Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017574.1 Corchorus olitorius cultivar O-4 contig17607, 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: 4218
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:653 original size:15 final size:15
Alignment explanation
Indices: 597--653 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
587 TCCGAACCGT
597 ATGACCCGAAACCGAAA
1 ATGACCCG-AACC-AAA
614 ATGACCC-AACACAAA
1 ATGACCCGAAC-CAAA
* *
629 ATTTACCCGAACCCAA
1 A-TGACCCGAACCAAA
645 ATGACCCGA
1 ATGACCCGA
654 CATTTGAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 14 0.41
16 10 0.29
17 10 0.29
ACGTcount: A:0.44, C:0.33, G:0.12, T:0.11
Consensus pattern (15 bp):
ATGACCCGAACCAAA
Found at i:1522 original size:209 final size:212
Alignment explanation
Indices: 1122--1545 Score: 599
Period size: 209 Copynumber: 2.0 Consensus size: 212
1112 CAAAGCTCTT
*
1122 CAATCTTTTTGGCGTTGAATTATATATTATGGACGAGTATTGCGGTCAAAAATTGAGGAAAAATC
1 CAATCTTTTTGGCGTTGAATTATATATTATGGACAAGTATTGCGGTCAAAAATTGAGGAAAAATC
1187 TTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATAGTGTATTAACCATCACGATTTTTGGATGA
66 TTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATAGTGTATTAACCATCACGATTTTTGGATGA
* * * * * *
1252 AATCGCGTTCCGGGGCCCCGGCCTGAGTTTTGCATGATTTTTTGGCCATAAGACTCATTGAA-TT
131 AAACGCGTTCCAGGGCCCCGGCCTCAGTTTTGCATGAGTTTTTCGCCATAAGACACATTGAAGTT
*
1316 ATCTGTATTCATCATCC
196 ATCTATATTCATCATCC
* * ** * * *
1333 CAATCTTTTTGGTGTTGAATTATATATTTTTTATAAGTATTGTGGT-TAAAATT--GGAGAAAAT
1 CAATCTTTTTGGCGTTGAATTATATATTATGGACAAGTATTGCGGTCAAAAATTGAGGA-AAAAT
* * * *
1395 CTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTATTGACCATCACGATTTTTGGCTG
65 CTTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATAGTGTATTAACCATCACGATTTTTGGATG
*
1460 AAAACGCGTTACCAAGGGCCCCGG-CTCAGTTTTGCATG-GTTTTTCGCCCTAAGACACATTGAA
130 AAAACGCGTT-CC-AGGGCCCCGGCCTCAGTTTTGCATGAGTTTTTCGCCATAAGACACATTGAA
1523 GTTATCTATATTCATCATCC
193 GTTATCTATATTCATCATCC
1543 CAA
1 CAA
1546 ATTTCAGCTA
Statistics
Matches: 189, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
208 3 0.02
209 96 0.51
210 42 0.22
211 48 0.25
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (212 bp):
CAATCTTTTTGGCGTTGAATTATATATTATGGACAAGTATTGCGGTCAAAAATTGAGGAAAAATC
TTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATAGTGTATTAACCATCACGATTTTTGGATGA
AAACGCGTTCCAGGGCCCCGGCCTCAGTTTTGCATGAGTTTTTCGCCATAAGACACATTGAAGTT
ATCTATATTCATCATCC
Found at i:2055 original size:300 final size:302
Alignment explanation
Indices: 1449--2059 Score: 838
Period size: 300 Copynumber: 2.0 Consensus size: 302
1439 GACCATCACG
* * *
1449 ATTTTTGGCTGAAAACGCGTTACCAAGGGCCCCGGCTCAGTTTTGCATGGTTTTTCGCCCTAAGA
1 ATTTTTGGCTGAAAACGCGTTACCAAGGGCCCCGACACAGTTTTGCATGATTTTTCGCCCTAAGA
** *
1514 CACATTGAAGTTATCTATATTCATCATCCCAAATTTCAGCTACCTTGGATGTAAGGATTTGATTT
66 CACATTGAAGTTATCTATATTCATCATCCCAAAACTCAGCCACCTTGGATGTAAGGATTTGATTT
*
1579 TACGAGCATTTGAATCATGTTTCGATTTAATCGAAAATTAATTCGGAAAAGTTTTAAAAAAATGA
131 TACGAGCATTTGAATCATGTTTCGATTTAATCGAAAATTAATTCGGAAAA--TATAAAAAAATGA
* * * * * * * * * *
1644 TATTAGAAGCGTGGACAGCCCTTCCATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTG
194 TATAAGAAGCATGCAAAGCCCTTCAATCTTTTCGGCGTTGAATCATATATTATTGACGAGTATTG
* * * **
1709 CGGTTAAAAATTGAGGAAAAATCTTTTGGGTCAGTTTTTTCAAA
259 CGGTAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAA
* * *
1753 ATTTTTGGCTGAAAAAACGCGTT-CC-GGGGCCCCGACACAGTTTTGCATGATTTTT-GGCGTCA
1 ATTTTTGGCTG--AAAACGCGTTACCAAGGGCCCCGACACAGTTTTGCATGATTTTTCGCCCT-A
* * * *
1815 AGACTCATTGAA-TTATCCT-TATTCATCATTCCAAAACTCAGCCACGTTGGATTTAAGGATTTG
63 AGACACATTGAAGTTAT-CTATATTCATCATCCCAAAACTCAGCCACCTTGGATGTAAGGATTTG
*
1878 ATTTTACGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAA-ATAAAAAAAT
127 ATTTTACGAGCATTTGAATCATGTTTCGATTTAATCGAAAATTAATTCGGAAAATATAAAAAAAT
* *
1942 GATATAAGAAGCATGCAAAGCCCTTTAATCTTTTCGGCGTTGAATCGTATATTATTGACGAGTAT
192 GATATAAGAAGCATGCAAAGCCCTTCAATCTTTTCGGCGTTGAATCATATATTATTGACGAGTAT
2007 TGCGGTAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAA
257 TGCGGTAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAA
2053 ATTTTTG
1 ATTTTTG
2060 CCGAAATCGT
Statistics
Matches: 271, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
300 110 0.41
303 98 0.36
304 51 0.19
305 2 0.01
306 10 0.04
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (302 bp):
ATTTTTGGCTGAAAACGCGTTACCAAGGGCCCCGACACAGTTTTGCATGATTTTTCGCCCTAAGA
CACATTGAAGTTATCTATATTCATCATCCCAAAACTCAGCCACCTTGGATGTAAGGATTTGATTT
TACGAGCATTTGAATCATGTTTCGATTTAATCGAAAATTAATTCGGAAAATATAAAAAAATGATA
TAAGAAGCATGCAAAGCCCTTCAATCTTTTCGGCGTTGAATCATATATTATTGACGAGTATTGCG
GTAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAA
Found at i:3427 original size:331 final size:331
Alignment explanation
Indices: 1753--4218 Score: 3434
Period size: 334 Copynumber: 7.5 Consensus size: 331
1743 TTTTTTCAAA
* *
1753 ATTTTTGGCTGAAAAAACGCGTTCCGGGGCCCCGACACAGTTTTGCATGATTTTTGGCGTCAAGA
1 ATTTTTGGCTG--AAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGA
*
1818 CTCATTGAATTATCCTTATTCATCATTCCAAAACTCAGCCACGTTGGATTTAAGGATTTGATTTT
64 CTCATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTT
1883 ACGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAAT-AAAAAAATGATAT
129 ACGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATAT
* * * * **
1947 AAGAAGCATGCAAAGCCCTTTAATCTTTTCGGCGTTGAATCGTATATTATTGACGAGTATTGCGG
194 AAGAAGCGTGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTGACGAGTATTGCGG
* *
2012 TAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATCGTGTACTAA
259 TCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTACTAA
2077 CCATCACG
324 CCATCACG
* * * *
2085 ATTTTTGGCTGAAAACGTGTTCCGGAGCCCCGACTCAGTTTTGCATGATTTTCGGAGCCAAGACT
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
* *
2150 CATTGAATTATCCTAATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTCATTTTAC
66 CATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTAC
* * * * * **
2215 GAGCATTTTAATCATGTATCGATTTAATCGGAAATTAATTCGAAAAAATTAAAATAATGATATTT
131 GAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATATAA
* * * *
2280 GAAGCGTGGAAAGCCCTTCACTCTTTTTGGCGTTGAATTATATATTTTTTACGAGTATTGCGGTT
196 GAAGCGTGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTGACGAGTATTGCGGTC
* * *
2345 AAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGTAAAAATTTTGTCGAAATCGTG---T----
261 AAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTACTAACC
2403 ATCACG
326 ATCACG
* * **
2409 ATTTTTGGCTGAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTCGCATCAAGACT
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
* * *
2474 CATTGAATTATCCTTATTCATCATTCTAAATCTTAGCCACGTTGGATTTAAGGATTCGATTTTAC
66 CATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTAC
* * * * **
2539 GACCATATGAATCATGATTCGATTTAATCGGAAATTAAATCGGAAAAAGTTTTTAAAAAATGATA
131 GAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAA---TAAAAAAAATGATA
* * *
2604 TAAGAAGCATGGAAAACCCTTCAATCTTTTTGGCGCTGAATTATATA-TATTTGACGAGTATTGC
193 TAAGAAGCGTGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTA-TTGACGAGTATTGC
* * * *
2668 GGTCAAAAATTTAGAAAAAATCATTCGGGTCAATTTTTGCAAAATTTTTGCCGATATCGTGTACT
257 GGTCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTACT
2733 AACCATCACG
322 AACCATCACG
* * * *
2743 ATTTTTGGCTGAAAACGTGTTTCGGAGCCCCGACTCAGTTTTGCATGATTTTTGGAGCCAAGACT
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
*
2808 CATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTCATTTTAC
66 CATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTAC
* * **
2873 GAGCATTTTAATCATGTATCGATTTAATCGGAAATTAATTCGGAAAAAGTTTTTAAAAAATGATA
131 GAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAA---TAAAAAAAATGATA
* * *
2938 TTAGAAGCGTGGAAAGCCCTTCCATCTTTTTGGCATTGAATTATATA-TATTTGACGAGTATTGC
193 TAAGAAGCGTGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTA-TTGACGAGTATTGC
* * ** *
3002 GGTCAAAAATTTAGGAAAAATCATTCGATTCAATTTTTGCAAAATTTTTGCCGAAATCGTATACT
257 GGTCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTACT
3067 AACCATCACG
322 AACCATCACG
* * *
3077 ATTTTTGGCTGAAAACGCGTTACGGGGCCACGACTCAGTTTTGCATGATTTTTGTCGCCAAGACT
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
* * * *
3142 CATTGAAATAT-CTATATTCATCATCCCAAATCCCAGCCACCTTGGATTTAAGGATTTGATTTTA
66 CATTGAATTATCCT-TATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTA
*
3206 CGAGCATTTGAATCATGTTTCGATTTAATTGGAAATTAATTCGGAAAAATAAAAAAAATGATATA
130 CGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATATA
* *
3271 AGAAGCGTGCAAAGCCCTTCAATCTTTTTGGCGTTGAATCATATATTATTGACGAGTATTGCGGT
195 AGAAGCGTGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTGACGAGTATTGCGGT
* *
3336 CAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAGTTTTTGCCGAAATCGTGTACTAAC
260 CAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTACTAAC
3401 CATCACG
325 CATCACG
* * * *
3408 ATTTTTGGTTGAAAACGCGTTCCGGAGCCCCGACTCAATTTTACATGATTTTTGGCGCCAAGACT
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
* * * *
3473 CATTGAATTATCCTTATTCATCATTCTAAATCTTAGCCATG-TGGATTTAAGGATTCGATTTTAC
66 CATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTAC
* * *
3537 GACCATTTAAATCATGTTTCGATTTAATCGGAAATTAAATCGGAAAAAAATTTAAAAAAAATGAT
131 GAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGG--AAAAA--TAAAAAAAATGAT
* * * *
3602 ATTAGAAGCGTGGAAAACCCTTCAATCTTTTTGGTGCTGAATTATATA-TATTTGACGAGTATTG
192 ATAAGAAGCGTGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTA-TTGACGAGTATTG
* * * ** * * * * *
3666 TGGTCAAAAGTTTAAAAAAAATCATTCGGGTAAATTTTTTCAAAATTTTTGCCGATATCGTATAC
256 CGGTCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTAC
3731 TAACCATCACG
321 TAACCATCACG
* *
3742 ATTTTTGGCTGAAAACGAGTTCCGGGGCTCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
* * * *
3807 CATTGAAATAT-CTATATTCATCATCCCAAATCCCAGCCACCTTGGATTTAAGGATTTGATTTTA
66 CATTGAATTATCCT-TATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTA
3871 CGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATATA
130 CGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATATA
* * * * *
3936 AGAAGTGTGCAAAGCCCTTCAATCTTTTTGCCGTTGAATTATATATTATGGACAAGTATTGCGGT
195 AGAAGCGTGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTGACGAGTATTGCGGT
*
4001 AAAAAATT-ATGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTACTAA
260 CAAAAATTGA-GGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTACTAA
4065 CCATCACG
324 CCATCACG
* * * ** * * *
4073 ATTCTTAGCTGAAAACGCGATCCGGGGCCATGGCTCGGTTTTGCATGATTTTT-GC-CACATGAC
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGC-CAAGAC
* * *
4136 TCATTGAAATAT-C-TA-T--TC---CCAAATCCCAGCCACTTTGGATTTAAGGATTTGATTTTA
65 TCATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTA
4193 CGAGCATTTGAATCATGTTTCGATTT
130 CGAGCATTTGAATCATGTTTCGATTT
Statistics
Matches: 1903, Mismatches: 206, Indels: 60
0.88 0.09 0.03
Matches are distributed among these distances:
322 64 0.03
324 164 0.09
325 2 0.00
326 1 0.00
327 120 0.06
328 3 0.00
329 1 0.00
330 239 0.13
331 518 0.27
332 22 0.01
333 11 0.01
334 696 0.37
335 62 0.03
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (331 bp):
ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
CATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTGATTTTAC
GAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATATAA
GAAGCGTGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTGACGAGTATTGCGGTC
AAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTACTAACC
ATCACG
Found at i:3457 original size:665 final size:664
Alignment explanation
Indices: 1753--4218 Score: 3586
Period size: 665 Copynumber: 3.7 Consensus size: 664
1743 TTTTTTCAAA
* *
1753 ATTTTTGGCTGAAAAAACGCGTTCCGGGGCCCCGACACAGTTTTGCATGATTTTTGGCGTCAAGA
1 ATTTTTGGCTG--AAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGA
* * * * *
1818 CTCATTGAATTATCCTTATTCATCATTCCAAAACTCAGCCACGTTGGATTTAAGGATTTGATTTT
64 CTCATTGAAATATCCTTATTCATCATCCCAAATCCCAGCCACCTTGGATTTAAGGATTTGATTTT
1883 ACGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAAT-AAAAAAATGATAT
129 ACGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATAT
* * *
1947 AAGAAGCATGCAAAGCCCTTTAATCTTTTCGGCGTTGAATCGTATATTATTGACGAGTATTGCGG
194 AAGAAGCATGCAAAGCCCTTCAATCTTTTTGGCGTTGAATCATATATTATTGACGAGTATTGCGG
2012 TAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATCGTGTACTAA
259 TAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATCGTGTACTAA
* *
2077 CCATCACGATTTTTGGCTGAAAACGTGTTCCGGAGCCCCGACTCAGTTTTGCATGATTTTCGGAG
324 CCATCACGATTTTTGGCTGAAAACGCGTTCCGGAGCCCCGACTCAGTTTTGCATGATTTTTGGAG
*
2142 CCAAGACTCATTGAATTATCCTAATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTT
389 CCAAGACTCATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTT
*
2207 CATTTTACGAGCATTTTAATCATGTATCGATTTAATCGGAAATTAATTC-GAAAAA--ATTAAAA
454 CATTTTACGAGCATTTTAATCATGTATCGATTTAATCGGAAATTAATTCGGAAAAATTTTTAAAA
* * *
2269 TAATGATATTTGAAGCGTGGAAAGCCCTT-CACTCTTTTTGGCGTTGAATTATATATTTTTTACG
519 -AATGATATTAGAAGCGTGGAAAGCCCTTCCA-TCTTTTTGGCGTTGAATTATATATATTTGACG
* * * * * *
2333 AGTATTGCGGTTAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGTAAAAATTTTGTCGAAAT
582 AGTATTGCGGTCAAAAATTTAGGAAAAATCATTCGGGTCAATTTTTGCAAAATTTTTGCCGAAAT
*
2398 CG--T-GT----ATCACG
647 CGTATACTAACCATCACG
* * **
2409 ATTTTTGGCTGAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTCGCATCAAGACT
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
* * * ** * *
2474 CATTGAATTATCCTTATTCATCATTCTAAATCTTAGCCACGTTGGATTTAAGGATTCGATTTTAC
66 CATTGAAATATCCTTATTCATCATCCCAAATCCCAGCCACCTTGGATTTAAGGATTTGATTTTAC
* * * * **
2539 GACCATATGAATCATGATTCGATTTAATCGGAAATTAAATCGGAAAAAGTTTTTAAAAAATGATA
131 GAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAA---TAAAAAAAATGATA
* * * *
2604 TAAGAAGCATGGAAAACCCTTCAATCTTTTTGGCGCTGAATTATATA-TATTTGACGAGTATTGC
193 TAAGAAGCATGCAAAGCCCTTCAATCTTTTTGGCGTTGAATCATATATTA-TTGACGAGTATTGC
* * * * * *
2668 GGTCAAAAATTTAGAAAAAATCATTCGGGTCAATTTTTGCAAAATTTTTGCCGATATCGTGTACT
257 GGTAAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATCGTGTACT
* *
2733 AACCATCACGATTTTTGGCTGAAAACGTGTTTCGGAGCCCCGACTCAGTTTTGCATGATTTTTGG
322 AACCATCACGATTTTTGGCTGAAAACGCGTTCCGGAGCCCCGACTCAGTTTTGCATGATTTTTGG
2798 AGCCAAGACTCATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGAT
387 AGCCAAGACTCATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGAT
2863 TTCATTTTACGAGCATTTTAATCATGTATCGATTTAATCGGAAATTAATTCGGAAAAAGTTTTTA
452 TTCATTTTACGAGCATTTTAATCATGTATCGATTTAATCGGAAATTAATTCGGAAAAA-TTTTTA
*
2928 AAAAATGATATTAGAAGCGTGGAAAGCCCTTCCATCTTTTTGGCATTGAATTATATATATTTGAC
516 AAAAATGATATTAGAAGCGTGGAAAGCCCTTCCATCTTTTTGGCGTTGAATTATATATATTTGAC
**
2993 GAGTATTGCGGTCAAAAATTTAGGAAAAATCATTCGATTCAATTTTTGCAAAATTTTTGCCGAAA
581 GAGTATTGCGGTCAAAAATTTAGGAAAAATCATTCGGGTCAATTTTTGCAAAATTTTTGCCGAAA
3058 TCGTATACTAACCATCACG
646 TCGTATACTAACCATCACG
* * *
3077 ATTTTTGGCTGAAAACGCGTTACGGGGCCACGACTCAGTTTTGCATGATTTTTGTCGCCAAGACT
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
3142 CATTGAAATAT-CTATATTCATCATCCCAAATCCCAGCCACCTTGGATTTAAGGATTTGATTTTA
66 CATTGAAATATCCT-TATTCATCATCCCAAATCCCAGCCACCTTGGATTTAAGGATTTGATTTTA
*
3206 CGAGCATTTGAATCATGTTTCGATTTAATTGGAAATTAATTCGGAAAAATAAAAAAAATGATATA
130 CGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATATA
*
3271 AGAAGCGTGCAAAGCCCTTCAATCTTTTTGGCGTTGAATCATATATTATTGACGAGTATTGCGGT
195 AGAAGCATGCAAAGCCCTTCAATCTTTTTGGCGTTGAATCATATATTATTGACGAGTATTGCGGT
* *
3336 CAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAGTTTTTGCCGAAATCGTGTACTAAC
260 AAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATCGTGTACTAAC
* * * *
3401 CATCACGATTTTTGGTTGAAAACGCGTTCCGGAGCCCCGACTCAATTTTACATGATTTTTGGCGC
325 CATCACGATTTTTGGCTGAAAACGCGTTCCGGAGCCCCGACTCAGTTTTGCATGATTTTTGGAGC
* * *
3466 CAAGACTCATTGAATTATCCTTATTCATCATTCTAAATCTTAGCCATG-TGGATTTAAGGA-TTC
390 CAAGACTCATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTC
* * * * **
3529 GATTTTACGACCATTTAAATCATGTTTCGATTTAATCGGAAATTAAATCGGAAAAAAATTTAAAA
455 -ATTTTACGAGCATTTTAATCATGTATCGATTTAATCGGAAATTAATTCGG--AAAAATTTTTAA
* * * *
3594 AAAATGATATTAGAAGCGTGGAAAACCCTTCAATCTTTTTGGTGCTGAATTATATATATTTGACG
517 AAAATGATATTAGAAGCGTGGAAAGCCCTTCCATCTTTTTGGCGTTGAATTATATATATTTGACG
* * ** * * *
3659 AGTATTGTGGTCAAAAGTTTAAAAAAAATCATTCGGGTAAATTTTTTCAAAATTTTTGCCGATAT
582 AGTATTGCGGTCAAAAATTTAGGAAAAATCATTCGGGTCAATTTTTGCAAAATTTTTGCCGAAAT
3724 CGTATACTAACCATCACG
647 CGTATACTAACCATCACG
* *
3742 ATTTTTGGCTGAAAACGAGTTCCGGGGCTCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
1 ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
3807 CATTGAAATAT-CTATATTCATCATCCCAAATCCCAGCCACCTTGGATTTAAGGATTTGATTTTA
66 CATTGAAATATCCT-TATTCATCATCCCAAATCCCAGCCACCTTGGATTTAAGGATTTGATTTTA
3871 CGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATATA
130 CGAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATATA
** * * * *
3936 AGAAGTGTGCAAAGCCCTTCAATCTTTTTGCCGTTGAATTATATATTATGGACAAGTATTGCGGT
195 AGAAGCATGCAAAGCCCTTCAATCTTTTTGGCGTTGAATCATATATTATTGACGAGTATTGCGGT
*
4001 AAAAAATT-ATGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTGTACTAA
260 AAAAAATTGA-GGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATCGTGTACTAA
* * * * ** * *
4065 CCATCACGATTCTTAGCTGAAAACGCGATCCGGGGCCATGGCTCGGTTTTGCATGATTTTT---G
324 CCATCACGATTTTTGGCTGAAAACGCGTTCCGGAGCCCCGACTCAGTTTTGCATGATTTTTGGAG
* * *
4127 CCACATGACTCATTGAAATAT-C-TA-T--TC---CCAAATCCCAGCCACTTTGGATTTAAGGAT
389 CCA-A-GACTCATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGAT
* * *
4184 TTGATTTTACGAGCATTTGAATCATGTTTCGATTT
452 TTCATTTTACGAGCATTTTAATCATGTATCGATTT
Statistics
Matches: 1646, Mismatches: 137, Indels: 53
0.90 0.07 0.03
Matches are distributed among these distances:
654 155 0.09
656 22 0.01
657 45 0.03
658 304 0.18
659 8 0.00
661 116 0.07
662 14 0.01
663 6 0.00
664 74 0.04
665 730 0.44
666 7 0.00
667 2 0.00
668 163 0.10
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (664 bp):
ATTTTTGGCTGAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACT
CATTGAAATATCCTTATTCATCATCCCAAATCCCAGCCACCTTGGATTTAAGGATTTGATTTTAC
GAGCATTTGAATCATGTTTCGATTTAATCGGAAATTAATTCGGAAAAATAAAAAAAATGATATAA
GAAGCATGCAAAGCCCTTCAATCTTTTTGGCGTTGAATCATATATTATTGACGAGTATTGCGGTA
AAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTTGCCGAAATCGTGTACTAACC
ATCACGATTTTTGGCTGAAAACGCGTTCCGGAGCCCCGACTCAGTTTTGCATGATTTTTGGAGCC
AAGACTCATTGAATTATCCTTATTCATCATTCCAAATCTCAGCCACGTTGGATTTAAGGATTTCA
TTTTACGAGCATTTTAATCATGTATCGATTTAATCGGAAATTAATTCGGAAAAATTTTTAAAAAA
TGATATTAGAAGCGTGGAAAGCCCTTCCATCTTTTTGGCGTTGAATTATATATATTTGACGAGTA
TTGCGGTCAAAAATTTAGGAAAAATCATTCGGGTCAATTTTTGCAAAATTTTTGCCGAAATCGTA
TACTAACCATCACG
Done.