Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01006137.1 Corchorus capsularis cultivar CVL-1 contig06155, 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: 16137
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:6878 original size:56 final size:56
Alignment explanation
Indices: 6792--6905 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
6782 CGTGTAGAGT
6792 ATTCACTTCTGCAGATTATCCAATGGTCAGGATTTCTCTAATGCTTTCCTTTCAAA
1 ATTCACTTCTGCAGATTATCCAATGGTCAGGATTTCTCTAATGCTTTCCTTTCAAA
6848 ATTCACTTCTGCAGATTATCCAATGGTCAGGATTTCTCTAATGCTTTCCTTTCAAA
1 ATTCACTTCTGCAGATTATCCAATGGTCAGGATTTCTCTAATGCTTTCCTTTCAAA
6904 AT
1 AT
6906 ACCGTTGATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (56 bp):
ATTCACTTCTGCAGATTATCCAATGGTCAGGATTTCTCTAATGCTTTCCTTTCAAA
Found at i:10452 original size:23 final size:24
Alignment explanation
Indices: 10407--10453 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
10397 AGTTCAGCTC
*
10407 AACAAGTTTGATTACAGACTTGCA
1 AACAAGTTGGATTACAGACTTGCA
*
10431 AACAAGTTGGA-TACAGATTTGCA
1 AACAAGTTGGATTACAGACTTGCA
10454 GAAATTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (24 bp):
AACAAGTTGGATTACAGACTTGCA
Found at i:11290 original size:3 final size:3
Alignment explanation
Indices: 11284--11310 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11274 ATTATTATTT
11284 TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG
11311 AAGGGGGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:14361 original size:324 final size:324
Alignment explanation
Indices: 12936--16137 Score: 3066
Period size: 323 Copynumber: 9.8 Consensus size: 324
12926 TATTAACCTC
* * * * *
12936 AAAAGATTTTTCCTCAA-TTTTTGGCAAAAAATCTCATAAAATATATATAATTCAACGCCA-AAA
1 AAAAG-TTTTTCCTCAATTTTTTGCCACAATA-CTCAGAAAAAATATATAATTCAACGCCAGAAA
** ** * *
12999 GGGTTGAAGGACTTTTCAAGCTTC-AAGTATCGTTTTT-ATATTTTTTTTTCCGAATTTATTTCT
64 -AATTGAAGGGTTTTTCACGCTTCTAA-TATCGTTTTTCAT-TTTTTCTTTCCGAATTTATTTCT
*
13062 AATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAAT-CAATTGTGGCTGAGA
126 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA-TGTGGCTGAGA
* * * * * * *
13126 TTTGGTCAGATAAATATCGATATTTCAAGGAGTCTTTCT-TCCAAAAATCGTGCAAAACTGAGTC
190 TTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGT-CAAAAACCATGCAAAATTGAGTC
* * * *
13190 GGGGCCCCGAAACGCCTTTTTAGCCAAAAACC--G-T-G--A-TACATGATTTCGG-TTAAAACT
254 GAGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACT
*
13247 AACCCG
319 GACCCG
* *
13253 AAAAGTTTTT-CTCAATTTTTTTTGCCGCAATACTCAGAAAAGATATATAATTCAACGCC-GAAA
1 AAAAGTTTTTCCTCAA--TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAGAAA
* * * * * *
13316 ACACTGACGAG-TTTTCACGCTTCTAATATCGTTTTTCCA---TTT-TTTCCTAAATAATTTCTA
64 A-ATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTT-CATTTTTTCTTTCCGAATTTATTTCTA
* * * ** ** *
13376 ATT-AATCGGAACAAGATTAAGATCCTTATAAAAACAAATCCTTGTATCCAATGTGGCTAAGATT
127 ATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATT
* * * **
13440 TGGTTCGATGAATAAAGATATTTTAAGGAG-CTTT-TGCGTCAAAAATTATGCAAAATTGAGTCG
192 TGGTTAGATGAATATAGATATTTCAAGGAGTCTTTAT--GTCAAAAACCATGCAAAATTGAGTCG
* * * * *
13503 GGGCTCTGGAACGTGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCCAAAATTTT
255 AGGCCCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGG-C-------T
*
13568 GCAAAAGCTGACCCG
312 --AAAAACTGACCCG
* *
13583 AAAAGCTTTTTCCTCAATTTTTTACCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAA
1 AAAAG-TTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAGAAAA
* * * * *
13648 ATTGAAGGGTTTCTCACGCTTCTAATATCGTTTTCCCATTTTTTC---CCAAATTAATTTATAAT
65 ATTGAAGGGTTTTTCACGCTTCTAATATCGTTTT-TCATTTTTTCTTTCCGAATTTATTTCTAAT
* * * *
13710 TAAAT-GCAAACAAGATTCAGATACCCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGAATT
129 TAAATCG-AAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTT
* * * * ** * * *
13774 GGTTCGATGAATAGAAATATTTCAAGGATTCTTTGCGTCAAAAATCATGCAAAATTGAGCCGGGG
193 GGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAATTGAGTCGAGG
* * * * * * *
13839 CTCC-AGAATGCGTTTATAGCCAAGAACCGTGATTACACGATTTAAGCTA-A-AATTT-TGC-AA
258 CCCCGA-AACGCGTTTTTAGCCAAAAACCGTGA-T----G-GTT-AG-TACACGATTTCGGCTAA
*
13899 AAACTAACCCG
314 AAACTGACCCG
*
13910 AAATGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAGAAACA
1 AAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAGAAA-A
* * * * *
13975 A-TGAAGGGTTTTTCACGCTTCTAAGATCGTTATTCATATTTT-TTCCCAAATTTATTTCTAATT
65 ATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCATTTTTTCTTTCCGAATTTATTTCTAATT
* * * * * *
14038 AAATTGAAATAAGATTTAGATGCTCATAAAAAGAAATCCTTAAATCCAATGTGGCCGAGATTTGG
130 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
* * * * *
14103 TTAGATAAATATATACATTTCAAGGAGTCTTTATGTAAAAAACCATAGCAAAACTGAGTCGAGGC
195 TTAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAACCAT-GCAAAATTGAGTCGAGGC
* * *
14168 CCCGAAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAATTGCCCC
259 CCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCC
14233 G
324 G
* * *
14234 AAAAGTTTTTCCTCAATTTTTTGCCACATTACACA-AAAAAAAATATAATT-ATACGCCAGAAAA
1 AAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCA-ACGCCAGAAAA
* *
14297 ATTCAAGGGTTTTTCACGCTTCTAAGATCGTTTTTCATTTTTTCTTTCCGAATTTATTTCTAATT
65 ATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCATTTTTTCTTTCCGAATTTATTTCTAATT
*
14362 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTCAATCCAATGTGGCTGAGATTTGG
130 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
* * * *
14427 TTAAGATGAATATAGATATTTTAAGGAGTCATTATGTCGAAAACCATGCAAAACTGAGTCGAGGC
195 TT-AGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAATTGAGTCGAGGC
* * * *
14492 CCCGAAACGCATTTCTAGCCAAAAACCGTGATGGTTAATACACGATTTTGGCTAAAAACTGACCC
259 CCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCC
14557 G
324 G
*** * * * * * *
14558 AATTTTTTTTTCTCAATTTTTTGTCACAAAACACATAAAAAATATACAATTCAACGCCA-AAAAA
1 AAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAGAAAAA
* *
14622 TTGAAGGATTTTTCACGCTTCTAATATTGTTTTTCATATTTTTC--TCCGAATTTATTTCTAATT
66 TTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCAT-TTTTTCTTTCCGAATTTATTTCTAATT
* * * * * *
14685 AAAACGACACAAGATTCAGATGCTCGTACAAACAAATCCATAAAT-CAATTGTCGCTGAGATTTT
130 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAA-TGTGGCTGAGATTTG
* * * *
14749 GTTAGATGCATATCGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAAGTGAG-CTTAGG
194 GTTAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAATTGAGTC-GAGG
* ** * * *
14813 CCTCGAAA-GACGTTTTTAGTAAAAAAACCGTGATGATTAGTACACAATTTCGTCTAAAAACTGA
258 CCCCGAAACG-CGTTTTTAG-CCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGA
14877 CCCG
321 CCCG
* * * *
14881 AAAAGTATTTTCCTCAATTTTTTGCCACAATACTAAGGAAAAA-ATATAATTCAACGCTAAAAAA
1 AAAAGT-TTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC-CAGAAA
* * * * *
14945 AATTGAAGGGTTTTTCACGTTTCTAATATCGTTTTCCCA-TTTTT-TTCCCGAATTAATTTATAA
64 AATTGAAGGGTTTTTCACGCTTCTAATATCGTTTT-TCATTTTTTCTTTCCGAATTTATTTCTAA
* * *
15008 TTAAAT-GCAAACAAGATTCAGATTCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGAAT
128 TTAAATCG-AAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATT
* * **** ** *
15072 TGGTTTGATGAATATAGATATTTCAAGAAGTCTTTGCACCAAAAATTATGCAAAATTGAGCCG-G
192 TGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAATTGAGTCGAG
* * * * * *
15136 GGCTC-AAGGACGCATTTTTCGCCAAAAACCATGATGGTGTTAGTACACGATTTCGACTAAAATT
257 GCCCCGAA--ACGCGTTTTTAGCCAAAAACCGTGAT-G-GTTAGTACACGATTTCGGCT---A--
* *
15200 TTGCAAAAGCTAACTCG
313 ----AAAA-CTGACCCG
** * *
15217 AAATTTTTTTTCTCAATTTTTTGCCACAATACTCATG-AAAAATATATAATTCAATGCCAGAAAA
1 AAAAGTTTTTCCTCAATTTTTTGCCACAATACTCA-GAAAAAATATATAATTCAACGCCAGAAAA
* * ** * *
15281 TTTGAAGGTTTTTTCACGCTTCTAATATCGTCTTCCCATTTTTTC---CCGAATTAATTTATAAT
65 ATTGAAGGGTTTTTCACGCTTCTAATATCGT-TTTTCATTTTTTCTTTCCGAATTTATTTCTAAT
* * * * * *
15343 TAAAT-GCAAACAAGATTAAGATGAC-CGTAAAAACAAATTCTTATATCGAATGTGGTTGAGAAT
129 TAAATCG-AAACAAGATTCAGATG-CTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATT
* * * * * * * * *
15406 TGGTTCGATGAATATAGATATTTGAAGGATTCTTTGTGCCAAAAATCATGGAAAATTGAGTTGGG
192 TGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAATTGAGTCGAG
* * * * *
15471 GCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATAACACGATTTCAGCTA-A-AATTT-TGC-AA
257 GCCCCGAAACGCGTTTTTAGCCAAAAACCGTGAT-----G-GTT-AG-TACACGATTTCGGCTAA
*
15532 AAACTGCCCCG
314 AAACTGACCCG
* * *
15543 AAAAGTTTTTCCTCAATTTTTTGGCACAATTCTCATAAAAAATATATAATTCAACGCCAGAAAAA
1 AAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAGAAAAA
* * * *
15608 TTGAAGGGTTTTTCACTCTTTTAAGATCGTTTTTCA-TATTT-TTTCTCGAATTTATTTCTAATT
66 TTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCATTTTTTCTTTC-CGAATTTATTTCTAATT
* * * *
15671 AAATCAAAACAAGAGTCAGATACTCGTAAAACCAAATCCTTAAATCCAATGTGGCTGAGATTTGG
130 AAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
* * * **
15736 TTAGATAAATATAGATATTTAAAGGAATCTTTATGTCAAAAACCATGCAAAATTGAGTCGAGGTT
195 TTAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAATTGAGTCGAGGCC
* * *
15801 CCGAAACACGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGACTTCGGCTAGAAACTGACCCG
260 CCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCG
*** * *
15866 TAATTTTTTTTTCTCAATTTTTTGCCACAATACTCCTAAAAAAAATCA-ATAATTCAACGCCA-A
1 -AAAAGTTTTTCCTCAATTTTTTGCCACAATACT-C-AGAAAAAAT-ATATAATTCAACGCCAGA
* * * * *
15929 AAAGATTGCAGGGTCTTTCACACTTC---TATCGTTTTTCA-TTTTTCTTTTCAAATTTATTTCT
62 AAA-ATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCATTTTTTCTTTCCGAATTTATTTCT
* * *
15990 AATTAAATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTGAAT-CAGTTGTGGCTGAGA
126 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCA-ATGTGGCTGAGA
* * * * *
16054 TTTGGTTAGAAGACTATAGATATTTCAAGGAGTCTTTACGTCAAAAACTATGCAAAACTGAGTCG
190 TTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAATTGAGTCG
16119 AGGCCCCGAAACGCGTTTT
255 AGGCCCCGAAACGCGTTTT
Statistics
Matches: 2395, Mismatches: 360, Indels: 254
0.80 0.12 0.08
Matches are distributed among these distances:
310 1 0.00
311 4 0.00
312 119 0.05
313 22 0.01
314 4 0.00
315 6 0.00
316 27 0.01
317 39 0.02
318 12 0.01
319 14 0.01
320 5 0.00
321 10 0.00
322 83 0.03
323 366 0.15
324 352 0.15
325 234 0.10
326 239 0.10
327 279 0.12
328 41 0.02
329 2 0.00
330 60 0.03
331 34 0.01
332 21 0.01
333 129 0.05
334 157 0.07
335 76 0.03
336 32 0.01
337 2 0.00
338 9 0.00
339 9 0.00
340 5 0.00
341 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (324 bp):
AAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAGAAAAA
TTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCATTTTTTCTTTCCGAATTTATTTCTAATTA
AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
TAGATGAATATAGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAATTGAGTCGAGGCCC
CGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCG
Found at i:15823 original size:661 final size:650
Alignment explanation
Indices: 12936--16137 Score: 2877
Period size: 647 Copynumber: 4.9 Consensus size: 650
12926 TATTAACCTC
* * * * * *
12936 AAAAGATTTTTCCTCAA-TTTTTGGCAAAAAATCTCATAAAATATATATAATTCAACGCCAAAAG
1 AAAAG-TTTTTCCTCAATTTTTTGCCACAATA-CTCAGAAAAAATATATAATTCAACGCCAAAAA
** ** * * * * *
13000 GGTTGAAGGACTTTTCAAGCTTC-AAGTATCGTTTTTATATTTTTTTTTCCGAATTTATTTCTAA
64 AATTGAAGGGTTTTTCACGCTTCTAAG-ATCGTTTTT-CA-TTTTTTTCCCGAATTAATTTATAA
* * *
13064 TTAAAT-CGAAACAAGATTCTGATGCTCGTAAAAACAAATCCTTAAAT-CAATTGTGGCTGAGAT
126 TTAAATGC-AAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAA-TGTGGCTGAGAA
* * * * * * * * *
13127 TTGGTCAGATAAATATCGATATTTCAAGGAGTCTTT-CTTCCAAAAATCGTGCAAAACTGAGTCG
189 TTGGTTAGATGAATATAGATATTTCAAGGAATCTTTACGT-CAAAAACCATGCAAAATTGAGCCG
* * * * *
13191 GGGCCCCGAAACGCCTTTTTAGCCAAAAACC--G-T-G--A-TACATGATTTCG--------GTT
253 AGGCTCC-AAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGACTAAAATTTT
** *
13241 --AAAACTAACCCGAAA-AGTTTTTCTCAATTTTTTTTGCCGCAATACTCAGAAAAGATATATAA
317 GCAAAACTAACCCGAAATTTTTTTTCTCAA--TTTTTTGCCACAATACTCAGAAAA-ATATATAA
* * * *
13303 TTCAACGCC-GAAAACACTGACGAG-TTTTCACGCTTCTAATATCGTTTTTCCATTTTTT-CCTA
379 TTCAACGCCAGAAAA-ATTGAAG-GTTTTTCACGCTTCTAATATCG-TTTCCCATTTTTTCCCGA
* * * * **
13365 AATAATTTCTAATT-AAT-CGGAACAAGATTAAGATCCTTATAAAAACAAATCCTTGTATCCAAT
441 ATTAATTTCTAATTAAATGCGAAACAAGATTAAGATGCTCATAAAAACAAATCCTTAAATCCAAT
* * * * **
13428 GTGGCTAAGATTTGGTTCGATGAATAAAGATATTTTAAGGAG-CTTT-TGCGTCAAAAATTATGC
506 GTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGC--CAAAAACCATGC
* * *
13491 AAAATTGAGTCGGGGCTCTGGAACGTGTTTTTAGCCAAAAACCGTGATG-GTTAGTACACGATTT
569 AAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTTAGT--AC-A---
*
13555 CGGCCAAAATTTTGC-AAAAGCTGACCCG
628 ----C--AATTTTGCTAAAAACTGACCCG
*
13583 AAAAGCTTTTTCCTCAATTTTTTACCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAA
1 AAAAG-TTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAA
* * * *
13648 ATTGAAGGGTTTCTCACGCTTCTAATATCGTTTTCCCA-TTTTTTCCCAAATTAATTTATAATTA
65 ATTGAAGGGTTTTTCACGCTTCTAAGATCGTTTT-TCATTTTTTTCCCGAATTAATTTATAATTA
* *
13712 AATGCAAACAAGATTCAGATACCCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGAATTGGT
129 AATGCAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAATTGGT
* * * * * * *
13777 TCGATGAATAGAAATATTTCAAGGATTCTTTGCGTCAAAAATCATGCAAAATTGAGCCGGGGCTC
194 TAGATGAATATAGATATTTCAAGGAATCTTTACGTCAAAAACCATGCAAAATTGAGCCGAGGCTC
* * * * *
13842 CAGAATGCGTTTATAGCCAAGAACCGTGA----T--TACACGATTT-AAGCTAAAATTTTGCAAA
259 CA-AACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGA-CTAAAATTTTGC-AA
* *
13900 AACTAACCCGAAATGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAC
321 AACTAACCCGAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAATTCAAC
* ** * *
13965 GCCAGAAACAA-TGAAGGGTTTTTCACGCTTCTAAGATCGTTATTCATATTTTTTCCCAAATTTA
385 GCCAGAAA-AATTGAA-GGTTTTTCACGCTTCTAATATCG-T-TTCCCATTTTTTCCCGAATTAA
* * * *
14029 TTTCTAATTAAAT-TGAAATAAGATTTAGATGCTCATAAAAAGAAATCCTTAAATCCAATGTGGC
446 TTTCTAATTAAATGCGAAACAAGATTAAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGC
* * * * ** *
14093 CGAGATTTGGTTAGATAAATATATACATTTCAAGGAGTCTTTATGTAAAAAACCATAGCAAAACT
511 TGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGCCAAAAACCAT-GCAAAATT
* * * * * * *
14158 GAGTCGAGGCCCCGAAACGCATTTTTAGCCAAAAACCGTGATG-GTTAGTACACGATTTCGGCTA
575 GAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTTAGTACACAATTT-TGCTA
* *
14222 AAAATTGCCCCG
639 AAAACTGACCCG
* * * *
14234 AAAAGTTTTTCCTCAATTTTTTGCCACATTACACA-AAAAAAAATATAATT-ATACGCCAGAAAA
1 AAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCA-ACGCCAAAAAA
* * * *
14297 ATTCAAGGGTTTTTCACGCTTCTAAGATCGTTTTTCATTTTTTCTTTCCGAATTTATTTCTAATT
65 ATTGAAGGGTTTTTCACGCTTCTAAGATCGTTTTTCA-TTTTT-TTCCCGAATTAATTTATAATT
* * *
14362 AAAT-CGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTCAATCCAATGTGGCTGAGATTTG
128 AAATGC-AAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAATTG
* * * * * * *
14426 GTTAAGATGAATATAGATATTTTAAGGAGTCATTATGTCGAAAACCATGCAAAACTGAGTCGAGG
192 GTT-AGATGAATATAGATATTTCAAGGAATCTTTACGTCAAAAACCATGCAAAATTGAGCCGAGG
* * * * *
14491 CCCCGAAACGCATTTCTAGCCAAAAACCGTGATGGTTAATACACGATTTTGGCT---A------A
256 CTCC-AAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGACTAAAATTTTGCA
* * * * * * *
14547 AAACTGACCCGAATTTTTTTTTCTCAATTTTTTGTCACAAAACACATAAAAAATATACAATTCAA
320 AAACTAACCCGAAATTTTTTTTCTCAATTTTTTGCCACAATACTCA-GAAAAATATATAATTCAA
* ** *
14612 CGCCA-AAAAATTGAAGGATTTTTCACGCTTCTAATATTGTTTTTCATATTTTTCTCCGAATTTA
384 CGCCAGAAAAATTGAAGG-TTTTTCACGCTTCTAATATCGTTTCCCAT-TTTTTC-CCGAATTAA
* * * * * * *
14676 TTTCTAATTAAA-ACGACACAAGATTCAGATGCTCGTACAAACAAATCCATAAAT-CAATTGTCG
446 TTTCTAATTAAATGCGAAACAAGATTAAGATGCTCATAAAAACAAATCCTTAAATCCAA-TGTGG
* * * * *
14739 CTGAGATTTTGTTAGATGCATATCGATATTTCAAGGAGTCTTTATGTCAAAAACCATGCAAAAGT
510 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGCCAAAAACCATGCAAAATT
** * * ** *
14804 GAGCTTAGGCCT-C-GAAAGACGTTTTTAGTAAAAAAACCGTGATGA-TTAGTACACAATTTCGT
575 GAG-TCGGGGCTCCGGAACG-CGTTTTTAG-CCAAAAACCGTGATGATTTAGTACACAATTTTG-
14866 CTAAAAACTGACCCG
636 CTAAAAACTGACCCG
* * *
14881 AAAAGTATTTTCCTCAATTTTTTGCCACAATACTAAGGAAAAA-ATATAATTCAACGCTAAAAAA
1 AAAAGT-TTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC-CAAAAA
* * *
14945 AATTGAAGGGTTTTTCACGTTTCTAATATCGTTTTCCCATTTTTTTCCCGAATTAATTTATAATT
64 AATTGAAGGGTTTTTCACGCTTCTAAGATCGTTTT-TCATTTTTTTCCCGAATTAATTTATAATT
* *
15010 AAATGCAAACAAGATTCAGATTCTCGTAAAAACAAATCCTTATATCCAATGTGGCTGAGAATTGG
128 AAATGCAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAATTGG
* * ** ** *
15075 TTTGATGAATATAGATATTTCAA-GAAGTCTTTGCACCAAAAATTATGCAAAATTGAGCCGGGGC
193 TTAGATGAATATAGATATTTCAAGGAA-TCTTTACGTCAAAAACCATGCAAAATTGAGCCGAGGC
* *
15139 T-CAAGGACGCATTTTTCGCCAAAAACCATGATGGTGTTAGTACACGATTTCGACTAAAATTTTG
257 TCCAA--ACGCATTTTTAGCCAAAAACCGTGAT-G-GTTAGTACACGATTTCGACTAAAATTTTG
*
15203 CAAAAGCTAACTCGAAATTTTTTTTCTCAATTTTTTGCCACAATACTCATGAAAAATATATAATT
318 CAAAA-CTAACCCGAAATTTTTTTTCTCAATTTTTTGCCACAATACTCA-GAAAAATATATAATT
* *
15268 CAATGCCAGAAAATTTGAAGGTTTTTTCACGCTTCTAATATCGTCTTCCCATTTTTTCCCGAATT
381 CAACGCCAGAAAAATTGAAGG-TTTTTCACGCTTCTAATATCGT-TTCCCATTTTTTCCCGAATT
* * * * *
15333 AATTTATAATTAAATGC-AAACAAGATTAAGATGAC-CGTAAAAACAAATTCTTATATCGAATGT
444 AATTTCTAATTAAATGCGAAACAAGATTAAGATG-CTCATAAAAACAAATCCTTAAATCCAATGT
* * * * * * * *
15396 GGTTGAGAATTGGTTCGATGAATATAGATATTTGAAGGATTCTTTGTGCCAAAAATCATGGAAAA
508 GGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGCCAAAAACCATGCAAAA
*
15461 TTGAGTTGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATAACACGATTTCAGCTA-A-AA
573 TTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGAT-----GATTT-AG-TACACAA
*
15524 TTTTGC-AAAAACTGCCCCG
631 TTTTGCTAAAAACTGACCCG
* * * *
15543 AAAAGTTTTTCCTCAATTTTTTGGCACAATTCTCATAAAAAATATATAATTCAACGCCAGAAAAA
1 AAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAAA
* * * * *
15608 TTGAAGGGTTTTTCACTCTTTTAAGATCGTTTTTCATATTTTTTCTCGAATTTATTTCTAATTAA
66 TTGAAGGGTTTTTCACGCTTCTAAGATCGTTTTTCAT-TTTTTTCCCGAATTAATTTATAATTAA
* * *
15673 AT-CAAAACAAGAGTCAGATACTCGTAAAACCAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
130 ATGC-AAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAATTGGT
* * * * *
15737 TAGATAAATATAGATATTTAAAGGAATCTTTATGTCAAAAACCATGCAAAATTGAGTCGAGGTTC
194 TAGATGAATATAGATATTTCAAGGAATCTTTACGTCAAAAACCATGCAAAATTGAGCCGAGGCTC
* * * *
15802 CGAAACACGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGACTTCGGCT---A----G--AAA
259 C-AAACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGACTAAAATTTTGCAAAA
* * *
15858 CTGACCCGTAATTTTTTTTTCTCAATTTTTTGCCACAATACTCCTA-AAAAAAATCAATAATTCA
323 CTAACCCG-AAATTTTTTTTCTCAATTTTTTGCCACAATACT-C-AGAAAAATAT--ATAATTCA
* * * ** ** *
15922 ACGCCA-AAAAGATTGCAGGGTCTTTCACACTTC---TATCGTTTTTCATTTTTCTTTTCAAATT
383 ACGCCAGAAAA-ATTG-AAGGTTTTTCACGCTTCTAATATCGTTTCCCA-TTTT-TTCCCGAATT
* * * * * *
15983 TATTTCTAATTAAAT-CGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTGAAT-CAGTTGT
444 AATTTCTAATTAAATGCGAAACAAGATTAAGATGCTCATAAAAACAAATCCTTAAATCCA-ATGT
* * * * *
16046 GGCTGAGATTTGGTTAGAAGACTATAGATATTTCAAGGAGTCTTTACGTCAAAAACTATGCAAAA
508 GGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGCCAAAAACCATGCAAAA
* * * *
16111 CTGAGTCGAGGCCCCGAAACGCGTTTT
573 TTGAGTCGGGGCTCCGGAACGCGTTTT
Statistics
Matches: 2101, Mismatches: 337, Indels: 231
0.79 0.13 0.09
Matches are distributed among these distances:
644 1 0.00
645 154 0.07
646 52 0.02
647 320 0.15
648 198 0.09
649 143 0.07
650 207 0.10
651 98 0.05
652 103 0.05
653 4 0.00
654 2 0.00
655 1 0.00
656 42 0.02
657 46 0.02
658 54 0.03
659 212 0.10
660 132 0.06
661 276 0.13
662 38 0.02
663 5 0.00
664 8 0.00
665 3 0.00
666 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (650 bp):
AAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAAA
TTGAAGGGTTTTTCACGCTTCTAAGATCGTTTTTCATTTTTTTCCCGAATTAATTTATAATTAAA
TGCAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAATTGGTTA
GATGAATATAGATATTTCAAGGAATCTTTACGTCAAAAACCATGCAAAATTGAGCCGAGGCTCCA
AACGCATTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGACTAAAATTTTGCAAAACTA
ACCCGAAATTTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAATATATAATTCAACGCCAGA
AAAATTGAAGGTTTTTCACGCTTCTAATATCGTTTCCCATTTTTTCCCGAATTAATTTCTAATTA
AATGCGAAACAAGATTAAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGG
TTAGATGAATATAGATATTTCAAGGAGTCTTTATGCCAAAAACCATGCAAAATTGAGTCGGGGCT
CCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTTAGTACACAATTTTGCTAAAAACTGACCCG
Done.