Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010445.1 Corchorus capsularis cultivar CVL-1 contig10466, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 80463
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:3920 original size:51 final size:51
Alignment explanation
Indices: 3864--4006 Score: 268
Period size: 51 Copynumber: 2.8 Consensus size: 51
3854 CATATTTCTT
*
3864 TTGTTTCAATCTTGTCTTCGGACAAAAGAACACTCTTTTAGTGTTATTTCC
1 TTGTTTCAATCTTGTCTCCGGACAAAAGAACACTCTTTTAGTGTTATTTCC
*
3915 TTGTTTCAATCTTGTCTCCGGACAAAAGAACACTCTTTTACTGTTATTTCC
1 TTGTTTCAATCTTGTCTCCGGACAAAAGAACACTCTTTTAGTGTTATTTCC
3966 TTGTTTCAATCTTGTCTCCGGACAAAAGAACACTCTTTTAG
1 TTGTTTCAATCTTGTCTCCGGACAAAAGAACACTCTTTTAG
4007 AGATTGAAGC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 89 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (51 bp):
TTGTTTCAATCTTGTCTCCGGACAAAAGAACACTCTTTTAGTGTTATTTCC
Found at i:6213 original size:7 final size:7
Alignment explanation
Indices: 6201--6246 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
6191 AGTTCTATTA
6201 GTTTAGG
1 GTTTAGG
6208 GTTTAGG
1 GTTTAGG
6215 G-TTAGG
1 GTTTAGG
*
6221 GTTTGGG
1 GTTTAGG
6228 GTTTAAGG
1 GTTT-AGG
6236 GTTTAGG
1 GTTTAGG
6243 GTTT
1 GTTT
6247 GTGTTGCTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 6 0.17
7 23 0.66
8 6 0.17
ACGTcount: A:0.13, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:19991 original size:39 final size:39
Alignment explanation
Indices: 19947--20491 Score: 301
Period size: 39 Copynumber: 13.4 Consensus size: 39
19937 ATAAGCATAG
*
19947 GGTCAAGCCCTACGTGCCAGAGCCCGAATACAAGCCCGA
1 GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
* * * *
19986 CGTCAAGCCGTACGTGCCCGAGCCCGAGGTCAAGCCATTCGTGCCCGA
1 GGTCAAGCCCTACGTGCCCGAGCCCGA-AT--A--CA----AGCCCGA
*
20034 GCCCGAGGTCAAGCCGTACGTGCCCGAGCCCGAATACAAGCCTTACGA
1 G------GTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCC---CGA
* * * ** * *
20082 -GCCTGAG-CC--CGAGCCCGAGCCCGTCTACAAGCACAA
1 GGTC-AAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
*
20118 GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGTCCGA
1 GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
*
20157 GGTCAAGCCCTACGTGCCCGAGCCCGAATATAAGCCCGA
1 GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
* * * *
20196 GGTCATGCCTTACGTGCCCGAGCCTGAATACAAGTCCGA
1 GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
* ** *
20235 GGTCAAGCCCTACCTGCCCGAGCTTGAATACAAGTCCGA
1 GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
*** * **
20274 GGTCAAGCCCTACGTGCCCGAGCCCGTCCAGAAGCATGA
1 GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
* * * * *
20313 GTTCAGGCCTTATGTGCCC-AGGCCTGTCTACAAGCCCTACAAGCCCGA
1 GGTCAAGCCCTACGTGCCCGA-GCC---C--GAA----TACAAGCCCGA
* * * ***
20361 TGTCAAGCCCTACATGCCCGAG-CCAATATACAAGCATAA
1 GGTCAAGCCCTACGTGCCCGAGCCCGA-ATACAAGCCCGA
* ** ** *
20400 GGTCAAGCCTTACGTGCCCGAGCTTGTCTACAAACCCGA
1 GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
* * * ** *
20439 GGTCAAGCCCTATGTGCTCGAGCCTGTCTACCAGCCCGA
1 GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
*
20478 GGTCAAGCCTTACG
1 GGTCAAGCCCTACG
20492 AGCCTAAGAA
Statistics
Matches: 384, Mismatches: 86, Indels: 72
0.71 0.16 0.13
Matches are distributed among these distances:
36 4 0.01
37 4 0.01
38 1 0.00
39 297 0.77
40 1 0.00
41 3 0.01
42 5 0.01
43 1 0.00
44 3 0.01
45 3 0.01
47 1 0.00
48 30 0.08
49 3 0.01
51 1 0.00
53 1 0.00
54 26 0.07
ACGTcount: A:0.24, C:0.35, G:0.25, T:0.16
Consensus pattern (39 bp):
GGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGA
Found at i:20009 original size:27 final size:27
Alignment explanation
Indices: 19979--20094 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
19969 CCCGAATACA
*
19979 AGCCCGACGTCAAGCCGTACGTGCCCG
1 AGCCCGAGGTCAAGCCGTACGTGCCCG
* *
20006 AGCCCGAGGTCAAGCCATTCGTGCCCG
1 AGCCCGAGGTCAAGCCGTACGTGCCCG
20033 AGCCCGAGGTCAAGCCGTACGTGCCCG
1 AGCCCGAGGTCAAGCCGTACGTGCCCG
* * * *
20060 AGCCCGA-ATACAAGCCTTACGAGCCTG
1 AGCCCGAGGT-CAAGCCGTACGTGCCCG
20087 AGCCCGAG
1 AGCCCGAG
20095 CCCGAGCCCG
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 77 0.99
ACGTcount: A:0.22, C:0.37, G:0.29, T:0.12
Consensus pattern (27 bp):
AGCCCGAGGTCAAGCCGTACGTGCCCG
Found at i:20173 original size:117 final size:115
Alignment explanation
Indices: 20036--20299 Score: 336
Period size: 117 Copynumber: 2.3 Consensus size: 115
20026 GTGCCCGAGC
* *
20036 CCGAGGTCAAGCCGTACGTGCCCGAGCCCGAATACAAGCCTTACGAGCCTGA-GCC-CGAGCCCG
1 CCGAGGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCC---CGAG-CTCATGCCTCGAGCCCG
** *
20099 AGCCCGTCTACAAG-CACAAGGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGT
62 AGCCCGAATACAAGTC-CAAGGTCAAGCCCTACCTGCCCGAGCCCGAATACAAGT
* * *
20153 CCGAGGTCAAGCCCTACGTGCCCGAGCCCGAATATAAGCCCGAGGTCATGCCTTACGTGCCCGAG
1 CCGAGGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGAGCTCATGCC-T-CGAGCCCGAG
* * **
20218 CCTGAATACAAGTCCGAGGTCAAGCCCTACCTGCCCGAGCTTGAATACAAGT
64 CCCGAATACAAGTCCAAGGTCAAGCCCTACCTGCCCGAGCCCGAATACAAGT
20270 CCGAGGTCAAGCCCTACGTGCCCGAGCCCG
1 CCGAGGTCAAGCCCTACGTGCCCGAGCCCG
20300 TCCAGAAGCA
Statistics
Matches: 130, Mismatches: 12, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
113 2 0.02
114 7 0.05
117 120 0.92
118 1 0.01
ACGTcount: A:0.24, C:0.36, G:0.26, T:0.14
Consensus pattern (115 bp):
CCGAGGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGCCCGAGCTCATGCCTCGAGCCCGAGCC
CGAATACAAGTCCAAGGTCAAGCCCTACCTGCCCGAGCCCGAATACAAGT
Found at i:20345 original size:117 final size:117
Alignment explanation
Indices: 20094--20347 Score: 332
Period size: 117 Copynumber: 2.2 Consensus size: 117
20084 CTGAGCCCGA
* *
20094 GCCCGAGCCCGTCTACAAGCACAAGGTCAAGCCCTACGTGCCCGAGCCCGAATACAAGTCCGAGG
1 GCCCGAGCCTGTCTACAAGCACAAGGTCAAGCCCTACCTGCCCGAGCCCGAATACAAGTCCGAGG
* * * *
20159 TCAAGCCCTACGTGCCCGAGCCCGAATATAAGCCCGAGGTCATGCCTTACGT
66 TCAAGCCCTACGTGCCCGAGCCCGAACAGAAGCACGAGGTCAGGCCTTACGT
** * **
20211 GCCCGAGCCTGAATACAAGTC-CGAGGTCAAGCCCTACCTGCCCGAGCTTGAATACAAGTCCGAG
1 GCCCGAGCCTGTCTACAAG-CACAAGGTCAAGCCCTACCTGCCCGAGCCCGAATACAAGTCCGAG
** * * *
20275 GTCAAGCCCTACGTGCCCGAGCCCGTCCAGAAGCATGAGTTCAGGCCTTATGT
65 GTCAAGCCCTACGTGCCCGAGCCCGAACAGAAGCACGAGGTCAGGCCTTACGT
20328 GCCC-AGGCCTGTCTACAAGC
1 GCCCGA-GCCTGTCTACAAGC
20348 CCTACAAGCC
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
116 2 0.02
117 114 0.97
118 1 0.01
ACGTcount: A:0.24, C:0.35, G:0.25, T:0.16
Consensus pattern (117 bp):
GCCCGAGCCTGTCTACAAGCACAAGGTCAAGCCCTACCTGCCCGAGCCCGAATACAAGTCCGAGG
TCAAGCCCTACGTGCCCGAGCCCGAACAGAAGCACGAGGTCAGGCCTTACGT
Found at i:20410 original size:87 final size:87
Alignment explanation
Indices: 20263--20432 Score: 207
Period size: 87 Copynumber: 2.0 Consensus size: 87
20253 CGAGCTTGAA
* * ** * * * * * *
20263 TACAAGTCCGAGGTCAAGCCCTACGTGCCCGAGCCCGTCCAGAAGCATGAGTTCAGGCCTTATGT
1 TACAAGCCCGAGGTCAAGCCCTACATGCCCGAGCCAATACACAAGCATAAGGTCAAGCCTTACGT
20328 GCCC-AGGCCTGTCTACAAGCCC
66 GCCCGA-GCCTGTCTACAAGCCC
* *
20350 TACAAGCCCGATGTCAAGCCCTACATGCCCGAGCCAATATACAAGCATAAGGTCAAGCCTTACGT
1 TACAAGCCCGAGGTCAAGCCCTACATGCCCGAGCCAATACACAAGCATAAGGTCAAGCCTTACGT
*
20415 GCCCGAGCTTGTCTACAA
66 GCCCGAGCCTGTCTACAA
20433 ACCCGAGGTC
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
87 68 0.99
88 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.19
Consensus pattern (87 bp):
TACAAGCCCGAGGTCAAGCCCTACATGCCCGAGCCAATACACAAGCATAAGGTCAAGCCTTACGT
GCCCGAGCCTGTCTACAAGCCC
Found at i:20453 original size:126 final size:126
Alignment explanation
Indices: 20224--20475 Score: 276
Period size: 126 Copynumber: 2.0 Consensus size: 126
20214 CGAGCCTGAA
* * ** *
20224 TACAAGTCCGAGGTCAAGCCCTACCTGCCCGAGCTTGAATACAAGTCCGAGGTCAAGCCCTACGT
1 TACAAGCCCGAGGTCAAGCCCTACATGCCCGAGCTCAAATACAAGTCCAAGGTCAAGCCCTACGT
* * * * * *
20289 GCCCGAGCCCGTCCAGAAGCATGAGTTCAGGCCTTATGTGCCC-AGGCCTGTCTACAAGCCC
66 GCCCGAGCCCGTCCACAAACACGAGGTCAAGCCCTATGTGCCCGA-GCCTGTCTACAAGCCC
* * *
20350 TACAAGCCCGATGTCAAGCCCTACATGCCCGAGC-CAATATACAAG-CATAAGGTCAAGCCTTAC
1 TACAAGCCCGAGGTCAAGCCCTACATGCCCGAGCTCAA-ATACAAGTC-CAAGGTCAAGCCCTAC
** * * * *
20413 GTGCCCGAGCTTGTCTACAAACCCGAGGTCAAGCCCTATGTGCTCGAGCCTGTCTACCAGCCC
64 GTGCCCGAGCCCGTCCACAAACACGAGGTCAAGCCCTATGTGCCCGAGCCTGTCTACAAGCCC
20476 GAGGTCAAGC
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
125 2 0.02
126 100 0.97
127 1 0.01
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.19
Consensus pattern (126 bp):
TACAAGCCCGAGGTCAAGCCCTACATGCCCGAGCTCAAATACAAGTCCAAGGTCAAGCCCTACGT
GCCCGAGCCCGTCCACAAACACGAGGTCAAGCCCTATGTGCCCGAGCCTGTCTACAAGCCC
Found at i:28081 original size:125 final size:127
Alignment explanation
Indices: 27866--28165 Score: 470
Period size: 125 Copynumber: 2.4 Consensus size: 127
27856 GTGTCGTATT
*
27866 ATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAG-TCC-CATGGCTCATGGCAACCAAGTC
1 ATGGCAACCAAGT-CCCACATGGCTCATGGCAACCAAGCCCCACATGGCTCATGGCAACCAAGT-
*
27929 CCCACATGACTCATGGCAACCAAGTCCTCACATGGCTCATGGCAACCAAG-TCCC-CATGGCTC
64 CCCACATGACTCATGGCAACCAAGTCCTCACATGACTCATGGCAACCAAGTTCCCACATGGCTC
27991 ATGGCAACCAAGTCCTCACATGGCTCATGGCAACCAAGCCCCCACATGGCTCATGGCAACCAAGT
1 ATGGCAACCAAGTCC-CACATGGCTCATGGCAACCAAG-CCCCACATGGCTCATGGCAACCAAGT
* *
28056 -CC-CATGGCTCATGGCAACCAAGTCCTCACATGACTCATGGCAACCAAGTTCCCACATGGGTC
64 CCCACATGACTCATGGCAACCAAGTCCTCACATGACTCATGGCAACCAAGTTCCCACATGGCTC
28118 ATGGCAACCAAGT-CCACATGGCTCATGGCAACCAAGTCCCCACATGGC
1 ATGGCAACCAAGTCCCACATGGCTCATGGCAACCAAG-CCCCACATGGC
28166 ATATGGAACT
Statistics
Matches: 164, Mismatches: 5, Indels: 12
0.91 0.03 0.07
Matches are distributed among these distances:
124 2 0.01
125 112 0.68
126 7 0.04
127 22 0.13
128 21 0.13
ACGTcount: A:0.28, C:0.36, G:0.20, T:0.17
Consensus pattern (127 bp):
ATGGCAACCAAGTCCCACATGGCTCATGGCAACCAAGCCCCACATGGCTCATGGCAACCAAGTCC
CACATGACTCATGGCAACCAAGTCCTCACATGACTCATGGCAACCAAGTTCCCACATGGCTC
Found at i:28138 original size:151 final size:151
Alignment explanation
Indices: 27866--28165 Score: 539
Period size: 151 Copynumber: 2.0 Consensus size: 151
27856 GTGTCGTATT
*
27866 ATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCATGGCTCATGGCAACCAAGTCCC
1 ATGGCAACCAAGCCCCCACATGGCTCATGGCAACCAAGTCCCATGGCTCATGGCAACCAAGTCCC
*
27931 CACATGACTCATGGCAACCAAGTCCTCACATGGCTCATGGCAACCAAGTCCCCATGGCTCATGGC
66 CACATGACTCATGGCAACCAAGTCCTCACATGGCTCATGGCAACCAAGTCCACATGGCTCATGGC
*
27996 AACCAAGTCCTCACATGGCTC
131 AACCAAGTCCCCACATGGCTC
*
28017 ATGGCAACCAAGCCCCCACATGGCTCATGGCAACCAAGTCCCATGGCTCATGGCAACCAAGTCCT
1 ATGGCAACCAAGCCCCCACATGGCTCATGGCAACCAAGTCCCATGGCTCATGGCAACCAAGTCCC
*
28082 CACATGACTCATGGCAACCAAGTTCC-CACATGGGTCATGGCAACCAAGTCCACATGGCTCATGG
66 CACATGACTCATGGCAACCAAG-TCCTCACATGGCTCATGGCAACCAAGTCCACATGGCTCATGG
28146 CAACCAAGTCCCCACATGGC
130 CAACCAAGTCCCCACATGGC
28166 ATATGGAACT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
151 140 0.98
152 3 0.02
ACGTcount: A:0.28, C:0.36, G:0.20, T:0.17
Consensus pattern (151 bp):
ATGGCAACCAAGCCCCCACATGGCTCATGGCAACCAAGTCCCATGGCTCATGGCAACCAAGTCCC
CACATGACTCATGGCAACCAAGTCCTCACATGGCTCATGGCAACCAAGTCCACATGGCTCATGGC
AACCAAGTCCCCACATGGCTC
Found at i:28171 original size:26 final size:26
Alignment explanation
Indices: 27866--28165 Score: 458
Period size: 26 Copynumber: 11.9 Consensus size: 26
27856 GTGTCGTATT
27866 ATGGCAACCAAGTCCCCACATGGCTC
1 ATGGCAACCAAGTCCCCACATGGCTC
27892 ATGGCAACCAAGT--CC-CATGGCTC
1 ATGGCAACCAAGTCCCCACATGGCTC
*
27915 ATGGCAACCAAGTCCCCACATGACTC
1 ATGGCAACCAAGTCCCCACATGGCTC
*
27941 ATGGCAACCAAGTCCTCACATGGCTC
1 ATGGCAACCAAGTCCCCACATGGCTC
27967 ATGGCAACCAAGT-CCC-CATGGCTC
1 ATGGCAACCAAGTCCCCACATGGCTC
*
27991 ATGGCAACCAAGTCCTCACATGGCTC
1 ATGGCAACCAAGTCCCCACATGGCTC
*
28017 ATGGCAACCAAGCCCCCACATGGCTC
1 ATGGCAACCAAGTCCCCACATGGCTC
28043 ATGGCAACCAAGT--CC-CATGGCTC
1 ATGGCAACCAAGTCCCCACATGGCTC
* *
28066 ATGGCAACCAAGTCCTCACATGACTC
1 ATGGCAACCAAGTCCCCACATGGCTC
* *
28092 ATGGCAACCAAGTTCCCACATGGGTC
1 ATGGCAACCAAGTCCCCACATGGCTC
28118 ATGGCAACCAAGT--CCACATGGCTC
1 ATGGCAACCAAGTCCCCACATGGCTC
28142 ATGGCAACCAAGTCCCCACATGGC
1 ATGGCAACCAAGTCCCCACATGGC
28166 ATATGGAACT
Statistics
Matches: 249, Mismatches: 15, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
23 42 0.17
24 48 0.19
25 7 0.03
26 152 0.61
ACGTcount: A:0.28, C:0.36, G:0.20, T:0.17
Consensus pattern (26 bp):
ATGGCAACCAAGTCCCCACATGGCTC
Found at i:30004 original size:32 final size:32
Alignment explanation
Indices: 29968--30030 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
29958 GGCTTACGGC
29968 GAGATTTGCAGCAGTGGTGAAATACGACTGTA
1 GAGATTTGCAGCAGTGGTGAAATACGACTGTA
* *
30000 GAGATTTGCGGCAGTGGTGAGATACGACTGT
1 GAGATTTGCAGCAGTGGTGAAATACGACTGT
30031 GGGTATTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.13, G:0.35, T:0.25
Consensus pattern (32 bp):
GAGATTTGCAGCAGTGGTGAAATACGACTGTA
Found at i:30041 original size:16 final size:16
Alignment explanation
Indices: 30022--30054 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30012 AGTGGTGAGA
*
30022 TACGACTGTGGGTATT
1 TACGACTGTGGGGATT
30038 TACGACTGTGGGGATT
1 TACGACTGTGGGGATT
30054 T
1 T
30055 GCGGCAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.36
Consensus pattern (16 bp):
TACGACTGTGGGGATT
Found at i:30240 original size:16 final size:16
Alignment explanation
Indices: 30219--30313 Score: 91
Period size: 16 Copynumber: 5.9 Consensus size: 16
30209 ATAGACTACG
30219 GCACCCAAGCAATGCC
1 GCACCCAAGCAATGCC
30235 GCACCCAAGCAATGCC
1 GCACCCAAGCAATGCC
* *
30251 ACACCCAAGCGATGCC
1 GCACCCAAGCAATGCC
* * *
30267 GCGCCCAAGCGATGTC
1 GCACCCAAGCAATGCC
* * *
30283 GTACCCTAGTAAATGCC
1 GCACCCAAG-CAATGCC
* *
30300 GCAGCCGAGCAATG
1 GCACCCAAGCAATG
30314 AAGAGATGCC
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
16 53 0.84
17 10 0.16
ACGTcount: A:0.28, C:0.38, G:0.23, T:0.11
Consensus pattern (16 bp):
GCACCCAAGCAATGCC
Found at i:30588 original size:50 final size:50
Alignment explanation
Indices: 30388--30988 Score: 655
Period size: 50 Copynumber: 12.2 Consensus size: 50
30378 CAACAATGAA
*
30388 GAGATGCGGCGTCAAACATCATGGCAT-AAGAAGTCTATTGGCATTAAGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAA-AAGTCTA-TGGCA-TAAGACAT
* ** * *
30440 GAGACGCATCGTCAAACATTATGGCATC--TAGTCTATGGCGTAATGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAA-GACAT
* *
30489 GAGACGCGGCGTCAAACATTATGGCATC--AAGTCTATGGCATAAGGCAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* * * *
30537 GAGATGCAGCGTCAAACATTACGGCATCAAAAGTCTATAGCATAAGGCAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* *
30587 GAGATGCGGCGTCAAACATTATGGCAT-AAAAATCTATGGCAAAAAGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGC-ATAAGACAT
* * *
30637 GAGACGTGGCGTCAAACATTATGGCAT-AAGAAGTCTATGGCGTAATGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAA-AAGTCTATGGCATAA-GACAT
* * *
30688 GAGACGCGGCGTCAAACTTTATGGCATC--AAGTCTATGGCATAAGGCAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* * *
30736 GAGATGCAGCGTCAAACATTA-CG-A-C---A-T-TATGGCGTAATGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAA-GACAT
* * **
30779 GAGACGCGGCGTCAAACTTTATGGCATC--AAGTCTATGGCATAAGGTAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* * *
30827 GAGATGCAGCGTCAAACATTACGGCATCAAAAGTCTATGGCATAAGGCAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* * *
30877 GAGATGCGGCGTCAAACGTTACGGCATCAAAAGTCTATGGCATAAGGCAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
* * * *
30927 GAGATGCGGCGTCAAACGTTACGGCTTCAGAAGTCTATGGCATAAGACAT
1 GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
*
30977 GAGATACGGCGT
1 GAGATGCGGCGT
30989 AAGACATGAG
Statistics
Matches: 478, Mismatches: 54, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
42 9 0.02
43 23 0.05
44 2 0.00
45 2 0.00
46 2 0.00
47 2 0.00
48 82 0.17
49 82 0.17
50 211 0.44
51 40 0.08
52 23 0.05
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (50 bp):
GAGATGCGGCGTCAAACATTATGGCATCAAAAGTCTATGGCATAAGACAT
Found at i:30728 original size:199 final size:197
Alignment explanation
Indices: 30388--30988 Score: 783
Period size: 199 Copynumber: 3.1 Consensus size: 197
30378 CAACAATGAA
* * *
30388 GAGATGCGGCGTCAAACATCATGGCATAAGAAGTCTATTGGCATTAAGACATGAGACGCATCGTC
1 GAGATGCGGCGTCAAACATTATGGCATAA-AAGTCTA-TGGCAATAAGACATGAGACGCAGCGTC
**
30453 AAACATTATGGCAT-CTAGTCTATGGCGTAATGACATGAGACGCGGCGTCAAACATTATGGCATC
64 AAACATTATGGCATAAAAGTCTATGGCGTAATGACATGAGACGCGGCGTCAAACATTATGGCATC
*
30517 AAGTCTATGGCATAAGGCATGAGATGCAGCGTCAAACATTACGGCATCAAAAGTCTATAGCATAA
129 AAGTCTATGGCATAAGGCATGAGATGCAGCGTCAAACATTACGGCATC-AAAGTCTATGGCATAA
*
30582 GGCAT
193 GACAT
* * **
30587 GAGATGCGGCGTCAAACATTATGGCATAAAAATCTATGGCAAAAAGACATGAGACGTGGCGTCAA
1 GAGATGCGGCGTCAAACATTATGGCATAAAAGTCTATGGCAATAAGACATGAGACGCAGCGTCAA
*
30652 ACATTATGGCATAAGAAGTCTATGGCGTAATGACATGAGACGCGGCGTCAAACTTTATGGCATCA
66 ACATTATGGCATAA-AAGTCTATGGCGTAATGACATGAGACGCGGCGTCAAACATTATGGCATCA
*
30717 AGTCTATGGCATAAGGCATGAGATGCAGCGTCAAACATTAC-G-A-C--A-T-TATGGCGTAATG
130 AGTCTATGGCATAAGGCATGAGATGCAGCGTCAAACATTACGGCATCAAAGTCTATGGCATAA-G
30775 ACAT
194 ACAT
* * * ** *
30779 GAGACGCGGCGTCAAACTTTATGGCAT-CAAGTCTATGGC-ATAAGGTATGAGATGCAGCGTCAA
1 GAGATGCGGCGTCAAACATTATGGCATAAAAGTCTATGGCAATAAGACATGAGACGCAGCGTCAA
* * * * * *
30842 ACATTACGGCATCAAAAGTCTATGGCATAA-GGCATGAGATGCGGCGTCAAACGTTACGGCATCA
66 ACATTATGGCAT-AAAAGTCTATGGCGTAATGACATGAGACGCGGCGTCAAACATTATGGCATC-
* * *
30906 AAAGTCTATGGCATAAGGCATGAGATGCGGCGTCAAACGTTACGGCTTCAGAAGTCTATGGCATA
129 -AAGTCTATGGCATAAGGCATGAGATGCAGCGTCAAACATTACGGCATCA-AAGTCTATGGCATA
30971 AGACAT
192 AGACAT
*
30977 GAGATACGGCGT
1 GAGATGCGGCGT
30989 AAGACATGAG
Statistics
Matches: 353, Mismatches: 35, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
189 29 0.08
190 43 0.12
191 60 0.17
192 31 0.09
193 1 0.00
194 1 0.00
196 1 0.00
197 38 0.11
198 23 0.07
199 126 0.36
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (197 bp):
GAGATGCGGCGTCAAACATTATGGCATAAAAGTCTATGGCAATAAGACATGAGACGCAGCGTCAA
ACATTATGGCATAAAAGTCTATGGCGTAATGACATGAGACGCGGCGTCAAACATTATGGCATCAA
GTCTATGGCATAAGGCATGAGATGCAGCGTCAAACATTACGGCATCAAAGTCTATGGCATAAGAC
AT
Found at i:31012 original size:19 final size:19
Alignment explanation
Indices: 30965--31013 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
30955 AGAAGTCTAT
30965 GGCATAAGACATGAGATAC
1 GGCATAAGACATGAGATAC
* *
30984 GGCGTAAGACATGAGATGC
1 GGCATAAGACATGAGATAC
*
31003 GGCATCAGACA
1 GGCATAAGACA
31014 CTTATGGCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.31, T:0.14
Consensus pattern (19 bp):
GGCATAAGACATGAGATAC
Found at i:31033 original size:35 final size:37
Alignment explanation
Indices: 30989--31076 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 37
30979 GATACGGCGT
*
30989 AAGACATGAGATGCGGCATCAGACACTTATGGC-AC-
1 AAGACATGAGATGCGGCATAAGACACTTATGGCTACA
*** *
31024 AAGACATGAGACATGGCATAAGACATTTATGGCTACA
1 AAGACATGAGATGCGGCATAAGACACTTATGGCTACA
*
31061 AACACAATGAGATGCG
1 AAGAC-ATGAGATGCG
31077 ACACAACAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
35 28 0.68
36 2 0.05
37 4 0.10
38 7 0.17
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (37 bp):
AAGACATGAGATGCGGCATAAGACACTTATGGCTACA
Found at i:31190 original size:27 final size:27
Alignment explanation
Indices: 31124--31196 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
31114 AAAGTCCCAA
*
31124 AGCTATGGCATAACTCCCAACCACGGG
1 AGCTATGGCATAAGTCCCAACCACGGG
* *
31151 AGCTACGGCATAAGTCCCAACCGCGGG
1 AGCTATGGCATAAGTCCCAACCACGGG
**
31178 AGCTATGAAATAAGTCCCA
1 AGCTATGGCATAAGTCCCA
31197 GAGCTATGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (27 bp):
AGCTATGGCATAAGTCCCAACCACGGG
Found at i:31210 original size:20 final size:20
Alignment explanation
Indices: 31177--31216 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31167 CCAACCGCGG
*
31177 GAGCTATGAAATAAGTCCCA
1 GAGCTATGAAATAAGCCCCA
**
31197 GAGCTATGGCATAAGCCCCA
1 GAGCTATGAAATAAGCCCCA
31217 ACTGCGGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (20 bp):
GAGCTATGAAATAAGCCCCA
Found at i:31244 original size:27 final size:27
Alignment explanation
Indices: 31214--31273 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
31204 GGCATAAGCC
*
31214 CCAACTGCGGGAGCCGTAGCCATACTA
1 CCAACTGCCGGAGCCGTAGCCATACTA
* * *
31241 CCAACTGCCGGAGCTGTGGCCATAGTA
1 CCAACTGCCGGAGCCGTAGCCATACTA
31268 CCAACT
1 CCAACT
31274 TCCAAAGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAACTGCCGGAGCCGTAGCCATACTA
Found at i:31245 original size:74 final size:74
Alignment explanation
Indices: 31115--31255 Score: 162
Period size: 74 Copynumber: 1.9 Consensus size: 74
31105 ACCGCAGCAA
* * * *
31115 AAGTCCCAAAGCTATGGCATAACTCCCAACCACGGGAGCTACGGCATAAGTCCCAACCGCGGGAG
1 AAGTCCCAAAGCTATGGCATAACTCCCAACCACGGGAGCTACGCCATAACTACCAACCGCCGGAG
31180 CTATGAAAT
66 CTATGAAAT
* ** *
31189 AAGTCCCAGAGCTATGGCATAAGC-CCCAACTGCGGGAGCCGTA-GCCAT-ACTACCAACTGCCG
1 AAGTCCCAAAGCTATGGCATAA-CTCCCAACCACGGGAG-C-TACGCCATAACTACCAACCGCCG
31251 GAGCT
63 GAGCT
31256 GTGGCCATAG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
74 48 0.86
75 6 0.11
76 2 0.04
ACGTcount: A:0.30, C:0.31, G:0.24, T:0.15
Consensus pattern (74 bp):
AAGTCCCAAAGCTATGGCATAACTCCCAACCACGGGAGCTACGCCATAACTACCAACCGCCGGAG
CTATGAAAT
Found at i:33885 original size:26 final size:26
Alignment explanation
Indices: 33849--34182 Score: 558
Period size: 26 Copynumber: 13.2 Consensus size: 26
33839 ATGTGTCGTA
33849 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
*
33875 TCATGGCAACCAAGTCCTCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
33901 TCATGGCAACCAAGT-CCC-CATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
* * *
33925 TCATGGGAACTAAGTCCTCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
33951 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
33977 TCATGGCAACCAAGT-CCC-CATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
*
34001 TCATGGCAACCAAGTCCTCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
34027 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
*
34053 TCATGGCAACCAAGTCCTCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
34079 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
34105 TCATGGCAACCAAGT-CCC-CATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
34129 TCATGGCAACCAAGTCCCCACATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
34155 TCATGGCAACCAAGT-CCC-CATGGC
1 TCATGGCAACCAAGTCCCCACATGGC
34179 TCAT
1 TCAT
34183 AGTCCCCACA
Statistics
Matches: 290, Mismatches: 12, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
24 71 0.24
25 18 0.06
26 201 0.69
ACGTcount: A:0.26, C:0.36, G:0.20, T:0.18
Consensus pattern (26 bp):
TCATGGCAACCAAGTCCCCACATGGC
Found at i:33975 original size:76 final size:77
Alignment explanation
Indices: 33849--34182 Score: 563
Period size: 76 Copynumber: 4.4 Consensus size: 77
33839 ATGTGTCGTA
*
33849 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCTCACATGGCTCATGGCAACCAA
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAA
33914 GTCCC-CATGGC
66 GTCCCACATGGC
* * *
33925 TCATGGGAACTAAGTCCTCACATGGCTCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAA
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAA
33990 GTCCC-CATGGC
66 GTCCCACATGGC
*
34001 TCATGGCAACCAAGTCCTCACATGGCTCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAA
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAA
34066 GTCCTCACATGGC
66 GTCC-CACATGGC
34079 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGT-CCC-CATGGCTCATGGCAACCAA
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAA
34142 GTCCCCACATGGC
66 GT-CCCACATGGC
34155 TCATGGCAACCAAGT-CCC-CATGGCTCAT
1 TCATGGCAACCAAGTCCCCACATGGCTCAT
34183 AGTCCCCACA
Statistics
Matches: 248, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
74 10 0.04
75 3 0.01
76 183 0.74
77 6 0.02
78 46 0.19
ACGTcount: A:0.26, C:0.36, G:0.20, T:0.18
Consensus pattern (77 bp):
TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAA
GTCCCACATGGC
Found at i:34025 original size:102 final size:101
Alignment explanation
Indices: 33849--34182 Score: 575
Period size: 102 Copynumber: 3.3 Consensus size: 101
33839 ATGTGTCGTA
33849 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCTCACATGGCTCATGGCAACCAA
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCC-CACATGGCTCATGGCAACCAA
* * *
33914 GTCCCCATGGCTCATGGGAACTAAGTCCTCACATGGC
65 GTCCCCATGGCTCATGGCAACCAAGTCCCCACATGGC
33951 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCC-CATGGCTCATGGCAACCAAG
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCACATGGCTCATGGCAACCAAG
34015 TCCTCACATGGCTCATGGCAACCAAGTCCCCACATGGC
66 TCC-C-CATGGCTCATGGCAACCAAGTCCCCACATGGC
*
34053 TCATGGCAACCAAGTCCTCACATGGCTCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAA
1 TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGT-CCCACATGGCTCATGGCAACCAA
34118 GTCCCCATGGCTCATGGCAACCAAGTCCCCACATGGC
65 GTCCCCATGGCTCATGGCAACCAAGTCCCCACATGGC
34155 TCATGGCAACCAAGT-CCC-CATGGCTCAT
1 TCATGGCAACCAAGTCCCCACATGGCTCAT
34183 AGTCCCCACA
Statistics
Matches: 223, Mismatches: 5, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
100 33 0.15
101 4 0.02
102 159 0.71
103 4 0.02
104 23 0.10
ACGTcount: A:0.26, C:0.36, G:0.20, T:0.18
Consensus pattern (101 bp):
TCATGGCAACCAAGTCCCCACATGGCTCATGGCAACCAAGTCCCACATGGCTCATGGCAACCAAG
TCCCCATGGCTCATGGCAACCAAGTCCCCACATGGC
Found at i:45165 original size:70 final size:70
Alignment explanation
Indices: 45043--45184 Score: 203
Period size: 70 Copynumber: 2.0 Consensus size: 70
45033 TGACATCCTT
* *
45043 TGAAAATGCCTGCTATAGGACCTCAACTTCATTTACCCATATGTGCTTGGAAAGCGAAAACATTA
1 TGAAAATGCCTGCTATAGGACCACAACTTCATTTACCCATATGTGCTTGGAAAGCGAAAACAGTA
45108 TATGA
66 TATGA
* * ** * * *
45113 TGAAGATGTCTGCTATAGGACCACAGTTTCTTTTATCCATATGTGCTTGGAAAGTGAAAACAGTA
1 TGAAAATGCCTGCTATAGGACCACAACTTCATTTACCCATATGTGCTTGGAAAGCGAAAACAGTA
45178 TATGA
66 TATGA
45183 TG
1 TG
45185 CTAATCAACG
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (70 bp):
TGAAAATGCCTGCTATAGGACCACAACTTCATTTACCCATATGTGCTTGGAAAGCGAAAACAGTA
TATGA
Found at i:49183 original size:26 final size:26
Alignment explanation
Indices: 49145--49196 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
49135 ACCTTATGTT
**
49145 TTTTTTTTTGACAAAATAATCCCTTA
1 TTTTTTTAGGACAAAATAATCCCTTA
* *
49171 TTTTTTTAGGACAAATTAATTCCTTA
1 TTTTTTTAGGACAAAATAATCCCTTA
49197 CGTTTCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTTTTTAGGACAAAATAATCCCTTA
Found at i:65712 original size:15 final size:15
Alignment explanation
Indices: 65688--65718 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65678 TATAGCTATA
*
65688 CATATGATTTATCCT
1 CATATAATTTATCCT
65703 CATATAATTTATCCT
1 CATATAATTTATCCT
65718 C
1 C
65719 GATTGCATGG
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:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (15 bp):
CATATAATTTATCCT
Found at i:66744 original size:59 final size:59
Alignment explanation
Indices: 66652--66765 Score: 201
Period size: 59 Copynumber: 1.9 Consensus size: 59
66642 ATCAAACATT
*
66652 TGATCTGCCAGTAGAGTGTTGGACTCTAGTTCAGGTGACTAGACTCAATCCCTAATGTC
1 TGATCTACCAGTAGAGTGTTGGACTCTAGTTCAGGTGACTAGACTCAATCCCTAATGTC
* *
66711 TGATCTACCGGTAGAGTGTTGGATTCTAGTTCAGGTGACTAGACTCAATCCCTAA
1 TGATCTACCAGTAGAGTGTTGGACTCTAGTTCAGGTGACTAGACTCAATCCCTAA
66766 CAACCTCAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (59 bp):
TGATCTACCAGTAGAGTGTTGGACTCTAGTTCAGGTGACTAGACTCAATCCCTAATGTC
Found at i:67412 original size:236 final size:236
Alignment explanation
Indices: 66999--67435 Score: 802
Period size: 236 Copynumber: 1.9 Consensus size: 236
66989 CATTCTTTTG
*
66999 TTCTAGAGTGGTACTTGATTAATTGATTGAATCATATAAGGTTGCAGTAAAAATGCAATTTAAAT
1 TTCTAGAGTGGTACTTGATTAATTGATTGAATCATATAAGGTTGCAATAAAAATGCAATTTAAAT
67064 GTATTAGTTTTCATATTGTCTCTTGCTATTGGCATAAATCTTTGTAAGCTAACTTTTTAGACATG
66 GTATTAGTTTTCATATTGTCTCTTGCTATTGGCATAAATCTTTGTAAGCTAACTTTTTAGACATG
* * *
67129 CAATATTAAGAAGATCAAAGAACATGTTTTTATTTGTAAGTAATAGGAAGTGCAAAGAGGTAATA
131 CAAAATTAAGAAAATCAAAGAACATGCTTTTATTTGTAAGTAATAGGAAGTGCAAAGAGGTAATA
67194 GAATATAAGGTAATATAGTGCAAAGAGGTAATAGAACATGC
196 GAATATAAGGTAATATAGTGCAAAGAGGTAATAGAACATGC
* *
67235 TTCTAGAGTGGTGCTTGGTTAATTGATTGAATCATATAAGGTTGCAATAAAAATGCAATTTAAAT
1 TTCTAGAGTGGTACTTGATTAATTGATTGAATCATATAAGGTTGCAATAAAAATGCAATTTAAAT
*
67300 GTATTAGTTTTCATGTTGTCTCTTGCTATTGGCATAAATCTTTGTAAGCTAACTTTTTAGACATG
66 GTATTAGTTTTCATATTGTCTCTTGCTATTGGCATAAATCTTTGTAAGCTAACTTTTTAGACATG
*
67365 TAAAATTAAGAAAATCAAAGAACATGCTTTTATTTGTAAGTAATAGGAAGTGCAAAGAGGTAATA
131 CAAAATTAAGAAAATCAAAGAACATGCTTTTATTTGTAAGTAATAGGAAGTGCAAAGAGGTAATA
67430 GAATAT
196 GAATAT
67436 GCTGTTAATT
Statistics
Matches: 193, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
236 193 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (236 bp):
TTCTAGAGTGGTACTTGATTAATTGATTGAATCATATAAGGTTGCAATAAAAATGCAATTTAAAT
GTATTAGTTTTCATATTGTCTCTTGCTATTGGCATAAATCTTTGTAAGCTAACTTTTTAGACATG
CAAAATTAAGAAAATCAAAGAACATGCTTTTATTTGTAAGTAATAGGAAGTGCAAAGAGGTAATA
GAATATAAGGTAATATAGTGCAAAGAGGTAATAGAACATGC
Found at i:69129 original size:13 final size:13
Alignment explanation
Indices: 69108--69144 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
69098 AATCCTTAAG
*
69108 AAAATTAAAAATA
1 AAAAATAAAAATA
69121 AAAAATAAAAATA
1 AAAAATAAAAATA
69134 AAAAATAAAAA
1 AAAAATAAAAA
69145 AACTCTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:69145 original size:7 final size:7
Alignment explanation
Indices: 69108--69145 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
69098 AATCCTTAAG
*
69108 AAAATTA
1 AAAATAA
69115 AAAATAA
1 AAAATAA
69122 AAAAT-A
1 AAAATAA
69128 AAAATAA
1 AAAATAA
69135 AAAATAA
1 AAAATAA
69142 AAAA
1 AAAA
69146 ACTCTAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAATAA
Found at i:79913 original size:14 final size:14
Alignment explanation
Indices: 79894--79921 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
79884 ATCACATGGC
79894 TAATGTAGTAGTGA
1 TAATGTAGTAGTGA
79908 TAATGTAGTAGTGA
1 TAATGTAGTAGTGA
79922 GACGGTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
TAATGTAGTAGTGA
Done.