Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011044.1 Corchorus capsularis cultivar CVL-1 contig11065, 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: 160104
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:706 original size:26 final size:27
Alignment explanation
Indices: 663--726 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
653 TATTTCTGGA
663 AAACAAGGGAAATGGACAATTAAAAAG
1 AAACAAGGGAAATGGACAATTAAAAAG
*
690 GAACAA-GGAAA-GAGACAATTAAAAAG
1 AAACAAGGGAAATG-GACAATTAAAAAG
716 AAACAGAGGGA
1 AAACA-AGGGA
727 GTATAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 1 0.03
26 22 0.69
27 6 0.19
28 3 0.09
ACGTcount: A:0.59, C:0.08, G:0.25, T:0.08
Consensus pattern (27 bp):
AAACAAGGGAAATGGACAATTAAAAAG
Found at i:39102 original size:20 final size:19
Alignment explanation
Indices: 39073--39110 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
39063 CTATACCCGA
*
39073 AAACAGAGAAAACAAAAATG
1 AAACACAGAAAA-AAAAATG
39093 AAACACAGAAAAAAAAAT
1 AAACACAGAAAAAAAAAT
39111 TGTGCTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.74, C:0.11, G:0.11, T:0.05
Consensus pattern (19 bp):
AAACACAGAAAAAAAAATG
Found at i:40639 original size:31 final size:31
Alignment explanation
Indices: 40601--40671 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
40591 TTGTTTCGAT
40601 TGATTCATTTTACTTTCGGCCAAAAAAAAAA
1 TGATTCATTTTACTTTCGGCCAAAAAAAAAA
40632 TGATTCATTTTACTTTCGGCCAAAAAAAAAA
1 TGATTCATTTTACTTTCGGCCAAAAAAAAAA
40663 TGATTCATT
1 TGATTCATT
40672 ACATGCTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (31 bp):
TGATTCATTTTACTTTCGGCCAAAAAAAAAA
Found at i:69194 original size:29 final size:29
Alignment explanation
Indices: 69152--69208 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
69142 TTGATGTCTT
69152 CCTCAAAACAAAACTGTAAGAAAGGCATA
1 CCTCAAAACAAAACTGTAAGAAAGGCATA
*
69181 CCTCAAAACAAAACTGTAAGGAAGGCAT
1 CCTCAAAACAAAACTGTAAGAAAGGCAT
69209 CAAAGAAGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.21, G:0.16, T:0.14
Consensus pattern (29 bp):
CCTCAAAACAAAACTGTAAGAAAGGCATA
Found at i:69467 original size:49 final size:49
Alignment explanation
Indices: 69395--69493 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
69385 CTCAAACTCA
69395 TGAACTTCAGAAAACCTACCATAAAACAAAAAAAGAAATAAGAATTCAT
1 TGAACTTCAGAAAACCTACCATAAAACAAAAAAAGAAATAAGAATTCAT
69444 TGAACTTCAGAAAACCTACCATAAAACAAAAAAAGAAATAAGAATTCAT
1 TGAACTTCAGAAAACCTACCATAAAACAAAAAAAGAAATAAGAATTCAT
69493 T
1 T
69494 ATTATCTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.57, C:0.16, G:0.08, T:0.19
Consensus pattern (49 bp):
TGAACTTCAGAAAACCTACCATAAAACAAAAAAAGAAATAAGAATTCAT
Found at i:73992 original size:21 final size:22
Alignment explanation
Indices: 73937--73980 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
73927 ATGAAGAACT
73937 AGAGAATATTAACAGTTGATAG
1 AGAGAATATTAACAGTTGATAG
73959 AGAGAATATTAACAGTTGATAG
1 AGAGAATATTAACAGTTGATAG
73981 CTGAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (22 bp):
AGAGAATATTAACAGTTGATAG
Found at i:87319 original size:13 final size:14
Alignment explanation
Indices: 87295--87333 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 14
87285 TTATTAACCC
87295 ATTATATATAATAT
1 ATTATATATAATAT
87309 ATTAT-TATAATAT
1 ATTATATATAATAT
87322 A--ATA-ATAATAT
1 ATTATATATAATAT
87333 A
1 A
87334 AAACTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.42
13 9 0.38
14 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTATATATAATAT
Found at i:97217 original size:15 final size:15
Alignment explanation
Indices: 97197--97227 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
97187 CATAACTGCA
97197 TACCAAGAACAGCAG
1 TACCAAGAACAGCAG
97212 TACCAAGAACAGCAG
1 TACCAAGAACAGCAG
97227 T
1 T
97228 TAGTCATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.26, G:0.19, T:0.10
Consensus pattern (15 bp):
TACCAAGAACAGCAG
Found at i:104159 original size:13 final size:13
Alignment explanation
Indices: 104141--104168 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
104131 CTATGGCAAA
104141 AAAAAACAAAAAC
1 AAAAAACAAAAAC
104154 AAAAAACAAAAAC
1 AAAAAACAAAAAC
104167 AA
1 AA
104169 GACAACGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:104882 original size:30 final size:30
Alignment explanation
Indices: 104782--104882 Score: 105
Period size: 29 Copynumber: 3.4 Consensus size: 30
104772 TTTAATACAT
* ***
104782 AATTTGCATCCTAAACTATAAAAAAATGGAC
1 AATTTGCACCCTAAACTAT-AATTTATGGAC
* * *
104813 AATTTGCACCCAAAACTTTAATTT-TGAAC
1 AATTTGCACCCTAAACTATAATTTATGGAC
*
104842 AATTTGCACCCTAAACTATAATTTATGGAT
1 AATTTGCACCCTAAACTATAATTTATGGAC
*
104872 AATATGCACCC
1 AATTTGCACCC
104883 GAATTGGATG
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
29 26 0.46
30 15 0.26
31 16 0.28
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (30 bp):
AATTTGCACCCTAAACTATAATTTATGGAC
Found at i:104944 original size:42 final size:42
Alignment explanation
Indices: 104885--105014 Score: 199
Period size: 42 Copynumber: 3.1 Consensus size: 42
104875 ATGCACCCGA
* * *
104885 ATTGGATGAAAAAATTGATC-GAGTTGTTTAATTGGGGTGCAG
1 ATTGGACGAAAAGATTGA-CGGAGTCGTTTAATTGGGGTGCAG
*
104927 ATTGGACGAAAAGATTGACGGAGCCGTTTAATTGGGGTGCAG
1 ATTGGACGAAAAGATTGACGGAGTCGTTTAATTGGGGTGCAG
*
104969 ATTGGACGAAAAGATTGACGGAGTCGTTTAATTGGGGTGCAA
1 ATTGGACGAAAAGATTGACGGAGTCGTTTAATTGGGGTGCAG
105011 ATTG
1 ATTG
105015 TCCATTAAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 1 0.01
42 80 0.99
ACGTcount: A:0.30, C:0.08, G:0.33, T:0.28
Consensus pattern (42 bp):
ATTGGACGAAAAGATTGACGGAGTCGTTTAATTGGGGTGCAG
Found at i:125347 original size:36 final size:36
Alignment explanation
Indices: 125307--125532 Score: 201
Period size: 36 Copynumber: 6.3 Consensus size: 36
125297 GCTCCGGGTC
*
125307 GTCCCTCCTCAATATTAGTTGTGGATGCTCCTTGTT
1 GTCCCTCCTCAATATTAGTTGTGGATGCTCCATGTT
* * * *
125343 GTCCCTCCT-ATGTATTAGATGTGGATGCTCCCCCCTGCT
1 GTCCCTCCTCA-ATATTAGTTGTGGATGCT---CCATGTT
* * *
125382 GTCCCTCATC---ATTAGTTCTGGATGTTTCC-TGTT
1 GTCCCTCCTCAATATTAGTTGTGGATG-CTCCATGTT
* * *
125415 GTCCATCCTCAATATTACTTGTGGATGTTCCATGTT
1 GTCCCTCCTCAATATTAGTTGTGGATGCTCCATGTT
* ** * * **
125451 GTCCATCCTCAATATTTCTTGTGGATGTTCCCTCAT
1 GTCCCTCCTCAATATTAGTTGTGGATGCTCCATGTT
*
125487 GTTCCTCCTCAATATTAGTTGTGGATGCTCCATGTT
1 GTCCCTCCTCAATATTAGTTGTGGATGCTCCATGTT
125523 GTCCCTCCTC
1 GTCCCTCCTC
125533 GACATCGGCC
Statistics
Matches: 154, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
33 11 0.07
34 2 0.01
35 5 0.03
36 122 0.79
37 1 0.01
39 13 0.08
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (36 bp):
GTCCCTCCTCAATATTAGTTGTGGATGCTCCATGTT
Found at i:142306 original size:5 final size:5
Alignment explanation
Indices: 142296--142326 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
142286 TTCAGATCCA
142296 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT G
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT G
142327 CCCAATTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (5 bp):
GAAAT
Found at i:142485 original size:12 final size:12
Alignment explanation
Indices: 142455--142497 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
142445 GATGGAGACG
142455 TTTTTTCTTTCTT
1 TTTTTTCTTT-TT
142468 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
142480 TTTTTTGTTTTT
1 TTTTTTCTTTTT
142492 GTTTTT
1 -TTTTT
142498 AAATTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 13 0.46
13 15 0.54
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:143557 original size:183 final size:183
Alignment explanation
Indices: 143244--143610 Score: 644
Period size: 183 Copynumber: 2.0 Consensus size: 183
143234 TGACGATGGA
* ** *
143244 CGGGTTCAGCTCCGCTCCAATACTAATTTCATCCAATGATATCCAATACCCCTCTGGATGACTGA
1 CGGGTTCAGCTCCCCTCCAATACTAATCCCATCCAATGATATCCAATAACCCTCTGGATGACTGA
* *
143309 CACCTATTTAAAATAAATTCAATGGCTAAGATTAAAATTAAAAACTCAACCCTCTTTTGCTGTTA
66 CACCTATTTAAAATAAATTCAATGGCTAAGATTAAAATTAAAAACCCAACCCTCTTTTCCTGTTA
*
143374 AATCCACGTTTCCTCACTCCGTTTCCCCTTCCTCCCTCTGTTTGCTCTGTTAC
131 AATCCACGTTTCCTCACTCCGTTTCCCCTTCCTCCCTCCGTTTGCTCTGTTAC
143427 CGGGTTCAGCTCCCCTCCAATACTAATCCCATCCAATGATATCCAATAACCCTCTGGATGACTGA
1 CGGGTTCAGCTCCCCTCCAATACTAATCCCATCCAATGATATCCAATAACCCTCTGGATGACTGA
*
143492 CACCTGTTTAAAATAAATTCAATGGCTAAGATTAAAATTAAAAACCCAACCCTCTTTTCCTGTTA
66 CACCTATTTAAAATAAATTCAATGGCTAAGATTAAAATTAAAAACCCAACCCTCTTTTCCTGTTA
* *
143557 AATCCACGTTTCCTCACTCTGTTTCCCTTTCCTCCCTCCGTTTGCTCTGTTAC
131 AATCCACGTTTCCTCACTCCGTTTCCCCTTCCTCCCTCCGTTTGCTCTGTTAC
143610 C
1 C
143611 TCTCCTTCCT
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 174 1.00
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.33
Consensus pattern (183 bp):
CGGGTTCAGCTCCCCTCCAATACTAATCCCATCCAATGATATCCAATAACCCTCTGGATGACTGA
CACCTATTTAAAATAAATTCAATGGCTAAGATTAAAATTAAAAACCCAACCCTCTTTTCCTGTTA
AATCCACGTTTCCTCACTCCGTTTCCCCTTCCTCCCTCCGTTTGCTCTGTTAC
Found at i:157779 original size:51 final size:51
Alignment explanation
Indices: 157706--157824 Score: 211
Period size: 51 Copynumber: 2.3 Consensus size: 51
157696 TAAAAAGTTT
157706 AAAAATTCTAGTAATTAGGAGACCGATGAGGGCTGTCCCTCCAAACATTTTA
1 AAAAATT-TAGTAATTAGGAGACCGATGAGGGCTGTCCCTCCAAACATTTTA
* *
157758 AAAAATTTAGTAATTAGGAGACCGATGAGGGCTGTCTCTCTAAACATTTTA
1 AAAAATTTAGTAATTAGGAGACCGATGAGGGCTGTCCCTCCAAACATTTTA
157809 AAAAATTTAGTAATTA
1 AAAAATTTAGTAATTA
157825 ACATAGTGAC
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 58 0.89
52 7 0.11
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (51 bp):
AAAAATTTAGTAATTAGGAGACCGATGAGGGCTGTCCCTCCAAACATTTTA
Found at i:158217 original size:148 final size:148
Alignment explanation
Indices: 157945--158222 Score: 389
Period size: 148 Copynumber: 1.9 Consensus size: 148
157935 CGCTTTCCGG
* *
157945 GGTATTTTCGCTAGAAATTAAGCAAATATCTTTTGGGTCAGATTTTCCAAAATTTTAGCTGAAAT
1 GGTATTTTCGCTAGAAATTAAGCAAATATCTTTCGGGTCAGATTTTCCAAAATTTTAGCGGAAAT
* * * * **
158010 TGTGTACCAACTATCATGGTTTTTCGCTAAAAACGCATTCCGAGGCCACGGTTTTTTTTGCATGA
66 CGTGTACCAACCATCACGGTTTTTCGCTAAAAACGCATTCCGAGGCCACGCTTAGTTTTGCATGA
158075 ATTATATATATTTTCATT
131 ATTATATATATTTTCATT
* * * *
158093 GGTATTTTCGCTAGAAATTGAGGAAATATCTTTCGGGTCAGTTTTTGCAAAATTTTAGCGGAAAT
1 GGTATTTTCGCTAGAAATTAAGCAAATATCTTTCGGGTCAGATTTTCCAAAATTTTAGCGGAAAT
* * *
158158 CGTGTACTAACCATCACGG-TTTTCGGCTAAAAACGCGTTCCGGGGCC-CTGCTTAGTTTTGCAT
66 CGTGTACCAACCATCACGGTTTTTC-GCTAAAAACGCATTCCGAGGCCAC-GCTTAGTTTTGCAT
158221 GA
129 GA
158223 TTTTTTTGTG
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
147 6 0.05
148 107 0.95
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (148 bp):
GGTATTTTCGCTAGAAATTAAGCAAATATCTTTCGGGTCAGATTTTCCAAAATTTTAGCGGAAAT
CGTGTACCAACCATCACGGTTTTTCGCTAAAAACGCATTCCGAGGCCACGCTTAGTTTTGCATGA
ATTATATATATTTTCATT
Found at i:158687 original size:332 final size:333
Alignment explanation
Indices: 158074--158844 Score: 1099
Period size: 332 Copynumber: 2.3 Consensus size: 333
158064 TTTTTGCATG
* * * * * * * *
158074 AATTATATATATTTTCATTG-GTATTTTCGCTAGAAATTGAGGAAATATCTTTCGGGTCAGTTTT
1 AATTATATATTTTTTTA-TGAGTATTTTAGCAAAAAATTGAGGAAAAATATTTCGGGTCAATTTT
*
158138 TGCAAAATTTTAGCGGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCGTTCCGGGG
65 TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCGTTCCGGGG
* * * *
158203 CCCTGCTTAGTTTTGCATGATTTTTTTGTGACAAGACTCCTTGAAATATCTATATACATCTAACC
130 CCCGGCTCAGTTTTGCATGAATTTTTGGTGACAAGACTCCTTGAAATATCTATATACATCTAACC
* *
158268 AAATCTCAGCCACATTGGATTTAAGGATTTCTTTTTAGGAGCATCTGAATCTTGTTTTGTTTTAA
195 AAATCTCAGCCACATTGAATTTAAGGATTTCTTTTTAGGAGCATCTGAATCTTGTTTCGTTTTAA
*
158333 TTCGAAACTAATTCGGAAAAAATAAGGAAAAACAAAATTAGAAGCGCTAAAGGCCCTTCGATCTG
260 TTCGAAACTAATTCGGAAAAAATAA-GAAAAACAAAATTAGAAGCGCTAAAGGCCCTTCAATCTG
*
158398 TTTG-TTGTCA
324 TTTGATGGT-A
* * *
158408 AATTATATATTTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATATTTCGAGTAAATTTTT
1 AATTATATATTTTTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATATTTCGGGTCAATTTTT
* * *
158473 GCAAAATTTTGGCCGAAATCGTGTACTAACCATCACGGTTTTGGGCT-AAAACGCTTTCCGGGGC
66 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCGTTCCGGGGC
* * *
158537 CCGGCTCAGTTTTTCAT-AATTTTTGGTGCCAAGATTCCTTGAAATATCTATATACATCTAACCA
131 CCGGCTCAGTTTTGCATGAATTTTTGGTGACAAGACTCCTTGAAATATCTATATACATCTAACCA
158601 AATCTCAGCCACATTGAATTTAAGGATTTCTTTTT-GCGAGCATCTGAATCTTG-TTCGTTTTAA
196 AATCTCAGCCACATTGAATTTAAGGATTTCTTTTTAG-GAGCATCTGAATCTTGTTTCGTTTT-A
* ** *
158664 ATT-GAAACTAATTCGGAAAAAAATAAGAAAAATATTATTAGAAGCGCTAAAGGTCCTTCAATCT
259 ATTCGAAACTAATTCGG-AAAAAATAAGAAAAACAAAATTAGAAGCGCTAAAGGCCCTTCAATCT
* *
158728 TTTTGATGGTG
323 GTTTGATGGTA
*
158739 AATTATATA-TTTTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATATTTTGGGTCAATTTTT
1 AATTATATATTTTTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATATTTCGGGTCAATTTTT
* * * *
158803 GCAAAATTTTAGCCGAAATCGTATATTAATCATCGCGGTTTT
66 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTT
158845 TTACTAAAAA
Statistics
Matches: 392, Mismatches: 40, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
330 88 0.22
331 67 0.17
332 109 0.28
333 32 0.08
334 96 0.24
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (333 bp):
AATTATATATTTTTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATATTTCGGGTCAATTTTT
GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCTAAAAACGCGTTCCGGGGC
CCGGCTCAGTTTTGCATGAATTTTTGGTGACAAGACTCCTTGAAATATCTATATACATCTAACCA
AATCTCAGCCACATTGAATTTAAGGATTTCTTTTTAGGAGCATCTGAATCTTGTTTCGTTTTAAT
TCGAAACTAATTCGGAAAAAATAAGAAAAACAAAATTAGAAGCGCTAAAGGCCCTTCAATCTGTT
TGATGGTA
Found at i:160081 original size:473 final size:472
Alignment explanation
Indices: 158408--160104 Score: 2221
Period size: 473 Copynumber: 3.6 Consensus size: 472
158398 TTTGTTGTCA
* * * * * * * * * *
158408 AATTATATATTTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATATTTCGAGTAAATTTTT
1 AATTATATATATTTTCATGGGTATTTTCGCTAGAAATTGAGGAAATATCTTTCG-GTCAGTTTTT
* *
158473 GCAAAATTTTGGCCGAAATCGTGTACTAACCATCACGGTTTTGGGCTAAAACGCTTTCCGGGGCC
65 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTGGGCTAAAACGCTTTCCGGGGCC
* *
158538 CGGCTCAGTTTTTCATAATTTTTGGTGCCAAGATTCCTTGAAATATCTATATACATCTAACCAAA
130 CAGCTCAGTTTTGCATAATTTTTGGTGCCAAGATTCCTTGAAATATCTATATACATCTAACCAAA
*
158603 TCTCAGCCACATTGAATTTAAGGATTTCTTTTTGCGAGCATCTGAATCTTG-TTCGTTTTAAATT
195 TCTCAGCCACATTGAATTTAAGGATTTCTTTTTACGAGCATCTGAATCTTGTTTCGTTTT-AATT
* * * *
158667 -GAAACTAATTCGGAAAAAAATAAGAAAAATATTATTAGAAGCGCTAAAGGTCCTTCAATCTTTT
259 CGAAACTAATTCGGAAAAAAAGAGGAAAAACAATATTAGAAGCGCTAAAGG-CCTTCAATCTTTT
* * * *
158731 TGATGGT-GAATTATATATTTTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATATTTTGGGT
323 TGAT-GTCAAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATATTTCGAGT
* * * ** ** * *
158795 CAATTTTTGCAAAATTTTAGCCGAAATCGTATATTAATCATCGCGGTTTTTTACTAAAAACACTT
387 CAA----TGCAAAATTTTGGCCGAAATCGTGTA-TAACCATCATGGTTTTTCGCTAAAAACGCAT
* * * * *
158860 TACGGGGCGACGTTTATGTTTTTGCAAG
447 TCCGGGGCCAAG-TTCTG-TTTTGCATG
* * * * *
158888 AATTAT-TAATTTTTTCATGGGTATTTTTGCTAGAAATTAAGCAAATATCTTTCGTGTCAGATTT
1 AATTATAT-ATATTTTCATGGGTATTTTCGCTAGAAATTGAGGAAATATCTTTCG-GTCAGTTTT
* * *
158952 TCCAAAATTTTAGCCGAAATCGTG---------TCACAGTTTTCGGCTAAAAACGCTTTCTGGGG
64 TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTGGGCT-AAAACGCTTTCCGGGG
* * * * * *
159008 CCAAATCTCAGTTTTGGATGATTTTTGGCGCCAAGACTCCTTGAAATATCTATATACATCTAACC
128 CC-CAGCTCAGTTTTGCATAATTTTTGGTGCCAAGATTCCTTGAAATATCTATATACATCTAACC
*
159073 AAATCTTAGCCACATT-AGATTTAAGGATTTCTTTTTACGAGCATCTGAATCTTGTTTCGTTTTA
192 AAATCTCAGCCACATTGA-ATTTAAGGATTTCTTTTTACGAGCATCTGAATCTTGTTTCGTTTTA
* *
159137 ATTCGAAACTAATTCGAAAAAAAAAAGAGGAAAAACAATATTAGAAGCGTTAAAGGCCCTTCAAT
256 ATTCGAAACTAATTCG--GAAAAAAAGAGGAAAAACAATATTAGAAGCGCTAAAGG-CCTTCAAT
*
159202 CTTTTTGATTTCAAATTATATATTTTTTATGAGTATTTTAGCCAAAAAATTGAGGAAAAATATTT
318 CTTTTTGATGTCAAATTATATATTTTTTATGAGTATTTTAGCC-AAAAATTGAGGAAAAATATTT
159267 CGAGTCAATTTTTGCAAAATTTTGGCCGAAATCGTG--T-ACCATCATGGTTTTTCGCTAAAAAC
382 CGAGTCAA----TGCAAAATTTTGGCCGAAATCGTGTATAACCATCATGGTTTTTCGCTAAAAAC
*
159329 GCATTCCGGGGCCACGGTTCTGTTTTGCATG
443 GCATTCCGGGGCCA-AGTTCTGTTTTGCATG
*
159360 AATTATATATATTTTCATGGGTATTTTCTCTAGAAATTGAGGAAATATCTTTCGGGTCAGTTTTT
1 AATTATATATATTTTCATGGGTATTTTCGCTAGAAATTGAGGAAATATCTTTC-GGTCAGTTTTT
* *
159425 GCAAAATTTTAGCCGGAATCGTGTACTAACCATCACGGTTTTGGGCTAAAACGCTTTCCGGGGCC
65 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTGGGCTAAAACGCTTTCCGGGGCC
* *
159490 CAACTCAGTTTTGCATAATTTTTGGTGCCAAGAATTCCCTGAAATATCTATATACATCTAACCAA
130 CAGCTCAGTTTTGCATAATTTTTGGTGCCAAG-ATTCCTTGAAATATCTATATACATCTAACCAA
*
159555 ATCTCAGCCACATTGGATTTAAGGATTTCTTTTTACGAGCATCT-AATCTTGTTTCGTTTTAATT
194 ATCTCAGCCACATTGAATTTAAGGATTTCTTTTTACGAGCATCTGAATCTTGTTTCGTTTTAATT
* * *
159619 CGAAACTAATCCGGAAAAAAA-AGGAAAAACAATATTAGAAGCACTAAAGGCGCTTCAAACTTTT
259 CGAAACTAATTCGGAAAAAAAGAGGAAAAACAATATTAGAAGCGCTAAAGGC-CTTCAATCTTTT
* * * *
159683 TGATGTCAAATTATATAATCTTTATCAGTATTTTAGCCAAAAATTGAGGAAAAATATTACGAGTC
323 TGATGTCAAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATATTTCGAGTC
* *
159748 AA-GCAAAATTTTGGCCGAAATCGTGTACTAACCATCATGGTTTTTCGCCAAAAATGCATTCCGG
388 AATGCAAAATTTTGGCCGAAATCGTGTA-TAACCATCATGGTTTTTCGCTAAAAACGCATTCCGG
159812 GGCCATAGTTCTGTTTTGCATG
452 GGCCA-AGTTCTGTTTTGCATG
* * *
159834 AATTATATATCTTTTCAAGGGTATTTTCGCTAGAAATTGAGGAAACATCTTT-GGCTCAGTTTTT
1 AATTATATATATTTTCATGGGTATTTTCGCTAGAAATTGAGGAAATATCTTTCGG-TCAGTTTTT
* * * *
159898 GCAAAAATTTAGCAGAAATCGTGTACTAACGATCACAGTTTTGGGCTAAAACGCTTTCCTGGGCC
65 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTGGGCTAAAACGCTTTCCGGGGCC
* *
159963 CGGCTCAGTTTTGCTTAATTTTTGGTGCCAAGATTCCTTGAAATATCTATATACATCTAACCAAA
130 CAGCTCAGTTTTGCATAATTTTTGGTGCCAAGATTCCTTGAAATATCTATATACATCTAACCAAA
* * *
160028 TATCAGCCACATTGAATTTAAGGATTTCTTTTTGCGAGCATCTGAATCTTGTTTCGTTTTAATTT
195 TCTCAGCCACATTGAATTTAAGGATTTCTTTTTACGAGCATCTGAATCTTGTTTCGTTTTAATTC
160093 GAAACTAATTCG
260 GAAACTAATTCG
Statistics
Matches: 1079, Mismatches: 107, Indels: 69
0.86 0.09 0.05
Matches are distributed among these distances:
470 23 0.02
471 13 0.01
472 176 0.16
473 273 0.25
474 122 0.11
475 30 0.03
476 150 0.14
477 60 0.06
479 60 0.06
480 159 0.15
481 13 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (472 bp):
AATTATATATATTTTCATGGGTATTTTCGCTAGAAATTGAGGAAATATCTTTCGGTCAGTTTTTG
CAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTGGGCTAAAACGCTTTCCGGGGCCC
AGCTCAGTTTTGCATAATTTTTGGTGCCAAGATTCCTTGAAATATCTATATACATCTAACCAAAT
CTCAGCCACATTGAATTTAAGGATTTCTTTTTACGAGCATCTGAATCTTGTTTCGTTTTAATTCG
AAACTAATTCGGAAAAAAAGAGGAAAAACAATATTAGAAGCGCTAAAGGCCTTCAATCTTTTTGA
TGTCAAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATATTTCGAGTCAAT
GCAAAATTTTGGCCGAAATCGTGTATAACCATCATGGTTTTTCGCTAAAAACGCATTCCGGGGCC
AAGTTCTGTTTTGCATG
Done.