Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010514.1 Corchorus capsularis cultivar CVL-1 contig10535, 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: 2917
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Found at i:942 original size:322 final size:320
Alignment explanation
Indices: 86--2917 Score: 3530
Period size: 322 Copynumber: 8.8 Consensus size: 320
76 TTTTTATCCA
* * * * * ** *
86 AAATTGTGTACTAACTATCACGATTTTTTGTTAGAAACGCGTTTCGGGGGC-CCTTCCCAGTTTT
1 AAATCGTGTACTAACCATCACGGTTTTTGGCTA-AAACGCGTTTC-GGGGCTCCGGCTCAGTTTT
* *
150 GCATGATTTTTGGCAGAAAGACTCCTTTAAATATCTATATTCATCTAACCAAATCTCAGTCGCAA
64 GCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAA
* * * * *
215 TGGATTTAAGGTTTTGTTTTTACGTGCATATGAATCTTGTTTCGATTTAATTTAAAAGAAATTCG
129 TGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATTCG
280 AAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGAATTAT
194 AAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGAATTAT
* * *
345 ATATTTTTTCTAAATATTTTCCGAAAAAATTGAGAAAAACTCTTCGGGTCAGATTTTAGTTG
259 ATATTTTTTCTGAATATTTTCCGGAAAAATTGAGAAAAACTCTTCGGGTCAGATTTTAGCTG
* * **
407 AAATCGTGTACTAAAACATCACTGCTTTTTGGCTAGAAACGCGTTTCGGGGGC-CCTTCTCAGTT
1 AAATCGTGTACT-AACCATCAC-GGTTTTTGGCTA-AAACGCGTTTC-GGGGCTCCGGCTCAGTT
* * *
471 TTGCATGATTTTTTGCAGAAAGACTCCTTTAAATATCTATATTCATCTAATCAAATCTCAGTCAC
62 TTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCAC
* * *
536 AACGGATTTAAGGATTTGTTTTTAAAAGCGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAA
127 AATGGATTTAAGGATTTGTTTTT--ACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAA
* * * * *
601 TTCG-AAAAATATGAAAAAACGATATTAGAAGCGTGAAAAACCCACCAATCTTTTTAGCATTGGA
190 TTCGAAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGAA
* * *
665 TTATATATTTTTCCTCAATATTTTCCGGAAAAATTGAGAAAAACTCTTTGGGTCAGATTTTAGCT
255 TTATATATTTTTTCTGAATATTTTCCGGAAAAATTGAGAAAAACTCTTCGGGTCAGATTTTAGCT
730 G
320 G
* * * * *
731 AAATAGTGTACTAACCATCACGGTTTTTGGCGTAAAACGCGTTTCGAGGATCCGGCTCTGTGTTG
1 AAATCGTGTACTAACCATCACGGTTTTTGGC-TAAAACGCGTTTCGGGGCTCCGGCTCAGTTTTG
* * * *
796 CATGATTTTTGGCAGAACGACTCCTTGAATTATCTATATTCATCTAACCAAATCTCAGTCATAAC
65 CATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAAT
*
861 GGATTTAAGGATTTGTTTTTACGAGGATCTGAATCTTGTTTCGATTTAATTTGAAATAAATTCGA
130 GGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATTCGA
* *
926 AAAAAATATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCACTTTTTTTGGCGTTGAATTAT
195 AAAAAA-ATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGAATTAT
* * * *
991 AT-TTTTTTTTGAATATTTTACAGAGAAATTGAGAAAAACTCTTCGGGTCAGATTTTAGCTG
259 ATATTTTTTCTGAATATTTTCCGGAAAAATTGAGAAAAACTCTTCGGGTCAGATTTTAGCTG
* * * *
1052 AAATCGTGTATGTTAACCATCACAGTTTTTGGCTTAAAATGCGTTTCGGGGCTCCAGCTCTA-TT
1 AAATCGTGTA--CTAACCATCACGGTTTTTGGC-TAAAACGCGTTTCGGGGCTCCGGCTC-AGTT
* * * *
1116 TTGCATAATTTTTGGCAGAATGACTCCTTGAAAAATCTATATTCATCTAACCAAATCTCAGTCAT
62 TTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCAC
** * *
1181 AACAGATTTAAGGATTTGTTTTTACGAGCATCTGAATGTTATTTCGATTTAATTTGAAATAAATT
127 AATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATT
*
1246 CGAAAAAAAAAATGAAAAAAACGATAATT-GAAGAGTGAAAAACCCATCAATCTTTTTGGCGTTG
192 CG--AAAAAAAATG-AAAAAACGAT-ATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTG
* * *
1310 AATTATATATTTTTTCTGAATATTTTCCAGAAAAATTGAGAAAAACTCTTCGCGTCAGTTTTTAG
253 AATTATATATTTTTTCTGAATATTTTCCGGAAAAATTGAGAAAAACTCTTCGGGTCAGATTTTAG
*
1375 TTG
318 CTG
** * * * * * *
1378 AAATCGTGTACTAACCATCACAATTTTTGGCTAAAAACACGTTTTGGGGATCCAGCTCTGTTTTA
1 AAATCGTGTACTAACCATCACGGTTTTTGGCT-AAAACGCGTTTCGGGGCTCCGGCTCAGTTTTG
* * * *
1443 CATGATTTTTGACAGAAAGACTCCTTGAAATATGTATTTTCATCTAACCAAATCTCAATCACAAT
65 CATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAAT
* * *
1508 GGATTTAAGGATTTGTTTTTACGAGCATCGGAATCGTGTTACGATTTAATTTGAAATAAATTCG-
130 GGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATTCGA
* * * *
1572 ----AAA--AAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGTGGTGAATTATA
195 AAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGAATTATA
* * * * * * * *
1631 TA-TTTTTCTG-A-ATGTTCTGTATAAAATTGGGAAAAAAGCTTTTCGAGTTA-ATTTTTTGCCT
260 TATTTTTTCTGAATATTTTCCGGA-AAAATTGAG-AAAAA-CTCTTCGGGTCAGA-TTTTAG-CT
1692 -
320 G
* * *
1692 ATATCGTGTACTAACCATCACGGTTTTTGGCTAGAAACGCGTTTCGGGGC-CCTTGCTCAGTGTT
1 AAATCGTGTACTAACCATCACGGTTTTTGGCTA-AAACGCGTTTCGGGGCTCC-GGCTCAGTTTT
*
1756 GCATGATTTTTGGCAGAAAGACTCCTTTAAATATCTATATTCATCTAACCAAATCTCAGTCACAA
64 GCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAA
** **
1821 AAGATTTAAGGATTTGTTTTTACGAATATCTGAATCTTGTTTCGATTTAATTTGAAATAAATTCG
129 TGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATTCG
1886 AAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAA-CCATCAATCTTTTTGGCGTTGAATTAT
194 AAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGAATTAT
* *
1950 ATATTTTTTCTGAATATTTT-CGAGAGAAATTGAGAAAAACTCTTCGGGTCAGTTTTTAGCTG
259 ATATTTTTTCTGAATATTTTCCG-GAAAAATTGAGAAAAACTCTTCGGGTCAGATTTTAGCTG
* *
2012 AAATCGTGTACTAA-CATCACAGTTTTTGGCTAAAAACGCGTTTCGGGGCTCTGGCTCAGTTTTG
1 AAATCGTGTACTAACCATCACGGTTTTTGGCT-AAAACGCGTTTCGGGGCTCCGGCTCAGTTTTG
* * *
2076 CATGATTTTTGGCAGAAAGACTCCTTGAATTATCTATATTCATCTAACCAAATTTCAGTCACCAT
65 CATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAAT
* * * *
2141 GGATTTAAGGAGTTGTTTTTTTTACGAGCATCAGAATCGTGTTTCGATTTAATTTGAGATAAATT
130 GGATTTAAGGA--T-TTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATT
* ** *
2206 CG-----AAA--AAAAAACGATATTAGAAGCGTGAAAAGCCTTTCAATCTTTTTGGTGTTGAATT
192 CGAAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGAATT
* * * * * * * *
2264 ATATA-TTTTTCTGAATA--TTCTGCATAGAATTGGGAAAAAAACTTTTCGAGTTA-ATTTTTTG
257 ATATATTTTTTCTGAATATTTTCCGGA-AAAATT--GAGAAAAACTCTTCGGGTCAGA-TTTTAG
*
2325 CCG
318 CTG
* *
2328 AAATCGTGTACTAACCATCACGGTTTTTGGCTAGAAACGCGTTTCGGGGC-CCTTGCTCAGTGTT
1 AAATCGTGTACTAACCATCACGGTTTTTGGCTA-AAACGCGTTTCGGGGCTCC-GGCTCAGTTTT
*
2392 GCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACTAAATCTCAGTCACAA
64 GCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAA
* * *
2457 TGGATTTAAGGATTTGTTTTTAAGCGCATCTGAATCTTGTTTCGATTAAATTTGAAATAAATTCG
129 TGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATTCG
* * * * *
2522 AAAAAAAAATGAAAAAACGATATTAAAACCGTGAAAATCCCATCAATCTTTTCGGAGTTGAATTA
194 -AAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGAATTA
* * * * * *
2587 TAT-TATTTTATGAATATTTTCCAGAAAAATTGAGAAAAAC-CCTCTAGGTCA-ATTTTTAGGTG
258 TATATTTTTTCTGAATATTTTCCGGAAAAATTGAGAAAAACTCTTC-GGGTCAGA-TTTTAGCTG
* * *
2649 AAATCGTATACTAACCATCGCGGTTTTTTGCTAAAAACGCGTTTCGGGGCTCCGGCTCTA-TTTT
1 AAATCGTGTACTAACCATCACGGTTTTTGGCT-AAAACGCGTTTCGGGGCTCCGGCTC-AGTTTT
* * *
2713 GCAT-ATTTTTTTGACAGAAAGACTCTTTGAAATATCTATATTCATCTATCCAAATCTCAGTCAC
64 GCATGA--TTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCAC
* * *
2777 AATAGATTTAAGGATTTGTTTTTAAGCGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATT
127 AATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATT
* ** * *
2842 -TAAAAAAATTTAAAAAAAAACGATATTAGAAGCGTGAAAAACCCGTCAATCTTTTTGGTGTTGA
192 CGAAAAAAA---ATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGA
2906 ATTATATATTTT
254 ATTATATATTTT
Statistics
Matches: 2186, Mismatches: 251, Indels: 145
0.85 0.10 0.06
Matches are distributed among these distances:
311 6 0.00
312 9 0.00
313 22 0.01
314 280 0.13
315 40 0.02
316 66 0.03
317 120 0.05
319 117 0.05
320 110 0.05
321 195 0.09
322 405 0.19
323 359 0.16
324 295 0.13
325 96 0.04
326 66 0.03
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (320 bp):
AAATCGTGTACTAACCATCACGGTTTTTGGCTAAAACGCGTTTCGGGGCTCCGGCTCAGTTTTGC
ATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGTCACAATG
GATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTTGAAATAAATTCGAA
AAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTGGCGTTGAATTATAT
ATTTTTTCTGAATATTTTCCGGAAAAATTGAGAAAAACTCTTCGGGTCAGATTTTAGCTG
Found at i:2316 original size:636 final size:634
Alignment explanation
Indices: 1--2917 Score: 3577
Period size: 645 Copynumber: 4.5 Consensus size: 634
* * * * *
1 CAATCTTTTTGGTGTTGAATTATATA-TTTTTCTGAATGTTCT-GCA-TAAAATTGGGAAAAAAG
1 CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTCG-AGAAAAATTGAG-AAAAA-
* ** * * * ** * * * * *
63 CTTTTCGAATTAATTTTTATCCAAAATTGTGTACTAACTATCAC-GATTTTTTGTTAGAAACGCG
63 CTCTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACCATCACAG-TTTTTGGCTAAAAACGCG
** * *
127 TTTCGGGGGC-CCTTCCCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTTAAATATCTATATT
127 TTTC-GGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATT
* * *
191 CATCTAACCAAATCTCAGTCGCAATGGATTTAAGGTTTTGTTTTTACGTGCAT-ATGAATCTTGT
191 CATCTAACCAAATCTCAGTCACAATGGATTTAAGGATTTGTTTTTACGAGCATCA-GAATCTTGT
* *
255 TTCGATTTAATTTAAAAGAAATTCGAAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCC
255 TTCGATTTAATTTGAAATAAATTCG-----AAA--AAAAAACGATATTAGAAGCGTGAAAAACCC
* * * * * *
320 ATCAATCTTTTTGGCGTTGAATTATATATTTTTTCTAAATATTTTCCGAAAAAATTGAGAAAAAC
313 ATCAATCTTTTTGGTGTTGAATTATATA-TTTTTCTGAATATTCTGC-ATAAAATTGAAAAAAAC
* * *
385 TCTTCGGGTCAGATTTTAGTTG--AAATCGTGTACTAAAACATCACTGCTTTTTGGCTAGAAACG
376 TCTTCGAGTCAGATTTT--TTGCTAAATCGTGTACT-AACCATCAC-GGTTTTTGGCTAGAAACG
* * *
448 CGTTTCGGGGGCCCTT-CTCAGTTTTGCATGATTTTTTGCAGAAAGACTCCTTTAAATATCTATA
437 CGTTTC-GGGGCCCTTGCTCAGTGTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATA
* * *
512 TTCATCTAATCAAATCTCAGTCACAACGGATTTAAGGATTTGTTTTTA-AAAGCGCATCTGAATC
501 TTCATCTAACCAAATCTCAGTCACAACAGATTTAAGGATTTGTTTTTACGAA---CATCTGAATC
*
576 TTGTTTCGATTTAATTTGAAATAAATTCG--AAAAATATGAAAAAACGATATTAGAAGCGTGAAA
563 TTGTTTCGATTTAATTTGAAATAAATTCGAAAAAAAAATGAAAAAACGATATTAGAAGCGTGAAA
*
639 AACCCAC
628 AACCCAT
* * * * *
646 CAATCTTTTTAGCATTGGATTATATATTTTTCCTCAATATTTTCCG-GAAAAATTGAGAAAAACT
1 CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTT-CGAGAAAAATTGAGAAAAACT
* * * *
710 CTTTGGGTCAGATTTTAGCTGAAATAGTGTACTAACCATCACGGTTTTTGGCGT-AAAACGCGTT
65 CTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACCATCACAGTTTTTGGC-TAAAAACGCGTT
* * * * * *
774 TCGAGGATCCGGCTCTGTGTTGCATGATTTTTGGCAGAACGACTCCTTGAATTATCTATATTCAT
129 TCGGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCAT
* * * *
839 CTAACCAAATCTCAGTCATAACGGATTTAAGGATTTGTTTTTACGAGGATCTGAATCTTGTTTCG
194 CTAACCAAATCTCAGTCACAATGGATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTGTTTCG
904 ATTTAATTTGAAATAAATTCGAAAAAAATATGAAAAAACGATATTAGAAGCGTGAAAAACCCATC
259 ATTTAATTTGAAATAAATTCG-----AA-A--AAAAAACGATATTAGAAGCGTGAAAAACCCATC
* * * * * * * * *
969 ACTTTTTTTGGCGTTGAATTATATTTTTTTTTGAATATTTTACAGAGAAATTGAGAAAAACTCTT
316 AATCTTTTTGGTGTTGAATTATATATTTTTCTGAATATTCTGCATA-AAATTGAAAAAAACTCTT
* * * * *
1034 CGGGTCAGA-TTTTAGCTGAAATCGTGTATGTTAACCATCACAGTTTTTGGCTTA-AAATGCGTT
380 CGAGTCAGATTTTTTGCT-AAATCGTGTA--CTAACCATCACGGTTTTTGGC-TAGAAACGCGTT
* * * * *
1097 TCGGGGCTCC-AGCTCTA-TTTTGCATAATTTTTGGCAGAATGACTCCTTGAAAAATCTATATTC
441 TCGGGGC-CCTTGCTC-AGTGTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTC
* * * *
1160 ATCTAACCAAATCTCAGTCATAACAGATTTAAGGATTTGTTTTTACGAGCATCTGAATGTTATTT
504 ATCTAACCAAATCTCAGTCACAACAGATTTAAGGATTTGTTTTTACGAACATCTGAATCTTGTTT
*
1225 CGATTTAATTTGAAATAAATTCGAAAAAAAAAATGAAAAAAACGATAATT-GAAGAGTGAAAAAC
569 CGATTTAATTTGAAATAAATTCG-AAAAAAAAATG-AAAAAACGAT-ATTAGAAGCGTGAAAAAC
1289 CCAT
631 CCAT
*
1293 CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTCCAGAAAAATTGAGAAAAACTC
1 CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTCGAGAAAAATTGAGAAAAACTC
* * * * *
1358 TTCGCGTCAGTTTTTAGTTGAAATCGTGTACTAACCATCACAATTTTTGGCTAAAAACACGTTTT
66 TTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTC
* * * * * * *
1423 GGGGATCCAGCTCTGTTTTACATGATTTTTGACAGAAAGACTCCTTGAAATATGTATTTTCATCT
131 GGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCT
* * * *
1488 AACCAAATCTCAATCACAATGGATTTAAGGATTTGTTTTTACGAGCATCGGAATCGTGTTACGAT
196 AACCAAATCTCAGTCACAATGGATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTGTTTCGAT
* *
1553 TTAATTTGAAATAAATTCGAAAAAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTG
261 TTAATTTGAAATAAATTCGAAAAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTG
* * * * * *
1618 GTGGTGAATTATATATTTTTCTGAATGTTCTGTATAAAATTGGGAAAAAAGCTTTTCGAGTTA-A
326 GTGTTGAATTATATATTTTTCTGAATATTCTGCATAAAATT--GAAAAAAACTCTTCGAGTCAGA
*
1682 TTTTTTGCCTATATCGTGTACTAACCATCACGGTTTTTGGCTAGAAACGCGTTTCGGGGCCCTTG
389 TTTTTTG-CTAAATCGTGTACTAACCATCACGGTTTTTGGCTAGAAACGCGTTTCGGGGCCCTTG
*
1747 CTCAGTGTTGCATGATTTTTGGCAGAAAGACTCCTTTAAATATCTATATTCATCTAACCAAATCT
453 CTCAGTGTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCT
* *
1812 CAGTCACAAAAGATTTAAGGATTTGTTTTTACGAATATCTGAATCTTGTTTCGATTTAATTTGAA
518 CAGTCACAACAGATTTAAGGATTTGTTTTTACGAACATCTGAATCTTGTTTCGATTTAATTTGAA
1877 ATAAATTCG-AAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAA-CCAT
583 ATAAATTCGAAAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCAT
*
1927 CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTCGAGAGAAATTGAGAAAAACTC
1 CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTCGAGAAAAATTGAGAAAAACTC
1992 TTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAA-CATCACAGTTTTTGGCTAAAAACGCGTTTC
66 TTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTC
* *
2056 GGGGCTCTGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAATTATCTATATTCATCT
131 GGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCT
* * * *
2121 AACCAAATTTCAGTCACCATGGATTTAAGGAGTTGTTTTTTTTACGAGCATCAGAATCGTGTTTC
196 AACCAAATCTCAGTCACAATGGATTTAAGGA--T-TTGTTTTTACGAGCATCAGAATCTTGTTTC
* * **
2186 GATTTAATTTGAGATAAATTCGAAAAAAAAACGATATTAGAAGCGTGAAAAGCCTTTCAATCTTT
258 GATTTAATTTGAAATAAATTCGAAAAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTT
* * *
2251 TTGGTGTTGAATTATATATTTTTCTGAATATTCTGCATAGAATTGGGAAAAAAACTTTTCGAGTT
323 TTGGTGTTGAATTATATATTTTTCTGAATATTCTGCATAAAATT--GAAAAAAACTCTTCGAGTC
*
2316 A-ATTTTTTGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAGAAACGCGTTTCGGGGCCC
386 AGATTTTTTG-CTAAATCGTGTACTAACCATCACGGTTTTTGGCTAGAAACGCGTTTCGGGGCCC
*
2380 TTGCTCAGTGTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACTAAA
450 TTGCTCAGTGTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
** * ** *
2445 TCTCAGTCACAATGGATTTAAGGATTTGTTTTTAAGCGCATCTGAATCTTGTTTCGATTAAATTT
515 TCTCAGTCACAACAGATTTAAGGATTTGTTTTTACGAACATCTGAATCTTGTTTCGATTTAATTT
* * *
2510 GAAATAAATTCGAAAAAAAAATGAAAAAACGATATTAAAACCGTGAAAATCCCAT
580 GAAATAAATTCGAAAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCAT
* * * * *
2565 CAATCTTTTCGGAGTTGAATTATAT-TATTTTATGAATATTTTCCAGAAAAATTGAGAAAAAC-C
1 CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTCGAGAAAAATTGAGAAAAACTC
* * * * * * * *
2628 CTCTAGGTCAATTTTTAGGTGAAATCGTATACTAACCATCGCGGTTTTTTGCTAAAAACGCGTTT
66 TTC-GGGTCAGTTTTTAGCTGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTT
* *
2693 CGGGGCTCCGGCTCTA-TTTTGCAT-ATTTTTTTGACAGAAAGACTCTTTGAAATATCTATATTC
130 CGGGGCTCCGGCTC-AGTTTTGCATGA--TTTTTGGCAGAAAGACTCCTTGAAATATCTATATTC
* * * * *
2756 ATCTATCCAAATCTCAGTCACAATAGATTTAAGGATTTGTTTTTAAGCGCATCTGAATCTTGTTT
192 ATCTAACCAAATCTCAGTCACAATGGATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTGTTT
**
2821 CGATTTAATTTGAAATAAATTTAAAAAAATTTAAAAAAAAACGATATTAGAAGCGTGAAAAACCC
257 CGATTTAATTTGAAATAAA--T-------TCGAAAAAAAAACGATATTAGAAGCGTGAAAAACCC
*
2886 GTCAATCTTTTTGGTGTTGAATTATATATTTT
313 ATCAATCTTTTTGGTGTTGAATTATATATTTT
Statistics
Matches: 2001, Mismatches: 217, Indels: 108
0.86 0.09 0.05
Matches are distributed among these distances:
633 111 0.06
634 102 0.05
635 23 0.01
636 399 0.20
637 101 0.05
638 241 0.12
639 132 0.07
640 29 0.01
641 3 0.00
642 4 0.00
643 37 0.02
644 13 0.01
645 424 0.21
646 99 0.05
647 279 0.14
648 4 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (634 bp):
CAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAATATTTTCGAGAAAAATTGAGAAAAACTC
TTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCGTTTC
GGGGCTCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCT
AACCAAATCTCAGTCACAATGGATTTAAGGATTTGTTTTTACGAGCATCAGAATCTTGTTTCGAT
TTAATTTGAAATAAATTCGAAAAAAAAACGATATTAGAAGCGTGAAAAACCCATCAATCTTTTTG
GTGTTGAATTATATATTTTTCTGAATATTCTGCATAAAATTGAAAAAAACTCTTCGAGTCAGATT
TTTTGCTAAATCGTGTACTAACCATCACGGTTTTTGGCTAGAAACGCGTTTCGGGGCCCTTGCTC
AGTGTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAG
TCACAACAGATTTAAGGATTTGTTTTTACGAACATCTGAATCTTGTTTCGATTTAATTTGAAATA
AATTCGAAAAAAAAATGAAAAAACGATATTAGAAGCGTGAAAAACCCAT
Done.