
43 23 0.32
44 18 0.25
45 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (42 bp):
AGACAAAAGATGAAGAAGTCTCCTAGGCCTAAGTTGACAGGT
Found at i:3234145 original size:43 final size:42
Alignment explanation
Indices: 3234087--3234189 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 42
3234077 TGGGTAGGCA
* * *
3234087 AAAAGATGAAGAAGTCTCTCAAGTTTAAGCCGATGGGCAGAC
1 AAAAGATAAAGAAGTCTCTCAAGTCTAAGCCGATGGGCAAAC
* * *
3234129 AAAAGATAAAGAAAGTCTCTCGAGTCTGAGCTGATGGGCAAAC
1 AAAAGATAAAG-AAGTCTCTCAAGTCTAAGCCGATGGGCAAAC
3234172 AAAAGATAAAGAAGTCTC
1 AAAAGATAAAGAAGTCTC
3234190 CCAGGCCTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 17 0.31
43 37 0.69
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (42 bp):
AAAAGATAAAGAAGTCTCTCAAGTCTAAGCCGATGGGCAAAC
Found at i:3234200 original size:42 final size:42
Alignment explanation
Indices: 3234118--3234231 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
3234108 AGTTTAAGCC
* * *
3234118 GATGGGCAGACAAAAGATAAAGAAAGTCTCTCGAGTCTGAGCT
1 GATGGGCAAACAAAAGATAAAG-AAGTCTCCCGAGCCTGAGCT
*
3234161 GATGGGCAAACAAAAGATAAAGAAGTCTCCC-AGGCCTGAGTT
1 GATGGGCAAACAAAAGATAAAGAAGTCTCCCGA-GCCTGAGCT
* * *
3234203 GATGGGTAGAA-AAAGGATAAAGAAATCTC
1 GATGGGCA-AACAAAAGATAAAGAAGTCTC
3234232 TCGGGATTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 38 0.61
43 23 0.37
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (42 bp):
GATGGGCAAACAAAAGATAAAGAAGTCTCCCGAGCCTGAGCT
Found at i:3234570 original size:20 final size:19
Alignment explanation
Indices: 3234545--3234614 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
3234535 ACCCTGAAAA
3234545 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
3234565 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
*
3234584 AGTATCGATACACA-CAATAT
1 -GTATCGATACACATTAA-AT
3234604 GTATCGATACA
1 GTATCGATACA
3234615 GGACATTGGC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
19 15 0.37
20 26 0.63
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:3234721 original size:53 final size:53
Alignment explanation
Indices: 3234585--3234721 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
3234575 AGATTGCATA
*
3234585 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACATGACATTGGCAGTAGCCAAATTT
* *
3234638 GTATCGATACACACAATATGTATTGATACATGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACATGACATTGGCAGTAGCCAAATTT
*
3234691 GTATCGATACACATAATATGTATCGATACAT
1 GTATCGATACACACAATATGTATCGATACAT
3234722 TGGAAGTAGC
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 79 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACATGACATTGGCAGTAGCCAAATTT
Found at i:3234770 original size:9 final size:10
Alignment explanation
Indices: 3234744--3234805 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
3234734 AATCTCATTT
3234744 TCACTATTCA
1 TCACTATTCA
3234754 TCACTATTCA
1 TCACTATTCA
3234764 T-ACTATTCA
1 TCACTATTCA
* * *
3234773 TGTATCGATACA
1 T-CA-CTATTCA
3234785 TCACTATTCA
1 TCACTATTCA
* *
3234795 TTACTGTTCA
1 TCACTATTCA
3234805 T
1 T
3234806 ACTGTTCACA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 9 0.21
10 25 0.60
11 2 0.05
12 6 0.14
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.42
Consensus pattern (10 bp):
TCACTATTCA
Found at i:3234880 original size:13 final size:13
Alignment explanation
Indices: 3234862--3234886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3234852 TTACTATTCA
3234862 TGTATCGATACAG
1 TGTATCGATACAG
3234875 TGTATCGATACA
1 TGTATCGATACA
3234887 TTATAAATTG
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3235337 original size:34 final size:35
Alignment explanation
Indices: 3235274--3235340 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3235264 CTAAGTGATT
3235274 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
3235310 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
3235341 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:3235688 original size:42 final size:42
Alignment explanation
Indices: 3235634--3235731 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
3235624 ACAGGAAAAA
* *
3235634 AAAAGATGAAGAAGACTCCCAGCCCTAAG-CTGATGGCCAGAC
1 AAAAGATAAAGAAGACTCCCAGCCCTAAGTC-GACGGCCAGAC
* * * * **
3235676 AAAGGATAAAGAAGTCTCCCGGCTCTAAGTCGACGGGTAGAC
1 AAAAGATAAAGAAGACTCCCAGCCCTAAGTCGACGGCCAGAC
3235718 AAAAGATAAAGAAG
1 AAAAGATAAAGAAG
3235732 TCTAGGGTGA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (42 bp):
AAAAGATAAAGAAGACTCCCAGCCCTAAGTCGACGGCCAGAC
Found at i:3237020 original size:53 final size:53
Alignment explanation
Indices: 3236961--3237076 Score: 180
Period size: 53 Copynumber: 2.2 Consensus size: 53
3236951 GTTTTTATTC
* * *
3236961 GATTTTTTT-GGGGCTTGGATGCCTTTTTAGGTTTTCATCTAAACATTGTCATT
1 GATTTTTTTAGGGACTT-GATGCCCTTTTAGGTTTTCATCCAAACATTGTCATT
*
3237014 GATTTTTTTAGGGACTTGATGCCCTTTTAGGTTTTCATCCAAGCATTGTCATT
1 GATTTTTTTAGGGACTTGATGCCCTTTTAGGTTTTCATCCAAACATTGTCATT
3237067 GATTTTTTTA
1 GATTTTTTTA
3237077 TTTATGCATA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 52 0.90
54 6 0.10
ACGTcount: A:0.18, C:0.14, G:0.19, T:0.49
Consensus pattern (53 bp):
GATTTTTTTAGGGACTTGATGCCCTTTTAGGTTTTCATCCAAACATTGTCATT
Found at i:3239096 original size:13 final size:13
Alignment explanation
Indices: 3239078--3239102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3239068 CATAAAGTGT
3239078 TGTATCGATACAA
1 TGTATCGATACAA
3239091 TGTATCGATACA
1 TGTATCGATACA
3239103 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3239118 original size:32 final size:33
Alignment explanation
Indices: 3239058--3239123 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
3239048 TTCAACGATT
3239058 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
3239091 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3239123 T
1 T
3239124 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3239208 original size:52 final size:52
Alignment explanation
Indices: 3239089--3239209 Score: 233
Period size: 52 Copynumber: 2.3 Consensus size: 52
3239079 GTATCGATAC
*
3239089 AATGTATCGATACATAAGTTTTGTATCGATACAATTTAAGCTACTGCCAAAA
1 AATGTATCGATACATTAGTTTTGTATCGATACAATTTAAGCTACTGCCAAAA
3239141 AATGTATCGATACATTAGTTTTGTATCGATACAATTTAAGCTACTGCCAAAA
1 AATGTATCGATACATTAGTTTTGTATCGATACAATTTAAGCTACTGCCAAAA
3239193 AATGTATCGATACATTA
1 AATGTATCGATACATTA
3239210 CTCAAATGTA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (52 bp):
AATGTATCGATACATTAGTTTTGTATCGATACAATTTAAGCTACTGCCAAAA
Found at i:3239234 original size:13 final size:13
Alignment explanation
Indices: 3239216--3239240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3239206 ATTACTCAAA
3239216 TGTATCGATACAT
1 TGTATCGATACAT
3239229 TGTATCGATACA
1 TGTATCGATACA
3239241 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3239378 original size:52 final size:52
Alignment explanation
Indices: 3239249--3239379 Score: 235
Period size: 52 Copynumber: 2.5 Consensus size: 52
3239239 CACTGATCTT
* *
3239249 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
*
3239301 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
3239353 TGTATCGATACATGCAGGCAAATTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
3239380 ATATTTCGAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:3253081 original size:23 final size:23
Alignment explanation
Indices: 3253052--3253116 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 23
3253042 CGTCATCCAC
* *
3253052 AAAAAAAAACAGAAGAAAAAAAG
1 AAAAAAAAACAAAACAAAAAAAG
3253075 AAAAAAAAACAAAACAAAAAATTA-
1 AAAAAAAAACAAAACAAAAAA--AG
3253099 AAAAAAAAACAACAACAA
1 AAAAAAAAACAA-AACAA
3253117 CAACAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 19 0.51
24 12 0.32
25 6 0.16
ACGTcount: A:0.83, C:0.09, G:0.05, T:0.03
Consensus pattern (23 bp):
AAAAAAAAACAAAACAAAAAAAG
Found at i:3254603 original size:29 final size:31
Alignment explanation
Indices: 3254562--3254624 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
3254552 GTCCTCACCG
* *
3254562 TTCAAAAGTCCACAAGT-CAGTGGCA-TCTTT
1 TTCAAAAGCCCACAACTCCA-TGGCACTCTTT
3254592 TTCAAAA-CCCACAACTCCATGGCACTCTTT
1 TTCAAAAGCCCACAACTCCATGGCACTCTTT
3254622 TTC
1 TTC
3254625 CTTCTAAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (31 bp):
TTCAAAAGCCCACAACTCCATGGCACTCTTT
Found at i:3254641 original size:34 final size:34
Alignment explanation
Indices: 3254600--3254778 Score: 203
Period size: 34 Copynumber: 5.5 Consensus size: 34
3254590 TTTTCAAAAC
*
3254600 CCACAACTCCATGGCACTCTTTTTCCTTCTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* * *
3254634 CCACAACTCTGTGGCAC-C-----CGTT-TAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* *
3254661 CCACGACTCCGTGGCACTCTTTTTTCTTCTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* * *
3254695 CCACAACTCCGTGGCAC-CTTTTTCTTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
*
3254728 CCACAACTCCGTGGCACTCTTTCTCCTTCTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
*
3254762 CCACAACTCTGTGGCAC
1 CCACAACTCCGTGGCAC
3254779 CCTTCTACAT
Statistics
Matches: 118, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
27 19 0.16
28 4 0.03
33 32 0.27
34 63 0.53
ACGTcount: A:0.19, C:0.36, G:0.13, T:0.32
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
Found at i:3254738 original size:67 final size:61
Alignment explanation
Indices: 3254599--3254780 Score: 256
Period size: 67 Copynumber: 2.9 Consensus size: 61
3254589 TTTTTCAAAA
*
3254599 CCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTTAAG
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTTAAG
* * * *
3254660 CCCACGACTCCGTGGCACTCTTTTTTCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTA
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACC-----C-GTTTA
3254725 AG
60 AG
*
3254727 CCCACAACTCCGTGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCACCC
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCC
3254781 TTCTACATCC
Statistics
Matches: 106, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
61 49 0.46
62 1 0.01
66 1 0.01
67 55 0.52
ACGTcount: A:0.19, C:0.37, G:0.13, T:0.31
Consensus pattern (61 bp):
CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTTAAG
Found at i:3254802 original size:128 final size:131
Alignment explanation
Indices: 3254599--3254864 Score: 339
Period size: 128 Copynumber: 2.1 Consensus size: 131
3254589 TTTTTCAAAA
*
3254599 CCCACAACTCCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTTAAGCCCA
1 CCCACAACTCCATGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTTAAGCCCA
* * * *
3254664 CGACTCCGTGGCA-CTCTT-TTTTCTTC-TAAGTCCACAACTCCGTGGC-ACCTTTTTCTTTTTA
66 CGACTCCGTGGCATCT-TTCTTTTCTTCAAAAGCCCACAACTCCGTGGCAACCTTTTTCTTCTAA
3254725 AG
130 AG
* *
3254727 CCCACAACTCCGTGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCACCC-TTCTACA-TC
1 CCCACAACTCCATGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCACCCGTT-TA-AGCC
* * * **
3254790 CAC-AGCTTCGTGGCATCTTTCTTTTTTTCAAAAGCCCACAAGTTGGTGGCAACCTTTTTCTTCT
64 CACGA-CTCCGTGGCATCTTTCTTTTCTTCAAAAGCCCACAACTCCGTGGCAACCTTTTTCTTCT
3254854 AAAG
128 AAAG
3254858 CCCACAA
1 CCCACAA
3254865 AAGTTGGTGG
Statistics
Matches: 119, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
127 3 0.03
128 69 0.58
129 10 0.08
130 15 0.13
131 22 0.18
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (131 bp):
CCCACAACTCCATGGCACTCTTTCTCCTTCTAAGTCCACAACTCTGTGGCACCCGTTTAAGCCCA
CGACTCCGTGGCATCTTTCTTTTCTTCAAAAGCCCACAACTCCGTGGCAACCTTTTTCTTCTAAA
G
Found at i:3254839 original size:36 final size:35
Alignment explanation
Indices: 3254810--3254877 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
3254800 TGGCATCTTT
3254810 CTTTTT-TTCAAAAGCCCAC-AAGTTGGTGGCAAC
1 CTTTTTCTTCAAAAGCCCACAAAGTTGGTGGCAAC
*
3254843 CTTTTTCTTCTAAAGCCCACAAAAGTTGGTGGCAA
1 CTTTTTCTTCAAAAGCCCAC-AAAGTTGGTGGCAA
3254878 TCCCCTCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 6 0.19
34 12 0.39
36 13 0.42
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (35 bp):
CTTTTTCTTCAAAAGCCCACAAAGTTGGTGGCAAC
Found at i:3254892 original size:32 final size:31
Alignment explanation
Indices: 3254851--3254982 Score: 183
Period size: 32 Copynumber: 4.2 Consensus size: 31
3254841 ACCTTTTTCT
* *
3254851 TCTAAAGCCCACAAAAGTTGGTGGCAATCCCC
1 TCTAAAGCCCACACAAGTCGGTGGCAA-CCCC
* *
3254883 TCTAAAGCCCACACAAGGCGGTGGCAACCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCC
*
3254914 TCTCAAAGCCCACACAAGTCAGTGGCAACCCTC
1 TCT-AAAGCCCACACAAGTCGGTGGCAACCC-C
*
3254947 TCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCC
3254978 TCTAA
1 TCTAA
3254983 TCCCAATATC
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
31 11 0.12
32 75 0.84
33 3 0.03
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.17
Consensus pattern (31 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCC
Found at i:3254940 original size:64 final size:63
Alignment explanation
Indices: 3254849--3254982 Score: 207
Period size: 64 Copynumber: 2.1 Consensus size: 63
3254839 CAACCTTTTT
**
3254849 CTTCTAAAGCCCACAAAAGTTGGTGGCAATCCC-CTCTAAAGCCCACACAAGGCGGTGGCAACC
1 CTTCTAAAGCCCACAAAAGTCAGTGGCAA-CCCTCTCTAAAGCCCACACAAGGCGGTGGCAACC
* *
3254912 CTTCTCAAAGCCCACACAAGTCAGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CTTCT-AAAGCCCACAAAAGTCAGTGGCAACCCTCTCTAAAGCCCACACAAGGCGGTGGCAACC
3254976 CTTCTAA
1 CTTCTAA
3254983 TCCCAATATC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
63 10 0.15
64 55 0.85
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.17
Consensus pattern (63 bp):
CTTCTAAAGCCCACAAAAGTCAGTGGCAACCCTCTCTAAAGCCCACACAAGGCGGTGGCAACC
Found at i:3255087 original size:43 final size:43
Alignment explanation
Indices: 3254985--3255391 Score: 418
Period size: 43 Copynumber: 8.9 Consensus size: 43
3254975 CCTTCTAATC
* * *
3254985 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCAGCTTTAAGT
1 CCAATATAGCTAGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
* *
3255034 CCAATGTAGCTTGCCTTGAATCAGCATATTGGCACCTTTAAGT
1 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGT
* *
3255077 CCAATATAGCTGGCCTTGAATCAGGATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTAGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
* * * *
3255126 CCAATGTAGCTGGCCTTGAAGCAGCACATTGGCACCTTTAAGT
1 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGT
3255169 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGT
1 CCAATATAGCTAGCCTTGAATCAGCATATTGGCA----C--CTTTAAGT
* * * *
3255218 CCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
1 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGT
*
3255261 CCAATATCGCTAGCCTTGAATCAGCATATTGGCAACTTCTTCTTTAAGT
1 CCAATATAGCTAGCCTTGAATCAGCATATTGGC-A---C--CTTTAAGT
* *
3255310 CCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGT
1 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGT
* *
3255353 CCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTT
1 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTT
3255392 TCCATCTTTA
Statistics
Matches: 309, Mismatches: 31, Indels: 42
0.81 0.08 0.11
Matches are distributed among these distances:
43 156 0.50
44 1 0.00
45 4 0.01
47 3 0.01
48 1 0.00
49 144 0.47
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTAAGT
Found at i:3255142 original size:92 final size:92
Alignment explanation
Indices: 3254985--3255435 Score: 724
Period size: 92 Copynumber: 4.9 Consensus size: 92
3254975 CCTTCTAATC
* * * *
3254985 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCAGCTTTAAGTCCAATGTAGCTTGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
3255050 TGAATCAGCATATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
*
3255077 CCAATATAGCTGGCCTTGAATCAGGATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
*
3255142 TGAAGCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
* *
3255169 CCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
3255234 TGAATCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
* * * * *
3255261 CCAATATCGCTAGCCTTGAATCAGCATATTGGCAACTTCTTCTTTAAGTCCAATGTAGCTAGCCT
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
3255326 TGAATCAGCACATTGGCACCTTTAAGT
66 TGAATCAGCACATTGGCACCTTTAAGT
*
3255353 CCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAG-CTCAATGTAGCTG
1 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTC-CAATGTAGCTG
3255417 GCCTTGAATCAGCACATTG
62 GCCTTGAATCAGCACATTG
3255436 ACATGTTTTT
Statistics
Matches: 333, Mismatches: 22, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
92 292 0.88
94 3 0.01
95 38 0.11
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (92 bp):
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGGCACCTTTAAGT
Found at i:3255423 original size:52 final size:53
Alignment explanation
Indices: 3255345--3255498 Score: 177
Period size: 55 Copynumber: 2.9 Consensus size: 53
3255335 ACATTGGCAC
*
3255345 CTTTAAG-TCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGCT-CAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTTCTCAT
* * * * *
3255397 CTTTAAGCTCAATGTAGCTGGCCTTGAATCAGCACATTGACATGTTTTTTCTCAT
1 CTTTAAGCTCAATATAGTTGGCCTTGAATCAGCATATTGGCA--TCTTTTCTCAT
* * * *
3255452 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGCTCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTT
3255499 ATCATTTTTC
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
52 36 0.43
53 5 0.06
54 5 0.06
55 37 0.45
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGCTCAATATAGTTGGCCTTGAATCAGCATATTGGCATCTTTTCTCAT
Found at i:3255474 original size:55 final size:52
Alignment explanation
Indices: 3255345--3255482 Score: 143
Period size: 52 Copynumber: 2.6 Consensus size: 52
3255335 ACATTGGCAC
* * * * *
3255345 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCACATTGACA-TTTTTCTCAT
* * * *
3255397 CTTTAAGCTCAATGTAGCTGGCCTTGAATCAGCACATTGACATGTTTTTTCTCAT
1 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCACATTGACA---TTTTTCTCAT
*
3255452 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGCCCAATATCGTTGGCCTTGAATCA
3255483 ACATATTGGC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
52 36 0.51
54 5 0.07
55 29 0.41
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (52 bp):
CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCACATTGACATTTTTCTCAT
Found at i:3255624 original size:53 final size:53
Alignment explanation
Indices: 3255540--3255682 Score: 139
Period size: 52 Copynumber: 2.7 Consensus size: 53
3255530 ATATTGCTAG
* ** * *
3255540 CCTTGAATCAGCATATTGGCA-CCTTCATCATCTTTAAAACCTAATGTTGTTGA
1 CCTTGAATCAGCACATTGGCATTTTTC-TCATCTTTAAAACCTAATGTCGCTGA
* **
3255593 CCTTGAATCAGCACATTGGCATTTTTCTCATC-TTGAAGTCTAATGTCGCTGA
1 CCTTGAATCAGCACATTGGCATTTTTCTCATCTTTAAAACCTAATGTCGCTGA
*
3255645 -CTGTGAATCAGCACATTGACATCCTTTTTCTCATCTTT
1 CCT-TGAATCAGCACATTGGCA---TTTTTCTCATCTTT
3255683 GAACCCAATA
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
51 2 0.03
52 32 0.43
53 25 0.33
54 3 0.04
55 11 0.15
56 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (53 bp):
CCTTGAATCAGCACATTGGCATTTTTCTCATCTTTAAAACCTAATGTCGCTGA
Found at i:3255706 original size:55 final size:52
Alignment explanation
Indices: 3255590--3255709 Score: 125
Period size: 55 Copynumber: 2.2 Consensus size: 52
3255580 CTAATGTTGT
* * * * *
3255590 TGACCTTGAATCAGCACATTGGCATTTTTCTCATCTTGAAGTCTAATGTCGC
1 TGACCGTGAATCAGCACATTGACATTTTTCTCATCTTGAAGCCCAATATCGC
* *
3255642 TGACTGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTGAA-CCCAATATCGT
1 TGACCGTGAATCAGCACATTGACA---TTTTTCTCATC-TTGAAGCCCAATATCGC
*
3255697 TGGCCGTGAATCA
1 TGACCGTGAATCA
3255710 ACGTATTGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
52 21 0.38
55 29 0.53
56 5 0.09
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (52 bp):
TGACCGTGAATCAGCACATTGACATTTTTCTCATCTTGAAGCCCAATATCGC
Found at i:3256408 original size:13 final size:13
Alignment explanation
Indices: 3256390--3256414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3256380 CATAAAGTGT
3256390 TGTATCGATACAA
1 TGTATCGATACAA
3256403 TGTATCGATACA
1 TGTATCGATACA
3256415 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Done.