Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017442.1 Corchorus olitorius cultivar O-4 contig17475, 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: 43387
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Found at i:736 original size:27 final size:27
Alignment explanation
Indices: 669--788 Score: 195
Period size: 27 Copynumber: 4.4 Consensus size: 27
659 CGAGTATGCA
669 AAATGACCAAAATGCCCCTGAATGTGC
1 AAATGACCAAAATGCCCCTGAATGTGC
696 AAAAATGACCAAAATGCCCCTGAATGTGC
1 --AAATGACCAAAATGCCCCTGAATGTGC
* *
725 AAATGACCAAAATTCCCATGAATGTGC
1 AAATGACCAAAATGCCCCTGAATGTGC
*
752 AAATGACCAAAATGCCCCTGAGTGTGC
1 AAATGACCAAAATGCCCCTGAATGTGC
779 AAATGACCAA
1 AAATGACCAA
789 TTAAGAAATA
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
27 59 0.69
29 27 0.31
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATGCCCCTGAATGTGC
Found at i:1135 original size:59 final size:59
Alignment explanation
Indices: 1017--1202 Score: 213
Period size: 59 Copynumber: 3.3 Consensus size: 59
1007 GACTTTCAAT
* * * *
1017 CAGAGACCTCGATCAGGATTCT-AAAATAAGACAAGATTTT-GA---AAACTT-TCTAC
1 CAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGGATTGAAAATTCTCTAC
* * *
1070 CCGAGACCTCGAGCAGGATTTTAAAAACAAGACGAGATTTTGGATTGAAAATTCTCTAC
1 CAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGGATTGAAAATTCTCTAC
* * * * * *
1129 CAGAGACCTCGAACCGGATTTTAAAAACAAGACAATATTTCGAATTGGAAACTCTCTAC
1 CAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGGATTGAAAATTCTCTAC
1188 CAGAGACCTCGAACA
1 CAGAGACCTCGAACA
1203 TGTATTTTTT
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 19 0.17
54 16 0.14
55 2 0.02
58 5 0.05
59 69 0.62
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (59 bp):
CAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGGATTGAAAATTCTCTAC
Found at i:1228 original size:6 final size:7
Alignment explanation
Indices: 1211--1238 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1201 CATGTATTTT
1211 TTTTTAA
1 TTTTTAA
1218 TTTTTAA
1 TTTTTAA
1225 TTTTTAA
1 TTTTTAA
1232 TTTTTAA
1 TTTTTAA
1239 AAAAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:1324 original size:59 final size:59
Alignment explanation
Indices: 1258--1775 Score: 757
Period size: 59 Copynumber: 8.6 Consensus size: 59
1248 AGACAAGATT
1258 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAA
*
1317 TTGAAAACTCTCTACAAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAA
* * * *
1376 TTGAAGACTCTCTACAAGAGACATCGAACAGGATTTTGAAAACAAGACAAGATTTTGAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAA
*
1435 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAGAAACAAGACAAGATTTTGAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAA
* *
1494 TTGAAAACTCTCTACCAGAGACCTCGATCAGGATTTTGAAAAAAACAAGACTAGATTTTGAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTT---AAAAACAAGACAAGATTTTGAA
** *
1556 TTGAAAACTCTCTACTGGAGACCTCGAACAGGATTTTGGAAAAAGCAAGATAAGATTTTGAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTT--AAAAA-CAAGACAAGATTTTGAA
* * * *
1618 TTGAAAACTTTCTACCAGAGACCTTGAACAGGATTTTAAAAGCAAGATAAGATTTTGAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAA
* * ** *
1677 TTTAAAACTCTCTGCCAGAGACCTCGATTAGGATTTTGAAAATAACAAGACTAGATTTTGAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTT--AAA-AACAAGACAAGATTTTGAA
**
1739 TTGAAAACTCTCTACCAGAGACCTCGATTAGGATTTT
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTT
1776 TAGAAACAGA
Statistics
Matches: 417, Mismatches: 35, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
59 252 0.60
60 4 0.01
61 8 0.02
62 153 0.37
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (59 bp):
TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAA
Found at i:1372 original size:144 final size:144
Alignment explanation
Indices: 1114--1377 Score: 343
Period size: 144 Copynumber: 1.8 Consensus size: 144
1104 AGATTTTGGA
* * * *
1114 TTGAAAATTCTCTACCAGAGACCTCGAACCGGATTTTAAAAACAAGACAATATTTCGAATTGGAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTCGAATTGAAA
* * **** ***** *
1179 ACTCTCTACCAGAGACCTCGAACATGTATTTTTTTTTAATTTTTAATTTTTAATTTTTAAAAAAA
66 ACTCTCTACAAGAGACCTCGAACATGGATTTTTAAAAAAAGACAAATTTTGAATTTTTAAAAAAA
1244 AACAAGACAAGATT
131 AACAAGACAAGATT
*
1258 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAATTGAAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTCGAATTGAAA
1323 ACTCTCTACAAGAGACCTCGAACA-GGA-TTTTAAAAACAAGACAAGATTTTGAATT
66 ACTCTCTACAAGAGACCTCGAACATGGATTTTTAAAAA-AAGACAA-ATTTTGAATT
1378 GAAGACTCTC
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
142 5 0.05
143 4 0.04
144 92 0.91
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (144 bp):
TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTCGAATTGAAA
ACTCTCTACAAGAGACCTCGAACATGGATTTTTAAAAAAAGACAAATTTTGAATTTTTAAAAAAA
AACAAGACAAGATT
Found at i:1396 original size:118 final size:119
Alignment explanation
Indices: 1258--1775 Score: 761
Period size: 121 Copynumber: 4.3 Consensus size: 119
1248 AGACAAGATT
1258 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAATTGAAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAATTGAAA
*
1323 ACTCTCTACAAGAGACCTCGAACAGGATTTT-AAAAACAAGACAAGATTTTGAA
66 ACTCTCTACCAGAGACCTCGAACAGGATTTTGAAAAACAAGACAAGATTTTGAA
* * * *
1376 TTGAAGACTCTCTACAAGAGACATCGAACAGGATTTTGAAAACAAGACAAGATTTTGAATTGAAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAATTGAAA
*
1441 ACTCTCTACCAGAGACCTCGAACAGGATTTT-AGAAACAAGACAAGATTTTGAA
66 ACTCTCTACCAGAGACCTCGAACAGGATTTTGAAAAACAAGACAAGATTTTGAA
* *
1494 TTGAAAACTCTCTACCAGAGACCTCGATCAGGATTTTGAAAAAAACAAGACTAGATTTTGAATTG
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTT---AAAAACAAGACAAGATTTTGAATTG
** *
1559 AAAACTCTCTACTGGAGACCTCGAACAGGATTTTGGAAAAAGCAAGATAAGATTTTGAA
63 AAAACTCTCTACCAGAGACCTCGAACAGGATTTT-GAAAAA-CAAGACAAGATTTTGAA
* * * * *
1618 TTGAAAACTTTCTACCAGAGACCTTGAACAGGATTTTAAAAGCAAGATAAGATTTTGAATTTAAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAATTGAAA
* ** *
1683 ACTCTCTGCCAGAGACCTCGATTAGGATTTTGAAAATAACAAGACTAGATTTTGAA
66 ACTCTCTACCAGAGACCTCGAACAGGATTTTG-AAA-AACAAGACAAGATTTTGAA
**
1739 TTGAAAACTCTCTACCAGAGACCTCGATTAGGATTTT
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTT
1776 TAGAAACAGA
Statistics
Matches: 358, Mismatches: 34, Indels: 13
0.88 0.08 0.03
Matches are distributed among these distances:
118 145 0.41
120 1 0.00
121 156 0.44
122 2 0.01
123 4 0.01
124 50 0.14
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (119 bp):
TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAATTGAAA
ACTCTCTACCAGAGACCTCGAACAGGATTTTGAAAAACAAGACAAGATTTTGAA
Found at i:1405 original size:203 final size:203
Alignment explanation
Indices: 1039--1405 Score: 601
Period size: 203 Copynumber: 1.8 Consensus size: 203
1029 TCAGGATTCT
* * * * *
1039 AAAATAAGACAAGATTTTGAAAACTTTCTACCCGAGACCTCGAGCAGGATTTTAAAAACAAGACG
1 AAAACAAGACAAGATTTTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACA
* * * * *
1104 AGATTTTGGATTGAAAATTCTCTACCAGAGACCTCGAACCGGATTTTAAAAACAAGACAATATTT
66 AGATTTTGAATTGAAAACTCTCTACAAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTT
* *
1169 CGAATTGGAAACTCTCTACCAGAGACCTCGAACATGTATTTTTTTTTAATTTTTAATTTTTAATT
131 CGAATTGGAAACTCTCTACAAGAGACATCGAACATGTATTTTTTTTTAATTTTTAATTTTTAATT
1234 TTTAAAAA
196 TTTAAAAA
1242 AAAACAAGACAAGATTTTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACA
1 AAAACAAGACAAGATTTTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACA
1307 AGATTTTGAATTGAAAACTCTCTACAAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTT
66 AGATTTTGAATTGAAAACTCTCTACAAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTT
*
1372 TGAATT-GAAGACTCTCTACAAGAGACATCGAACA
131 CGAATTGGAA-ACTCTCTACAAGAGACATCGAACA
1406 GGATTTTGAA
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
202 3 0.02
203 147 0.98
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (203 bp):
AAAACAAGACAAGATTTTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACA
AGATTTTGAATTGAAAACTCTCTACAAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTT
CGAATTGGAAACTCTCTACAAGAGACATCGAACATGTATTTTTTTTTAATTTTTAATTTTTAATT
TTTAAAAA
Found at i:1673 original size:183 final size:179
Alignment explanation
Indices: 1258--1775 Score: 799
Period size: 183 Copynumber: 2.9 Consensus size: 179
1248 AGACAAGATT
1258 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAAACAAGACAAGATTTTGAATTGAAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTT-AAAACAAGACAAGATTTTGAATTGAAA
* * * *
1323 ACTCTCTACAAGAGACCTCGAACAGGATTTT---AAAAACAAGACAAGATTTTGAATTGAAGACT
65 ACTCTCTACCAGAGACCTCGATCAGGATTTTGAAAAAAACAAGACTAGATTTTGAATTGAAAACT
*
1385 CTCTACAAGAGACATCGAACAGGATTTTGAAAACAAGACAAGATTTTGAA
130 CTCTACAAGAGACCTCGAACAGGATTTTGAAAACAAGACAAGATTTTGAA
1435 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAGAAACAAGACAAGATTTTGAATTGAAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTA-AAACAAGACAAGATTTTGAATTGAAA
1500 ACTCTCTACCAGAGACCTCGATCAGGATTTTGAAAAAAACAAGACTAGATTTTGAATTGAAAACT
65 ACTCTCTACCAGAGACCTCGATCAGGATTTTGAAAAAAACAAGACTAGATTTTGAATTGAAAACT
** *
1565 CTCTACTGGAGACCTCGAACAGGATTTTGGAAAAAGCAAGATAAGATTTTGAA
130 CTCTACAAGAGACCTCGAACAGGATTTT-G-AAAA-CAAGACAAGATTTTGAA
* * * *
1618 TTGAAAACTTTCTACCAGAGACCTTGAACAGGATTTTAAAAGCAAGATAAGATTTTGAATTTAAA
1 TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAA-CAAGACAAGATTTTGAATTGAAA
* * *
1683 ACTCTCTGCCAGAGACCTCGATTAGGATTTTGAAAATAACAAGACTAGATTTTGAATTGAAAACT
65 ACTCTCTACCAGAGACCTCGATCAGGATTTTGAAAAAAACAAGACTAGATTTTGAATTGAAAACT
* **
1748 CTCTACCAGAGACCTCGATTAGGATTTT
130 CTCTACAAGAGACCTCGAACAGGATTTT
1776 TAGAAACAGA
Statistics
Matches: 314, Mismatches: 19, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
176 1 0.00
177 92 0.29
180 54 0.17
181 1 0.00
182 7 0.02
183 159 0.51
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (179 bp):
TTGAAAACTCTCTACCAGAGACCTCGAACAGGATTTTAAAACAAGACAAGATTTTGAATTGAAAA
CTCTCTACCAGAGACCTCGATCAGGATTTTGAAAAAAACAAGACTAGATTTTGAATTGAAAACTC
TCTACAAGAGACCTCGAACAGGATTTTGAAAACAAGACAAGATTTTGAA
Found at i:3532 original size:21 final size:21
Alignment explanation
Indices: 3493--3532 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3483 AGAAGATGGC
*
3493 GAAGATGTCATTTGATCCATT
1 GAAGATGTCATTAGATCCATT
*
3514 GAAGATGTCATTAGGTCCA
1 GAAGATGTCATTAGATCCA
3533 ATGACAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (21 bp):
GAAGATGTCATTAGATCCATT
Found at i:8624 original size:19 final size:18
Alignment explanation
Indices: 8587--8626 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
8577 TTCTTGAAAT
*
8587 AATTCTTCAATGGTCTTC
1 AATTCTTCAATGATCTTC
*
8605 AATTCTTCAAATTATCTTC
1 AATTCTTC-AATGATCTTC
8624 AAT
1 AAT
8627 AAATCTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (18 bp):
AATTCTTCAATGATCTTC
Found at i:12274 original size:19 final size:18
Alignment explanation
Indices: 12241--12276 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12231 TGGAAATAAT
12241 TCTTCAATGGTCTTCAAA
1 TCTTCAATGGTCTTCAAA
*
12259 TCTTCAAATTGTCTTCAA
1 TCTTC-AATGGTCTTCAA
12277 TAAGTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (18 bp):
TCTTCAATGGTCTTCAAA
Found at i:12390 original size:8 final size:8
Alignment explanation
Indices: 12377--12402 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
12367 AAAGTAGTGA
12377 AAATTATC
1 AAATTATC
12385 AAATTATC
1 AAATTATC
12393 AAATTATC
1 AAATTATC
12401 AA
1 AA
12403 TTTCACATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (8 bp):
AAATTATC
Found at i:16905 original size:19 final size:18
Alignment explanation
Indices: 16872--16907 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
16862 TGGAAATAAT
16872 TCTTCAATGGTCTTCAAA
1 TCTTCAATGGTCTTCAAA
*
16890 TCTTCAAATTGTCTTCAA
1 TCTTC-AATGGTCTTCAA
16908 TAAGTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (18 bp):
TCTTCAATGGTCTTCAAA
Found at i:23597 original size:19 final size:18
Alignment explanation
Indices: 23560--23599 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
23550 TTCTTGAAAT
*
23560 AATTCTTCAATGGTCTTC
1 AATTCTTCAATGATCTTC
*
23578 AATTCTTCAAATTATCTTC
1 AATTCTTC-AATGATCTTC
23597 AAT
1 AAT
23600 AAATCTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (18 bp):
AATTCTTCAATGATCTTC
Found at i:29164 original size:13 final size:13
Alignment explanation
Indices: 29146--29171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29136 AAGATCTCAA
29146 CAAAAATCATCAC
1 CAAAAATCATCAC
29159 CAAAAATCATCAC
1 CAAAAATCATCAC
29172 TCATGCCAAG
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:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (13 bp):
CAAAAATCATCAC
Found at i:38281 original size:24 final size:23
Alignment explanation
Indices: 38249--38295 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
38239 GATCTTGTTT
**
38249 TTGCGTTTTTTTTTCTAAAAAAAA
1 TTGCGTTTTTAATT-TAAAAAAAA
38273 TTGCGTTTTTAATTTAAAAAAAA
1 TTGCGTTTTTAATTTAAAAAAAA
38296 AATTGTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (23 bp):
TTGCGTTTTTAATTTAAAAAAAA
Found at i:42135 original size:154 final size:154
Alignment explanation
Indices: 41850--43383 Score: 2439
Period size: 154 Copynumber: 10.0 Consensus size: 154
41840 TGGCGCATCA
* *
41850 CAAATGAGCTAAAAACTTCACATTGGACTAATGTCACCAAAATGATTATAGTTAGGCCATAAACA
1 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
** *
41915 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAGGACGATTCAAAACGGAACTAATGGGCCCCG
66 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCCG
41980 ATAGGCCCAAAATAACAAGTGTTC
131 ATAGGCCCAAAATAACAAGTGTTC
* *
42004 CAAAAGAGCTAAAAACTTCATC-GTGGACTAATCTCACCAAAATGATTATAGTTAAGCCATAAAC
1 CAAATGAGCTAAAAACTTCA-CAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
*
42068 AATGGAAAGAAAAACATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCC
65 AATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCC
* *
42133 GATAGGCTCAAAATAACAAGTTTTC
130 GATAGGCCCAAAATAACAAGTGTTC
*
42158 CAAATGAGCTAAAAACTTCACATTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
1 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
*
42223 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGATCTAATGGGCCCCG
66 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCCG
42288 ATAGGCCCAAAATAACAAGTGTTC
131 ATAGGCCCAAAATAACAAGTGTTC
42312 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
1 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
** * * ** *
42377 ATGGAAAGAAAAGCATTGAGGTTTGCCATGTCGAAGACGATCCAAAACGTCTCTAATGGGCGCCG
66 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCCG
42442 ATAGGCCCAAAATAACAAGTGTTC
131 ATAGGCCCAAAATAACAAGTGTTC
* *
42466 CAAAAGAGCTAAAAACTTCATC-GTGGACTAATCTCACCAAAATGATTATAGTTAAGCCATAAAC
1 CAAATGAGCTAAAAACTTCA-CAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAAC
* * *
42530 AATGGAAAGAAAAACATTGGGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCT
65 AATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCC
* *
42595 GATAGGCTCAAAATAACAAGTTTTC
130 GATAGGCCCAAAATAACAAGTGTTC
* *
42620 CAAATGAGCTAAAAACTTCACATTGGACTAATCTCACCAAAATGATAATAGTTAGGCCATAAACA
1 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
42685 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCCG
66 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCCG
*
42750 ATAGGCTCAAAATAACAAGTGTTC
131 ATAGGCCCAAAATAACAAGTGTTC
*
42774 CAAATGAGCTAAAAACTTCACATTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
1 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
* * * *
42839 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACTATTCAAAACGGAACTAATGGGCCTCG
66 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCCG
42904 ATAGGCCCAAAATAACAAGTGTTC
131 ATAGGCCCAAAATAACAAGTGTTC
* * ** * *
42928 TAAATGCGCTAAAAACTTCATTGTGGACTAATCTGACAAAAATGATTATAGTTAGGCCATAAACA
1 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
* *
42993 ATGGAAAGAAAAACATTGAGG-TTGCCAAATCGAAAACGATTCAAAACGAATCTAATGGGCCCCG
66 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCCG
* *
43057 ATATGCTCAAAATAACAAGTGTTC
131 ATAGGCCCAAAATAACAAGTGTTC
* * *
43081 CAAATGAGCTAAAAACTTCACAGTGAACTAATCTCACCAAAATGATTATAGTTAGTCCATAAAAA
1 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
* * *
43146 ATGGAAAGAAAAGCTTTGAGGTTTGCCAAATCGAAGAA-GATTCAATACGTCA-CTAATGGGCCC
66 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAA-AACGATTCAAAACG-GATCTAATGGGCCC
* *
43209 CGATAGGGCCAAAATAACAAGTTTTC
129 CGATAGGCCCAAAATAACAAGTGTTC
* * * * * * *
43235 CAAATAAGCTAAAAAGTTCACAATGGACTAATATGACCAAATTGATTATGGTTAGGCCATAAACA
1 CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
* * *
43300 ATGGAAAGAAAAGCATTGAGATTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCG
66 ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCCG
43365 ATAGGCCCAAAATAACAAG
131 ATAGGCCCAAAATAACAAG
43384 GGTT
Statistics
Matches: 1271, Mismatches: 100, Indels: 18
0.92 0.07 0.01
Matches are distributed among these distances:
153 139 0.11
154 1127 0.89
155 5 0.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (154 bp):
CAAATGAGCTAAAAACTTCACAGTGGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACA
ATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAAACGATTCAAAACGGATCTAATGGGCCCCG
ATAGGCCCAAAATAACAAGTGTTC
Done.