Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014223.1 Corchorus olitorius cultivar O-4 contig14256, 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: 104219
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:4156 original size:3 final size:3
Alignment explanation
Indices: 4150--4175 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4140 ATTATCATAT
4150 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4176 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4842 original size:16 final size:15
Alignment explanation
Indices: 4815--4862 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
4805 ATATAAAATC
4815 TTAATT-TTATTAAA
1 TTAATTATTATTAAA
4829 TTAATTATTGATT-AA
1 TTAATTATT-ATTAAA
*
4844 TTATATTATTATTATA
1 TTA-ATTATTATTAAA
4860 TTA
1 TTA
4863 TAGAGGACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 6 0.21
15 10 0.34
16 13 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TTAATTATTATTAAA
Found at i:15143 original size:91 final size:90
Alignment explanation
Indices: 14987--15155 Score: 230
Period size: 91 Copynumber: 1.9 Consensus size: 90
14977 CACTGTGCCC
* * * * * * * *
14987 TTTACTGCATAATAAGAATTCCCATTACTAACTTTTGTTCGGATGCACCATTATACCTTGCTGTA
1 TTTACTGCATAATAAGAACTACCATCACCAACTTTTATTCGGAAGCACCATTATACCATGATGTA
15052 TTAATAGGAATGCCTCCATTGAGCCT
66 -TAATAGGAATGCCTCCATTGAGCCT
* * *
15078 TTTACTGCATAATAAGAACTACCGTCACCAATTTTTATTTGGAAGCACCATTATACCATGATGTA
1 TTTACTGCATAATAAGAACTACCATCACCAACTTTTATTCGGAAGCACCATTATACCATGATGTA
15143 TAATAGGAATGCC
66 TAATAGGAATGCC
15156 ATCACTGTGC
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
90 13 0.19
91 54 0.81
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (90 bp):
TTTACTGCATAATAAGAACTACCATCACCAACTTTTATTCGGAAGCACCATTATACCATGATGTA
TAATAGGAATGCCTCCATTGAGCCT
Found at i:15356 original size:80 final size:79
Alignment explanation
Indices: 15259--15422 Score: 294
Period size: 80 Copynumber: 2.1 Consensus size: 79
15249 TCCTGCAACC
15259 AACTTTTATTGCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTT
1 AACTTTTATTGCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTT
15324 TTA-GCATACAATAAG
66 TTACGCAT--AATAAG
15339 AACTTTTATTGCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTT
1 AACTTTTATTGCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTT
15404 TTACTGCATAATAAG
66 TTAC-GCATAATAAG
15419 AACT
1 AACT
15423 ACCGTCACCA
Statistics
Matches: 82, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
80 78 0.95
82 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (79 bp):
AACTTTTATTGCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTT
TTACGCATAATAAG
Found at i:15664 original size:325 final size:325
Alignment explanation
Indices: 15074--15665 Score: 1166
Period size: 325 Copynumber: 1.8 Consensus size: 325
15064 CCTCCATTGA
*
15074 GCCTTTTACTGCATAATAAGAACTACCGTCACCAATTTTTATTTGGAAGCACCATTATACCATGA
1 GCCTTTTACTGCATAATAAGAACTACCGTCACCAACTTTTATTTGGAAGCACCATTATACCATGA
15139 TGTATAATAGGAATGCCATCACTGTGCCATGTACAAAAGTATTCAATTTTAACTGACACCACTAT
66 TGTATAATAGGAATGCCATCACTGTGCCATGTACAAAAGTATTCAATTTTAACTGACACCACTAT
15204 ACCATTATGTATAATAGGAATGCCACTGTTTGCGTCTTTTACAATTCCTGCAACCAACTTTTATT
131 ACCATTATGTATAATAGGAATGCCACTGTTTGCGTCTTTTACAATTCCTGCAACCAACTTTTATT
15269 GCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTTTTAGCATACA
196 GCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTTTTAGCATACA
15334 ATAAGAACTTTTATTGCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGT
261 ATAAGAACTTTTATTGCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGT
15399 GCCTTTTACTGCATAATAAGAACTACCGTCACCAACTTTTATTTGGAAGCACCATTATACCATGA
1 GCCTTTTACTGCATAATAAGAACTACCGTCACCAACTTTTATTTGGAAGCACCATTATACCATGA
15464 TGTATAATAGGAATGCCATCACTGTGCCATGTACAAAAGTATTCAATTTTAACTGACACCACTAT
66 TGTATAATAGGAATGCCATCACTGTGCCATGTACAAAAGTATTCAATTTTAACTGACACCACTAT
15529 ACCATTATGTATAATAGGAATGCCACTGTTTGCGTCTTTTACAATTCCTGCAACCAACTTTTATT
131 ACCATTATGTATAATAGGAATGCCACTGTTTGCGTCTTTTACAATTCCTGCAACCAACTTTTATT
*
15594 GCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTTTTGGCATACA
196 GCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTTTTAGCATACA
15659 ATAAGAA
261 ATAAGAA
15666 TGCCATTTAT
Statistics
Matches: 265, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
325 265 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (325 bp):
GCCTTTTACTGCATAATAAGAACTACCGTCACCAACTTTTATTTGGAAGCACCATTATACCATGA
TGTATAATAGGAATGCCATCACTGTGCCATGTACAAAAGTATTCAATTTTAACTGACACCACTAT
ACCATTATGTATAATAGGAATGCCACTGTTTGCGTCTTTTACAATTCCTGCAACCAACTTTTATT
GCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGTGCCTTTTAGCATACA
ATAAGAACTTTTATTGCACCATTATACCTTAATGTATAATAGGAATGCAACTATGTTCCTACTGT
Found at i:16654 original size:95 final size:95
Alignment explanation
Indices: 16372--16668 Score: 326
Period size: 95 Copynumber: 3.2 Consensus size: 95
16362 TCATCACACG
* * *
16372 ATAATAGGAATGCTACTATTGTGCCTTTAAGCATCCAATAAGAATGCCATGTATCAAAGTATCTT
1 ATAATAGGAATGCCACTATTGTGCCTTTTAGCATTCAATAAGAATGCCATGTATCAAAGTATCTT
*
16437 ATTAGAATTGACACCACTATACC-TTGTGT
66 ATTAGAATTGACACCACTATACCTTTATGT
* * * * * * *
16466 ATAATAGGAATGCCACCGTTTTGCGTCTTTTACTGCA-T-ATTAAGAATTCCCAT-TA-CCAACT
1 ATAATAGGAATGCCA-C-TATTGTGCCTTTTA--GCATTCAATAAGAA-TGCCATGTATCAAAGT
* * *
16527 -T-TTATTCCG-A-TG-CACCATTATACCTTGATGT
61 ATCTTATT-AGAATTGACACCACTATACCTTTATGT
16558 ATAATAGGAATGCCACTATTGTGCCTTTTAGCATTCAATAAGAATGCCATGTATCAAAGTATCTT
1 ATAATAGGAATGCCACTATTGTGCCTTTTAGCATTCAATAAGAATGCCATGTATCAAAGTATCTT
*
16623 ATTTGAATTGACACCACTATACCTTTATGT
66 ATTAGAATTGACACCACTATACCTTTATGT
*
16653 ATAGTAGGAATGCCAC
1 ATAATAGGAATGCCAC
16669 CGTTTTTCAT
Statistics
Matches: 162, Mismatches: 25, Indels: 31
0.74 0.11 0.14
Matches are distributed among these distances:
88 3 0.02
89 6 0.04
90 20 0.12
91 16 0.10
92 23 0.14
93 12 0.07
94 18 0.11
95 37 0.23
96 19 0.12
97 5 0.03
98 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (95 bp):
ATAATAGGAATGCCACTATTGTGCCTTTTAGCATTCAATAAGAATGCCATGTATCAAAGTATCTT
ATTAGAATTGACACCACTATACCTTTATGT
Found at i:31199 original size:32 final size:32
Alignment explanation
Indices: 31132--31199 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
31122 GAAAAAATTA
* * *
31132 CAATTAGAATTTTGTCTACATATTCAAACATC
1 CAATTAGAATTTTATCTACATACTCAAACACC
*
31164 CAATTAG-ATTTTCATCTACATACTCAAATACC
1 CAATTAGAATTTT-ATCTACATACTCAAACACC
31196 CAAT
1 CAAT
31200 GAAAAATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 5 0.16
32 26 0.84
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.35
Consensus pattern (32 bp):
CAATTAGAATTTTATCTACATACTCAAACACC
Found at i:35130 original size:43 final size:43
Alignment explanation
Indices: 35075--35156 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
35065 TATAGTGGTG
35075 GAACCAGTTTGCTGGACCAATCGTGTAACAACACGTCATAGTA
1 GAACCAGTTTGCTGGACCAATCGTGTAACAACACGTCATAGTA
*
35118 GAACCAGTTTGCTGGACTAATCGTGTAACAACACGTCAT
1 GAACCAGTTTGCTGGACCAATCGTGTAACAACACGTCAT
35157 GGAGCACCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (43 bp):
GAACCAGTTTGCTGGACCAATCGTGTAACAACACGTCATAGTA
Found at i:35282 original size:1 final size:1
Alignment explanation
Indices: 35276--35309 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
35266 AAGGCTTTGT
35276 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
35310 CCTACATTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:42052 original size:2 final size:2
Alignment explanation
Indices: 42045--42070 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42035 GTAGATGAAA
42045 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
42071 TTTTATCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62235 original size:15 final size:15
Alignment explanation
Indices: 62215--62246 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
62205 AGCAAAATCC
62215 ATCTTGGGAACTTAT
1 ATCTTGGGAACTTAT
62230 ATCTTGGGAACTTAT
1 ATCTTGGGAACTTAT
62245 AT
1 AT
62247 TAATTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (15 bp):
ATCTTGGGAACTTAT
Found at i:70810 original size:35 final size:35
Alignment explanation
Indices: 70764--70865 Score: 195
Period size: 35 Copynumber: 2.9 Consensus size: 35
70754 ATTGACATGC
70764 AAAATATTGATTACTTATTGATTAAACACATCTGT
1 AAAATATTGATTACTTATTGATTAAACACATCTGT
*
70799 AAAATATTGATTACTTGTTGATTAAACACATCTGT
1 AAAATATTGATTACTTATTGATTAAACACATCTGT
70834 AAAATATTGATTACTTATTGATTAAACACATC
1 AAAATATTGATTACTTATTGATTAAACACATC
70866 AAATTTGCAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (35 bp):
AAAATATTGATTACTTATTGATTAAACACATCTGT
Found at i:77184 original size:18 final size:18
Alignment explanation
Indices: 77163--77200 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
77153 TAATGGCTAG
77163 TTCCAATTTAATACTATA
1 TTCCAATTTAATACTATA
77181 TTCCAATTTAATACTATA
1 TTCCAATTTAATACTATA
77199 TT
1 TT
77201 TACTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCCAATTTAATACTATA
Found at i:83421 original size:19 final size:19
Alignment explanation
Indices: 83403--83439 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
83393 GATTAATTAT
83403 TTTA-ATATTAAATTTTTA
1 TTTATATATTAAATTTTTA
*
83421 TTTATATATTATATTTTTA
1 TTTATATATTAAATTTTTA
83440 CTTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATATATTAAATTTTTA
Found at i:100741 original size:335 final size:332
Alignment explanation
Indices: 99681--104219 Score: 5528
Period size: 336 Copynumber: 13.6 Consensus size: 332
99671 TTCGGGGCCA
* * * * * *
99681 ACTCAGTTTTGCATGATATTTGGCATAAAGACTCCTTGAAATATCTATATTCATCTAAGCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* * * * * *
99746 CCATCCACATTGGATTTAAGGATTT-CTTTTACGAGCATCTAAATCTTGCTTCGATTTAATTAGA
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
*
99810 AATTAATTC----------GGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTATTTTG
131 AATAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTT-TTTT-
* * * ** * * * * **
99865 GCATTGAA-TATTATATTTTTTCTGAGTATTGTGG-CAAAGAATTGAGAAAAAATTTTCCGAATC
194 GCGTTGAATTA-CATATCTTTTAGGACTAATGTGGCCAAA-AATTGAGGAAAAATTTTTCGGGTC
** *
99928 AGTTTTTGC-AAATGTTTAGCCGAAATCGT-T-TTCTCCAT-A--G-TTTATGGCTAAAAACGCA
257 AGTTTTTGCAAAAT-TTTAGCCGAAATCGTGTATTAACCATCACGGATTTA-GGCTAAAAACGCG
** * *
99986 TTCCCGGGGCTCGG
320 TT-CCGGAACCCCG
* * * *
100000 ACTC-AGTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* * * * *
100064 TCAGCCAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAGA-CTTGCTTCGATTTTAATTA
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGA-ATCTTGTTTCGA-TTTAATTA
* * * * *
100128 GAAATAAATTCGGGAAAAAAATGGAATAACGATTTTAGAAGCGTGAGAAACCGTTCAAATTATTT
129 GAAATAAATTCGGG-AAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTC-AATTTTTT
* * * * *
100193 TGGCGTTGAATTACATAT-TTTTATGACTATTATGGCCAAAAAATATGAGGAAAAAATTTTCGGG
192 TTGCGTTGAATTACATATCTTTTAGGACTAATGTGGCC-AAAAAT-TGAGGAAAAATTTTTCGGG
* *
100257 TAAGTTTTTGCAAAATTTTAGCC---A-CGTGTACTAACCATCACGGTATTTTA--CTAAAAACG
255 TCAGTTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGG-A-TTTAGGCTAAAAACG
* * *
100316 CGTTCTGTG-GCTCCG
318 CGTTCCG-GAACCCCG
** * * * * *** *
100331 GTTCAGTTTTGCATGATTTTTGGCGTAAATACTTATTGAAATATCTATATTCATCGAAGCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
*
100396 CCAACCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * **
100461 AATAAATTCGGGAAAATATGGAAAAACAATATTAGAAGCGTGAAAAACCCTTCAATCGTTTTTGC
131 AATAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGC
* * * *
100526 ATTGAATTACATATTTTTTAGGACTAATGTGGCAAAAAATTGAGGAAAAATTTTTCAGGTCAGTT
196 GTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCGGGTCAGTT
* * * *
100591 TTTGCAAAATTTTAGCCGAAATATAGTGTATTAACCATATCACGGTTTTAGGTTAAAAACGTGTT
261 TTTGCAAAATTTTAGCCG-AA-ATCGTGTATTAACC--ATCACGGATTTAGGCTAAAAACGCGTT
** *
100656 CCGGAGTCCTG
322 CCGGAACCCCG
* * *
100667 ACTCAA-TTTTCATGATTTTTGGCATAAAGACTCGTTGAAATATCTATATTCATCGAATCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* * *
100731 TCAGCCACAGTGGATTTAAAGATTTGTTTTTATACAAGCATCTGAAGCTTGTTTCGATTTAATTA
66 CCAGCCACAGTGGATTTAAGGATTTG-TTTT-TACAAGCATCTGAATCTTGTTTCGATTTAATTA
* * * *
100796 GAAATAAATTTGGGGAAAAATGGAAAAACGATATGAGAAGCTTGAAAAACCCTTCAATTGTTTTT
129 GAAATAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATT-TTTTT
* * ** ** * *
100861 TGCGCTGAATTACATATTTTTTCTGACTGTTGTGGCAAAAAAATTGAGGAAAAATTCTTCGGGTC
193 TGCGTTGAATTACATATCTTTTAGGACTAATGTGGC-CAAAAATTGAGGAAAAATTTTTCGGGTC
* * * * * * ** * *
100926 AATTTTTGCAAAATTTTAGCTGAAATTGTGTACTAA-TATTCACGGTTTTTTGCTATAAACACGT
257 AGTTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCA-TCACGGATTTAGGCTAAAAACGCGT
*
100990 TCCAGG-GCCCCG
321 TCC-GGAACCCCG
* ** * * * * **
101002 GCTCGGTTTTGCATGATTTTTGCCGTAGAGACTTCTTGAAATATCTATATTCATCGAACCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* * * * * * *
101067 CCAACCATAGTGGTTTTAAGGATTTGTTTTCAGAAGCATCCGAATCTTGTTTCGATTT-ATTATA
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * **
101131 AATAAATTTGGGGAAAAAATGGAAAAACGATATTACAAGCATGAAAAAACCAAT-AATTTTTTTC
131 AATAAA-TTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAAACCCTTCAATTTTTTT-
* * ** * * * *
101195 TGGGGTTGAATTACATATTTTTTCTGACTAATGTGGCAAAAAATTGAGGAAAAAATTTTCGAGTG
193 T-GCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCGGGTC
* * * *
101260 AGTTTTTGCAAAATTTTAGCCGAAATCTCGTGTATT-ACCTTCACGGTTTTAGCCTAAAAACGCA
257 AGTTTTTGCAAAATTTTAGCCGAAA--TCGTGTATTAACCATCACGGATTTAGGCTAAAAACGCG
*
101324 TTCTGGAACCCCG
320 TTCCGGAACCCCG
*** ** *
101337 AAAAAATTTTTCATGATTTTTGGCATAAAGACTTCTTGAAATATCTATATTCATCTAACCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* * * *
101402 TCAGCCACA-TGGATTTAATGATTTGTTTTTATACAAGCATCTAAAGCTTGTTTCGATTTAATTA
66 CCAGCCACAGTGGATTTAAGGATTTG-TTTT-TACAAGCATCTGAATCTTGTTTCGATTTAATTA
* *
101466 GAAATAAATT-TGGAGAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCGATTTTTTT
129 GAAATAAATTCGGGA-AAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTC-AATTTTTT
* * *
101530 TTGAGTTGAATTACATATCTTTTAGGACTAATGTTGCCAAAAATTGAGGAAAAATTTTTTGGGTC
192 TTGCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCGGGTC
* *
101595 AGTTTTTTG-AAAATTTTAGCCGAAATCGTGTA-T--GCATCACAGATTTAGGCTAAAAACGCGT
257 AG-TTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGGATTTAGGCTAAAAACGCGT
*
101656 TCCGCAACCCCG
321 TCCGGAACCCCG
* * * *
101668 ACTCAATTCTTCATGATTTTTGGTATAAAGACACCTTGAAATATTTATATTAATCGAACCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* * * *
101733 CCAGGCACAGTGGATTTAAGGATTTGTTTTTACAAGCATATGAATCTTTTTTCGATTTAATTAGT
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
** *
101798 AATAAATTCGGGAAAAAAAAGAACAAACAATATTAGAAGCGTGAAAAACCCTT--ATTTTTTTTG
131 AATAAATTCGGGAAAAAATGGAA-AAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTG
*
101861 CGATTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAATTTTTTCGGGTCAG
195 CG-TTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCGGGTCAG
* * * * *
101926 TTTTTGCAAAATTTTAGACGAAATCGTGTATTAACCATCACGGTTTTAGGTTAAAAGCGCGTTCT
259 TTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGGATTTAGGCTAAAAACGCGTTCC
*
101991 GGAACCCCA
324 GGAACCCCG
*
102000 AATCAATTTTTCATGATTTTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAA
1 ACTCAATTTTTCATGA--TTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAA
* *
102065 TCCCAGCCACTGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTCCGATTTTAA-T
64 TCCCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGA-TTTAATT
** *
102129 AGAAATAAATTAAAGAAAAAAAT-GAAAAACCGATATTAGAAGCGTGAAAAACCCTTCAATTTTT
128 AGAAATAAATT-CGGGAAAAAATGGAAAAA-CGATATTAGAAGCGTGAAAAACCCTTCAA-TTTT
* * *
102193 TTTTGAGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAATTTTTTTGGG
190 TTTTGCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCGGG
* * *
102258 TCAGTTTTTGGAAAATTTTAGCCAAAATCGTGTATTAACCATCACGGATTTAGGCAAAAAACGCG
255 TCAGTTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGGATTTAGGCTAAAAACGCG
102323 TTCCGGAACCCCG
320 TTCCGGAACCCCG
* * * ** * *
102336 ACTCAATTTTTCATGCTTTTTGGTATAAAAACACCTTGAAATAAATTTATTCATCAAACCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* * *
102401 CCAACCACTGTGGATTTAATGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * *
102466 AATAAATTCAGAGAAAAAAAT-GAAAATAGGATATTAGAAACGTGAAAATA-CCTTCAATTTTTT
131 AATAAATTC-G-GGAAAAAATGGAAAA-ACGATATTAGAAGCGTGAAAA-ACCCTTCAA--TTTT
* *
102529 TTTTGCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGGAAAA-TTTTCTAG
190 TTTTGCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTC-GG
* * * * * *
102593 GTAAGCTTTTGCAAAATTTTAGCCGAAATCGTGGATTAACCAAT-ACAGATTCAGGCTAAAAAAG
254 GTCAGTTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACC-ATCACGGATTTAGGCTAAAAACG
* *
102657 TGTTCCGGAACCTCG
318 CGTTCCGGAACCCCG
*
102672 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTAAAATATCTATATTCATCGAACCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* * * *
102737 CAAGCCACAGTGGATTTAAGGATTTGTTTTTATAGGCATCTGAATCTTGTTTCGACTT-ATTAGA
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * *
102801 AATAAATTCAAGGAAAAAGAATGAAAAAACGATATTAGAAGCGTGTAAAAACCATTCAA-TTTTT
131 AATAAATTC--GGGAAAA-AATGGAAAAACGATATTAGAAGCGTG-AAAAACCCTTCAATTTTTT
*
102865 TTGCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTTGGGTC
192 TTGCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCGGGTC
* *
102930 AGTTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACAGATTCAGGCTAAAAACGCGTT
257 AGTTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGGATTTAGGCTAAAAACGCGTT
102995 CCGGAACCCCG
322 CCGGAACCCCG
*
103006 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACTAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
*
103071 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGTATCTGAATCTTGTTTCGATTTAATTAGA
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
** * *
103136 AATAAATTCAAGAATAAAAT-GAATAAACGATATTAGAAACGTGAAAAACCATTCAATTTTTTTT
131 AATAAATTCGGGAA-AAAATGGAA-AAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTT
* *
103200 GCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAATTTTTTTGGGTCAG
194 GCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCGGGTCAG
* *
103265 TTTTTTTGGAAAATTTTAGCCGAAATCGTGTATTAACCATCACGGATTTAGGCTAGAAACGCGTT
259 --TTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGGATTTAGGCTAAAAACGCGTT
103330 CCGGAACCCCG
322 CCGGAACCCCG
* * *
103341 ACTCAATTCTTCATGATTTTTGGCATAAAGACACCTTGAAATATTTATATTCATCGAACTAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* * *
103406 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATATGAATCTTTTTTCGATTTAATTAGT
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
103471 AATAAATTCGGGAAAGAAAT-GAACAAACGATATTAGAAGCGTGAAAAACCCTT--A-TTTTTTT
131 AATAAATTCGGGAAA-AAATGGAA-AAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTT
*
103532 GCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAATTTTTTCGGGTCAG
194 GCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCGGGTCAG
* ** *
103597 TTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGAATGCAGGCTAAAAGCGCGTTCC
259 TTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGGATTTAGGCTAAAAACGCGTTCC
*
103662 GGAACCCCA
324 GGAACCCCG
*
103671 AATCAATTTTTCATGATTATTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAA
1 ACTCAATTTTTCATGA-T-TTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAA
* * *
103736 TCCCAGCCACACTGGATTTAAGGATTTGTTTTTACAGGCATCTGAATCTTGTTCCGATTTTAA-T
64 TCCCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGA-TTTAATT
* *
103800 AGAAATAAATTCAAGAAAAAAAT-GAAAAACCGATATTTAGAAGCGTGAAAAACCCTTCAATTTT
128 AGAAATAAATTC-GGGAAAAAATGGAAAAA-CGATA-TTAGAAGCGTGAAAAACCCTTCAA--TT
* * * *
103864 TTTTTTGAGTTGAATTACACATCTTTTAGAACTAATGTGGCCAAAAATTGAGGAAAAATTTTTTG
188 TTTTTTGCGTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCG
* * *
103929 GGTCAGTTTTTGGAAAATTTTAGCCAAAATCGTGTATTAACCATCACGGATTTAGGCAAAAAACG
253 GGTCAGTTTTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGGATTTAGGCTAAAAACG
103994 CGTTCCGGAACCCCG
318 CGTTCCGGAACCCCG
* * ** * *
104009 ACTCAATTTTTCATGCTTTTTGGTATAAAGACACCTTGAAATAAATTTATTCATCAAACCAAATC
1 ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
* *
104074 CCAGCCACTGTGGATTTAATGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
66 CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * *
104139 AATAAATTCAGAGAAAAAAT-GAAAAAGGATATTAGAAACGTGAAAATA-CCTTCAACTTTTTTT
131 AATAAATTC-GGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAA-ACCCTTCAA--TTTTTT
104202 TTGCGTTGAATTACATAT
192 TTGCGTTGAATTACATAT
Statistics
Matches: 3689, Mismatches: 415, Indels: 217
0.85 0.10 0.05
Matches are distributed among these distances:
318 78 0.02
319 29 0.01
320 19 0.01
327 3 0.00
328 57 0.02
329 128 0.03
330 194 0.05
331 234 0.06
332 390 0.11
333 159 0.04
334 672 0.18
335 671 0.18
336 686 0.19
337 140 0.04
338 183 0.05
339 46 0.01
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (332 bp):
ACTCAATTTTTCATGATTTTTGGCATAAAGACACCTTGAAATATCTATATTCATCGAACCAAATC
CCAGCCACAGTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGA
AATAAATTCGGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTTGC
GTTGAATTACATATCTTTTAGGACTAATGTGGCCAAAAATTGAGGAAAAATTTTTCGGGTCAGTT
TTTGCAAAATTTTAGCCGAAATCGTGTATTAACCATCACGGATTTAGGCTAAAAACGCGTTCCGG
AACCCCG
Done.