Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01004998.1 Corchorus capsularis cultivar CVL-1 contig05016, 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: 5648
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Found at i:661 original size:323 final size:321
Alignment explanation
Indices: 1--4939 Score: 5664
Period size: 323 Copynumber: 15.4 Consensus size: 321
* * *
1 TATTGGCGTTGAATTATATTTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATCTCTG
1 TATTGGCGTTGAATTATA-TTTTTTTCTAAGTATTGTGGCAAAAAATTGAG-AAAAAAATTTCGG
** * * *
66 GTTTGTTTTTAGCCGAAATCATGTACT----ATCACTGTTTTTGGCTAAAAACGCGTTCCGGGAC
64 GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGCC
*
127 CCGGCTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTTG-AATATCTATATTCATCGAAGC-
129 CCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCC-TTGAAATATCTATATTCATCGAA-CA
* * * * *
190 AAATTTCAGCCATATTGGATATAAGGATTTGTTTTTTTTGGAGCATCTTAATCTTGTTTCGATTT
192 AAATCTCAGCCATACTGGATATAAGGATTTG-TTTTTTTCGAGCATCTCAATCATGTTTCGATTT
** *
255 AATTAGAAATTAATTCCGAGAAAAATGAAAAAAAAAAACAGTATTAGAAGCTTGAAAAGCGCGTC
256 AATTAGAAATTAATT-CG-GAAAAA--AATGAAAAAAACAGTATTAGAAGCTTGAAAAGCCCGTC
320 AATCT
317 AATCT
* *
325 TATTGGCGTTGAATTATATCTTTTTCTAAGTATTGTGGCAAAAAATTAAGAAAAAAATTTACGGG
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAATTT-CGGG
* * * * *
390 TCAGTTTTTAGCCAAAATCGTGCACTAACCATCACTGATTTTGGCTAAAAACACGTTCCGGGTCC
65 TCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGG-CC
* *
455 CCGACTCAATTTTGCATGATTTTTGGCGTAAAGACTTCTTGAAATATCTATATTCATCGAACAAA
129 CCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAAA
* * * * * *
520 ATCTCAGCCATACTAGATATAAGGATTTGTTTTTTTGGAGAATCTTAATCTTATTTCGATTTAAT
194 ATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAAT
** * *
585 TAGAAATTAATTCGGGTAAAAATGAAAAAAACAGTATTAGAAACTTGAAAAGCGCGTCAATCT
259 TAGAAATTAATTCGGAAAAAAATGAAAAAAACAGTATTAGAAGCTTGAAAAGCCCGTCAATCT
* *
648 TATTGGCGTTGAATTATATCTTTTTCTAAGTATTGTGGC-AAAAATTAAGGAAAAAAATTTCGGG
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGA-GAAAAAAATTTCGGG
* * *
712 TCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTCCGGGTCC
65 TCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGCCC
* * * ** *
777 CGGCTGAATTTTGCATGATTTTTTGCATAAAGACT-CTCTGAAATATCTATATTCATCGAACTAA
130 CGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCT-TGAAATATCTATATTCATCGAACAAA
* * * * *
841 ATCTCAACCATATTGGATATAAGGA--T-TTTTTTTGGAGCATCTCAATCTTGTTTCTATTTAAT
194 ATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAAT
* * ** **
903 TAGATATTAATTCGG-AAAAAATG-AAAAAACAATATTATTAGCTTGAAAAGGGCGTCAATCT
259 TAGAAATTAATTCGGAAAAAAATGAAAAAAACAGTATTAGAAGCTTGAAAAGCCCGTCAATCT
964 TATTGGCGTTGAATTATATTTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGG
1 TATTGGCGTTGAATTATA-TTTTTTTCTAAGTATTGTGGCAAAAAATTGAG-AAAAAAATTTCGG
* * * * * *
1029 GTCAGTTTTTTGCCGAAATCGTGTAATAACCAACATGGTTTTTGGCTAAAAACGTGTTACAGGGC
64 GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT-CCGGGC
* * * * * * * *
1094 CCCGTCTCAATTCTGCATGATTTTTAGCGCAAACACTCCTTCAAGTATCTATATTTATCGAACCA
128 CCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAA
* * * * **
1159 AATTTCAGCCATATTGGATATAAGGATTTCTTTTTTTTGGAGCATCTCAATTTTGTTTCGATTTA
193 AATCTCAGCCATACTGGATATAAGGATTT-GTTTTTTTCGAGCATCTCAATCATGTTTCGATTTA
* *
1224 ATTAGAAATTAATTCGG-AAGAAATG--------A-TATTAGAAGCTTGAAAAGCCCATCAATCT
257 ATTAGAAATTAATTCGGAAAAAAATGAAAAAAACAGTATTAGAAGCTTGAAAAGCCCGTCAATCT
* **
1279 TATTGGTGTTGAATTATTATTTTTTTCTAAGTATTGTGTTAAAAAATTGAGAAAAAAAATTTTCG
1 TATTGGCGTTGAATTA-TATTTTTTTCTAAGTATTGTGGCAAAAAATTGAG-AAAAAAA-TTTCG
* *
1344 GGTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGCCTAAAAACGCGTTCCGGGG
63 GGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCC-GGG
* * * * * * *
1409 TCCCGACTCAATTTTGCATGATTTTTTGCGAAAAGGCTCATTGAAATATCTATATTCATGGAACG
127 CCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACA
* * * *
1474 AAATCTCAACCATACTGGGTATAAGGATTTG-TTTTTTCGAGCATCCCAATCATGTTTCGATATA
192 AAATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGATTTA
*
1538 ATTAGAAATTAATTCGTAAAAAAAT-AAAAAAAC-GATATTAGAAGCTTGAAAAGCCCGTCAATC
257 ATTAGAAATTAATTCGGAAAAAAATGAAAAAAACAG-TATTAGAAGCTTGAAAAGCCCGTCAATC
1601 T
321 T
* * * *
1602 TATTGGCATTGAATTATACTTTTTTCTAAGTATTGTGGC-AAAAATTCAGAAAAACATTTTCGGG
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAA-AATTTCGGG
* * * *
1666 TCAGTTTTTAGCCGAATTTGTATACTAACCATCACGGTTTTTGGCTAAAAACGCTTTCCGAGGCC
65 TCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCG-GGCC
* * *
1731 CCGGCTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCAATGTTCATCGAAGC-A
129 CCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAA-CAA
* * * * * * **
1795 AATCTCAGCCATATTAGCTATAAGGATTTGTTTTTTTGGAGGATCTCACTTTTGTTTCGATTTAA
193 AATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAA
* ** * * * * * *
1860 ATAGAAATTAATTCAAAAAAAAAAGAAAAAAAAACGATATGAAAAACTTG-AAAGACCCTTCAAT
258 TTAGAAATTAATTCGGAAAAAAATGAAAAAAACA-G-TATTAGAAGCTTGAAAAG-CCCGTCAAT
1924 CT
320 CT
* *
1926 TATTGGCGTTGAATTATA-TTTTTTCTAAGTATTGCGGCAAAAAATTGAGAAAAAAAAATTTCTG
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAG--AAAAAAATTTCGG
* * * *
1990 GTGAGTTTTTAGCCGAAATCATG---T-A-CGTCACGATTTTTGGCTAAAAACGCGTTCCGGGGC
64 GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCC-GGGC
* * * *
2050 CCCGGCTTAACTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACAA
128 CCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAA
* *
2115 AATATCAGCCATACTGGATATAAGGATTT-TTTTTTTCGAGCAAT-T-AATCATGTTTCTATTTA
193 AATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGC-ATCTCAATCATGTTTCGATTTA
* * * ** *
2177 ATTAGAAATTAATTCAGAAAAAAATGGAAAATAAC-GATATTAGAAGCTTCAAAATACTGTCAAT
257 ATTAGAAATTAATTCGGAAAAAAAT-GAAAAAAACAG-TATTAGAAGCTTGAAAAGCCCGTCAAT
2241 CT
320 CT
* *
2243 TATTGGCGGTGAATTATATTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAATATTTTCG
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAG-AAAAAA-A-TTTCG
* * * * * *
2308 GGTCAGTTTTTAGCTGAAATTGTGTACTAAAAAGCATCATGATTTTTGACTAAAAACGCGTTCCG
63 GGTCAGTTTTTAGCCGAAATCGTGTACT---AACCATCACGGTTTTTGGCTAAAAACGCGTTCC-
* * *
2373 GGGTCCCGACTCAATTTTGCATGATTTTTAGCGCAAAGACTCCTTGAAGTATCTATATTCATCGA
124 GGGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGA
* * * * * ** *
2438 ACCAAATCTCAGCCATATTGGATATAAGGTTTTGTTTTTTTGGAGCATGTCAATTTTGTTTCAAT
189 ACAAAATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGAT
*
2503 TTAATTAGAAATTAATTCGG-AAAAAATG--------A-TATTAGAAG-TTGAAAAGCCCATCAA
254 TTAATTAGAAATTAATTCGGAAAAAAATGAAAAAAACAGTATTAGAAGCTTGAAAAGCCCGTCAA
2557 T-T
319 TCT
2559 TCATTGGCGTTGAATTATATTTTTTTTCCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAAATTT
1 T-ATTGGCGTTGAATTATA-TTTTTTT-CTAAGTATTGTGGCAAAAAATTGAG--AAAAAAATTT
** * * *
2624 CTAGTCAGTTTTTAGCCGAAGTCATGTACTAACCATCACGATTTTTGGCTAAAAACGCGTTCCGC
61 CGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCG-
* * * * * ** * *
2689 GGCCCGGGCTCAATTTT-TAAGACTTTTGGCAAAAAGAGTCCTTGGAATATCTATATTCATCGAA
125 GGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAA
* * * * *
2753 GCAAAA-CTCAGCCATATTGGATATAAGGATTTGTTTTTTTGGAGCATCTTACTCTTGTTTCGAT
190 -CAAAATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGAT
** * *
2817 TTAAAAAGAAATTAATTC-GAAAAAAATGAAAAAAAAAAACAATATTAGAAGCTTG-ATAGTCCC
254 TTAATTAGAAATTAATTCGGAAAAAAATG----AAAAAAACAGTATTAGAAGCTTGAAAAG-CCC
* *
2880 TTAAATCT
314 GTCAATCT
* * * *
2888 TATTGGCGTTGAATTATATTTTTTTCGAAGTATTGTGGCAAGAAATTAAG-AAGAAATCATTCGG
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAT--TTCGG
* * * *
2952 GTAAGTTTTTAGCCGAAATCGTGTACGT---CA-CA--GTTTTTGCCTAAAAACGCGTTCTGGGG
64 GTCAGTTTTTAGCCGAAATCGTGTAC-TAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGC
* * ** *
3011 CCCGACTAAATTTTGAATGATTTTTGATGCAAAGACTCCTTGACATATCTATATTCATCGAACAA
128 CCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAA
* *
3076 AATCTTAGCCATACTGGATATAAGAATTTG-TTTTTTCGAGCATCTCAATCATGTTTCGATTTAA
193 AATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAA
* **
3140 TTAGAAATTAATGT-GG-AAAAAATGAAAAAAAAAAACAATATTAGAAGCTTGAAAAGGGCGTCA
258 TTAGAAATTAAT-TCGGAAAAAAATG----AAAAAAACAGTATTAGAAGCTTGAAAAGCCCGTCA
3203 ATCT
318 ATCT
* * * *
3207 TATTGGCATTTAATTATATTTTGTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGG
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAG-AAAAAAATTTCGGG
*
3272 TCAGTTTTTAGCCGAAATCGTGCACTAACCATCACGGTTTTTAGG-TAAAAACGCGTTCCGGTGC
65 TCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCGTTCCGG-GC
* * ** **
3336 CCCTACTTAATTTTGCATGATTTTTGGCATAAAGACTTGTTGAAATATCTATATTCATCGAACAA
128 CCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAA
* * *
3401 AATCTCAACCATACTGGATATAAGGATTT-TATTTTTTCAAGCATCTCAATCAAGTTTCGATTTA
193 AATCTCAGCCATACTGGATATAAGGATTTGT-TTTTTTCGAGCATCTCAATCATGTTTCGATTTA
* * * * *
3465 ATTAGAAAATAATTCGGAAAAAAATAAAAAAAAAAAAACAATATTAGAAGCTTGAAAA-CGGCAT
257 ATTAGAAATTAATTCGGAAAAAAAT-----GAAAAAAACAGTATTAGAAGCTTGAAAAGC-CCGT
3529 CAATCT
316 CAATCT
* * ***
3535 TATTGGCGTTGAATTATATTTTTTTTTAAGTATTGTGGCTAAAAATTGAGAAAAAAAAATTTTTT
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAG--AAAAAAATTTCGG
*
3600 GTCAGCTTTTAGCCGAAATCGTG----AACCATCACGGTTTTTTGG-TAAAAACGCGTTCCAGGG
64 GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCTAAAAACGCGTTCC-GGG
*
3660 CCCCGACTCAATTTTACATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACA
127 CCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACA
*
3725 AAATCTCAGCCATACTGGATATAAGGATTT-TGTTTTTTCGAGCATTTCAATCATGTTTCGATTT
192 AAATCTCAGCCATACTGGATATAAGGATTTGT-TTTTTTCGAGCATCTCAATCATGTTTCGATTT
* *
3789 AATTAGAAATTAATTCGGAAAAAAATGAAAAATAAC-GATATTAGAAGGTTGAAAATCCCGTCAA
256 AATTAGAAATTAATTCGGAAAAAAATGAAAAA-AACAG-TATTAGAAGCTTGAAAAGCCCGTCAA
3853 TCT
319 TCT
* * * * *** ***
3856 TATTGGCGTTGAAGTATATTTTGTTCGAAGTATTGTAGCAAAAAATTGAGAAAATTTTTTCTACT
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAATTTCGGGT
** * *** *
3921 TTGTTTTTAGCCGAAATTGTGTACTAATTGTCACTGTTTTTGGCTAAAAACGCGTTCCGGGGCCC
66 CAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCC-GGGCCC
* * * * * *
3986 GGACTCAGTTTTGCATGATTTTTGGCGAAAAGGCTCATTGAAATATCTATATTCACCGAACAAAA
130 CGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAAAA
* *
4051 TCTCAACCATACTGGATATAAGGATTTG-TTTTTTCAAGCATCTCAATCATGTTTCGATTTAATT
195 TCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAATT
* * * ** *
4115 AAAAATTAATTCGAAAAAAAATGAAAAGAAC-GATATTAGAAGCCTT-AAATTCCCATCAATCT
260 AGAAATTAATTCGGAAAAAAATGAAAAAAACAG-TATTAGAAG-CTTGAAAAGCCCGTCAATCT
4177 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTCGG
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAG-AAAAAAA-TTTCGG
* * *
4242 GTCAGTTTTTATCCGAAATCGTGTACT-ACTCATCACGCTTTTTGGCT-AAACCGCGTTCCTGGG
64 GTCAGTTTTTAGCCGAAATCGTGTACTAAC-CATCACGGTTTTTGGCTAAAAACGCGTTCC-GGG
* * *
4305 CCCCGACTCAATTTTGCATGATTTTTGGCGCAAAAACTCCTTGAAATATCTATATTCATGGAACG
127 CCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACA
* * * *
4370 AAATCTCAACCATACTGGGTATAAGGATTT-TTTTTTTCGAGCATCCCAATCATGTTTCGATATA
192 AAATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGATTTA
* * **
4434 ATTAAAAATTAATTCGGAAAAAAATGATAAAAAAAAACGATATTAGAAGCCTT-AAATTCCCGTC
257 ATTAGAAATTAATTCGGAAAAAAATG--AAAAAAACA-G-TATTAGAAG-CTTGAAAAGCCCGTC
4498 AATCT
317 AATCT
* *
4503 TATTGGCGTTGAATTATATTTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAAATTCGG
1 TATTGGCGTTGAATTATA-TTTTTTTCTAAGTATTGTGGCAAAAAATTGAG-AAAAAAATTTCGG
* *
4568 GTCAGTTTTTAGCCGAAATCGTGCACTAACCATCACGG-TTTTGGCTAAAAACGCGTTCCGTGTC
64 GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCG-GGC
*
4632 CCCG-----A------ATGATTTTTGGCGCAAAGACTCCCTGAAATATCTATATTCATCGAACAA
128 CCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAA
*
4686 AATCTTAGCCATACTGGATATAAGGA--T-TTTTTTTCGAGCATCTCAATCATGTTTCGATTTAA
193 AATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAA
* * * *
4748 TTAGAAATTAATTCGAAAAAAAATGTAAAAAAC-GATATTAGAAGTTTGAAAAGCCCATCAATCT
258 TTAGAAATTAATTCGGAAAAAAATGAAAAAAACAG-TATTAGAAGCTTGAAAAGCCCGTCAATCT
* * *
4812 TATTGGCGTTGAATTATATTTTTTTTTAAGTATTGTGGAAAAAAATTGAGAAGAAAAATTTTTGG
1 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAA-AAAAA-TTTCGG
* * *
4877 GTCAGTTTTTAGCCGAAATCGTGTACTAACCAACACGGTTTTTTGCTAAAAACGCGTTACGGG
64 GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGG
4940 AATATCTATA
Statistics
Matches: 3991, Mismatches: 480, Indels: 303
0.84 0.10 0.06
Matches are distributed among these distances:
307 2 0.00
308 36 0.01
309 83 0.02
310 20 0.01
311 6 0.00
313 58 0.01
314 159 0.04
315 200 0.05
316 194 0.05
317 99 0.02
318 230 0.06
319 349 0.09
320 366 0.09
321 295 0.07
322 338 0.08
323 421 0.11
324 93 0.02
325 317 0.08
326 186 0.05
327 265 0.07
328 209 0.05
329 65 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (321 bp):
TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAATTTCGGGT
CAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGGCCCC
GACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAAAAT
CTCAGCCATACTGGATATAAGGATTTGTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAATTA
GAAATTAATTCGGAAAAAAATGAAAAAAACAGTATTAGAAGCTTGAAAAGCCCGTCAATCT
Found at i:2419 original size:647 final size:645
Alignment explanation
Indices: 1--4939 Score: 5622
Period size: 645 Copynumber: 7.7 Consensus size: 645
* *
1 TATTGGCGTTGAATTATATTTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATCTCTG
1 TATTGGCGTTGAATTATA-TTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGG
** * *
66 GTTTGTTTTTAGCCGAAATCATG-T-ACTATCACTGTTTTTGGCTAAAAACGCGTTCC-GGGACC
65 GTCAGTTTTTAGCCGAAATCATGCTAACCATCAC-GTTTTTGGCTAAAAACGCGTTCCGGGGCCC
*
128 CGGCTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTTG-AATATCTATATTCATCGAAGC-A
129 CGGCTCAATTTTGCATGATTTTTGGCGAAAAGACTCC-TTGAAATATCTATATTCATCGAA-CAA
* * * * * *
191 AATTTCAGCCATATTGGATATAAGGATTTGTTTTTTTTGGAGCATCTTAATCTTGTTTCGATTTA
192 AATCTCAACCATACTGGATATAAGGA-TT-TTTTTTTTCGAGCATCTCAATCATGTTTCGATTTA
* *
256 ATTAGAAATTAATTCCGAGAAAAATGAAAAAAAAAAAC-AGTATTAGAAGCTTGAAAAGCGCGTC
255 ATTAGAAATTAATT-CGAAAAAAATG---AAAAAAAACGA-TATTAGAAGCTTGAAAAGCCCGTC
* *
320 AATCTTATTGGCGTTGAATTATATCTTTTTCTAAGTATTGTGGCAAAAAATTAAG-AAAAAAATT
315 AATCTTATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAATT
* * * *
384 TACGGGTCAGTTTTTAGCCAAAATCGTGCACTAACCATCACTGA-TTTTGGCTAAAAACACGTTC
380 TTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCA-TGATTTTTGGCTAAAAACGCGTTC
* * *
448 CGGGTCCCCGACTCAATTTTGCATGATTTTTGGCGTAAAGACTTCTTGAAATATCTATATTCATC
444 CGGGGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATC
* * * *
513 GAACAAAATCTCAGCCATACTAGATATAAGGATTTGTTTTTTTGGAGAATCTTAATCTTATTTCG
509 GAACAAAATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTGGAGCATCTCAATCTTGTTTCG
**** * * *
578 ATTTAATTAGAAATTAATTCGGGTAAAAATGAAAAAAACA-G-TATTAGAAACTTGAAAAGCGCG
574 ATTTAATTAGAAATTAATTCAAAAAAAAAAGAAAAAAAAACGATATTAGAAACTTGAAAAGCCCG
641 TCAATCT
639 TCAATCT
* * * *
648 TATTGGCGTTGAATTATATCTTTTTCTAAGTATTGTGGC-AAAAATTAAGGAAAAAAATTTCGGG
1 TATTGGCGTTGAATTATATTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGG
** * *
712 TCAGTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCGTTCC-GGGTC
66 TCAGTTTTTAGCCGAAATCATG--CTAACCATCAC-GTTTTTGGCTAAAAACGCGTTCCGGGGCC
* * *
776 CCGGCTGAATTTTGCATGATTTTTTGC-ATAAAGACT-CTCTGAAATATCTATATTCATCGAACT
128 CCGGCTCAATTTTGCATGATTTTTGGCGA-AAAGACTCCT-TGAAATATCTATATTCATCGAACA
* * * *
839 AAATCTCAACCATATTGGATATAAGGA--TTTTTTTTGGAGCATCTCAATCTTGTTTCTATTTAA
191 AAATCTCAACCATACTGGATATAAGGATTTTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAA
* * * ** **
902 TTAGATATTAATTCGGAAAAAATG--AAAAAACAATATTATTAGCTTGAAAAGGGCGTCAATCTT
256 TTAGAAATTAATTCGAAAAAAATGAAAAAAAACGATATTAGAAGCTTGAAAAGCCCGTCAATCTT
965 ATTGGCGTTGAATTATATTTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAA-TTTCGG
321 ATTGGCGTTGAATTATA-TTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTCGG
* * * * * * *
1029 GTCAGTTTTTTGCCGAAATCGTGTAATAACCAACATGGTTTTTGGCTAAAAACGTGTTACAGGGC
385 GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCATGATTTTTGGCTAAAAACGCGTTCCGGGGC
* * * * * * * *
1094 CCCGTCTCAATTCTGCATGATTTTTAGCGCAAACACTCCTTCAAGTATCTATATTTATCGAACCA
450 CCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAA
* * * *
1159 AATTTCAGCCATATTGGATATAAGGATTTCTTTTTTTTGGAGCATCTCAATTTTGTTTCGATTTA
515 AATCTCAGCCATACTGGATATAAGGATTT-GTTTTTTTGGAGCATCTCAATCTTGTTTCGATTTA
* * * * *
1224 ATTAGAAATTAATTC----------G--GAAGAAATGATATTAGAAGCTTGAAAAGCCCATCAAT
579 ATTAGAAATTAATTCAAAAAAAAAAGAAAAAAAAACGATATTAGAAACTTGAAAAGCCCGTCAAT
1277 CT
644 CT
* * **
1279 TATTGGTGTTGAATTATTATTTTTTTCTAAGTATTGTGTTAAAAAATTGAGAAAAAAAATTTTCG
1 TATTGGCGTTGAATTA-TATTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAA-TTTCG
*
1344 GGTCAGTTTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGCCTAAAAACGCGTTCCGGGG
64 GGTCAGTTTTTAGCCGAAATCATG--CTAACCATCAC-GTTTTTGGCTAAAAACGCGTTCCGGGG
* * * * * * *
1409 TCCCGACTCAATTTTGCATGATTTTTTGCGAAAAGGCTCATTGAAATATCTATATTCATGGAACG
126 CCCCGGCTCAATTTTGCATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAACA
* * * *
1474 AAATCTCAACCATACTGGGTATAAGGATTTGTTTTTTCGAGCATCCCAATCATGTTTCGATATAA
191 AAATCTCAACCATACTGGATATAAGGATTTTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAA
1539 TTAGAAATTAATTCGTAAAAAAAT--AAAAAAACGATATTAGAAGCTTGAAAAGCCCGTCAATCT
256 TTAGAAATTAATTCG-AAAAAAATGAAAAAAAACGATATTAGAAGCTTGAAAAGCCCGTCAATCT
* * * *
1602 TATTGGCATTGAATTATACTTTTTTCTAAGTATTGTGGC-AAAAATTCAG-AAAAACATTTTCGG
320 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTCGG
* * * * * * *
1665 GTCAGTTTTTAGCCGAATTTGTATACTAACCATCACGGTTTTTGGCTAAAAACGCTTTCCGAGGC
385 GTCAGTTTTTAGCCGAAATCGTGTACTAACCATCATGATTTTTGGCTAAAAACGCGTTCCGGGGC
* * *
1730 CCCGGCTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCAATGTTCATCGAAGC-
450 CCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAA-CA
* * * * * *
1794 AAATCTCAGCCATATTAGCTATAAGGATTTGTTTTTTTGGAGGATCTCACTTTTGTTTCGATTTA
514 AAATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTGGAGCATCTCAATCTTGTTTCGATTTA
* * * *
1859 AATAGAAATTAATTCAAAAAAAAAAGAAAAAAAAACGATATGAAAAACTTG-AAAGACCCTTCAA
579 ATTAGAAATTAATTCAAAAAAAAAAGAAAAAAAAACGATATTAGAAACTTGAAAAG-CCCGTCAA
1923 TCT
643 TCT
* * *
1926 TATTGGCGTTGAATTATA-TTTTTTCTAAGTATTGCGGCAAAAAATTGAGAAAAAAAAATTTCTG
1 TATTGGCGTTGAATTATATTTTTTTCGAAGTATTGTGGCAAAAAATTGAG-AAAAAAAATTTCGG
* *
1990 GTGAGTTTTTAGCCGAAATCATG-T-A-CGTCACGATTTTTGGCTAAAAACGCGTTCCGGGGCCC
65 GTCAGTTTTTAGCCGAAATCATGCTAACCATCACG-TTTTTGGCTAAAAACGCGTTCCGGGGCCC
* * * *
2052 CGGCTTAACTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACAAAA
129 CGGCTCAATTTTGCATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAACAAAA
* * *
2117 TATCAGCCATACTGGATATAAGGATTTTTTTTTTCGAGCAAT-T-AATCATGTTTCTATTTAATT
194 TCTCAACCATACTGGATATAAGGATTTTTTTTTTCGAGC-ATCTCAATCATGTTTCGATTTAATT
* * * ** *
2180 AGAAATTAATTCAGAAAAAAATGGAAAATAACGATATTAGAAGCTTCAAAATACTGTCAATCTTA
258 AGAAATTAATTC-GAAAAAAATGAAAAAAAACGATATTAGAAGCTTGAAAAGCCCGTCAATCTTA
* *
2245 TTGGCGGTGAATTATATTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAATATTTTCGGG
322 TTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAA-ATTTTCGGG
* * * *
2310 TCAGTTTTTAGCTGAAATTGTGTACTAAAAAGCATCATGATTTTTGACTAAAAACGCGTTCCGGG
386 TCAGTTTTTAGCCGAAATCGTGTACT---AACCATCATGATTTTTGGCTAAAAACGCGTTCCGGG
* * *
2375 GTCCCGACTCAATTTTGCATGATTTTTAGCGCAAAGACTCCTTGAAGTATCTATATTCATCGAAC
448 GCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAAC
* * * * * *
2440 CAAATCTCAGCCATATTGGATATAAGGTTTTGTTTTTTTGGAGCATGTCAATTTTGTTTCAATTT
513 AAAATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTGGAGCATCTCAATCTTGTTTCGATTT
* * * *
2505 AATTAGAAATTAATTC----------G--GAAAAAATGATATTAG-AAGTTGAAAAGCCCATCAA
578 AATTAGAAATTAATTCAAAAAAAAAAGAAAAAAAAACGATATTAGAAACTTGAAAAGCCCGTCAA
2557 T-T
643 TCT
*
2559 TCATTGGCGTTGAATTATATTTTTTTTCCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAAATTT
1 T-ATTGGCGTTGAATTATA-TTTTTTT-CGAAGTATTGTGGCAAAAAATTGAG-AAAAAAAATTT
** * *
2624 CTAGTCAGTTTTTAGCCGAAGTCATGTACTAACCATCACGATTTTTGGCTAAAAACGCGTTCCGC
62 CGGGTCAGTTTTTAGCCGAAATCATG--CTAACCATCACG-TTTTTGGCTAAAAACGCGTTCCGG
* * * * * * *
2689 GGCCCGGGCTCAATTTT-TAAGACTTTTGGCAAAAAGAGTCCTTGGAATATCTATATTCATCGAA
124 GGCCCCGGCTCAATTTTGCATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAA
* * * * * *
2753 GCAAAA-CTCAGCCATATTGGATATAAGGATTTGTTTTTTTGGAGCATCTTACTCTTGTTTCGAT
189 -CAAAATCTCAACCATACTGGATATAAGGATTT-TTTTTTTCGAGCATCTCAATCATGTTTCGAT
** * * *
2817 TTAAAAAGAAATTAATTCGAAAAAAATGAAAAAAAAAAACAATATTAGAAGCTTG-ATAGTCCCT
252 TTAATTAGAAATTAATTCGAAAAAAATG---AAAAAAAACGATATTAGAAGCTTGAAAAG-CCCG
* * * * *
2881 TAAATCTTATTGGCGTTGAATTATATTTTTTTCGAAGTATTGTGGCAAGAAATT-A-AGAAGAAA
313 TCAATCTTATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAA
* * *
2944 TCATTCGGGTAAGTTTTTAGCCGAAATCGTGTACGT---CA-CA-G-TTTTTGCCTAAAAACGCG
378 T-TTTCGGGTCAGTTTTTAGCCGAAATCGTGTAC-TAACCATCATGATTTTTGGCTAAAAACGCG
* * * ** *
3003 TTCTGGGG-CCCGACTAAATTTTGAATGATTTTTGATGCAAAGACTCCTTGACATATCTATATTC
441 TTCCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTC
* * * *
3067 ATCGAACAAAATCTTAGCCATACTGGATATAAGAATTTG-TTTTTTCGAGCATCTCAATCATGTT
506 ATCGAACAAAATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTGGAGCATCTCAATCTTGTT
* ** * *
3131 TCGATTTAATTAGAAATTAATGTGGAAAAAATGAA-AAAAAAAAACAATATTAGAAGCTTGAAAA
571 TCGATTTAATTAGAAATTAAT-T-CAAAAAAAAAAGAAAAAAAAACGATATTAGAAACTTGAAAA
**
3195 GGGCGTCAATCT
634 GCCCGTCAATCT
* * *
3207 TATTGGCATTTAATTATATTTTGTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGG
1 TATTGGCGTTGAATTATATTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGG
* *
3272 TCAGTTTTTAGCCGAAATCGTGCACTAACCATCACGGTTTTTAGG-TAAAAACGCGTTCCGGTGC
66 TCAGTTTTTAGCCGAAATCATG--CTAACCATCAC-GTTTTT-GGCTAAAAACGCGTTCCGGGGC
** * **
3336 CCCTACTTAATTTTGCATGATTTTTGGC-ATAAAGACTTGTTGAAATATCTATATTCATCGAACA
127 CCCGGCTCAATTTTGCATGATTTTTGGCGA-AAAGACTCCTTGAAATATCTATATTCATCGAACA
* *
3400 AAATCTCAACCATACTGGATATAAGGATTTTATTTTTTCAAGCATCTCAATCAAGTTTCGATTTA
191 AAATCTCAACCATACTGGATATAAGGATTTT-TTTTTTCGAGCATCTCAATCATGTTTCGATTTA
* * * * *
3465 ATTAGAAAATAATTCGGAAAAAAATAAAAAAAAAAAAACAATATTAGAAGCTTGAAAA-CGGCAT
255 ATTAGAAATTAATTC-GAAAAAAAT----GAAAAAAAACGATATTAGAAGCTTGAAAAGC-CCGT
* *
3529 CAATCTTATTGGCGTTGAATTATATTTTTTTTTAAGTATTGTGGCTAAAAATTGAGAAAAAAAAA
314 CAATCTTATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAG-AAAAAAAA
** * * *
3594 TTTT-TTGTCAGCTTTTAGCCGAAATCGTG----AACCATCACGGTTTTTTGG-TAAAAACGCGT
378 TTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCA-TGATTTTTGGCTAAAAACGCGT
* *
3653 TCCAGGGCCCCGACTCAATTTTACATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCA
442 TCCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCA
* * *
3718 TCGAACAAAATCTCAGCCATACTGGATATAAGGATTT-TGTTTTTTCGAGCATTTCAATCATGTT
507 TCGAACAAAATCTCAGCCATACTGGATATAAGGATTTGT-TTTTTTGGAGCATCTCAATCTTGTT
** * * ** *
3782 TCGATTTAATTAGAAATTAATTCGGAAAAAAATG-AAAAATAACGATATTAGAAGGTTGAAAATC
571 TCGATTTAATTAGAAATTAATTCAAAAAAAAAAGAAAAAAAAACGATATTAGAAACTTGAAAAGC
3846 CCGTCAATCT
636 CCGTCAATCT
* * * *** ***
3856 TATTGGCGTTGAAGTATATTTTGTTCGAAGTATTGTAGCAAAAAATTGAG-AAAATTTTTTCTAC
1 TATTGGCGTTGAATTATATTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGG
** ** ***
3920 TTTGTTTTTAGCCGAAATTGTGTACTAATTGTCACTGTTTTTGGCTAAAAACGCGTTCCGGGG-C
66 TCAGTTTTTAGCCGAAATCATG--CTAACCATCAC-GTTTTTGGCTAAAAACGCGTTCCGGGGCC
* * * *
3984 CCGGACTCAGTTTTGCATGATTTTTGGCGAAAAGGCTCATTGAAATATCTATATTCACCGAACAA
128 CCGG-CTCAATTTTGCATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAACAA
* *
4049 AATCTCAACCATACTGGATATAAGGATTTGTTTTTTCAAGCATCTCAATCATGTTTCGATTTAAT
192 AATCTCAACCATACTGGATATAAGGATTTTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAAT
* * ** *
4114 TAAAAATTAATTCGAAAAAAAATG-AAAAGAACGATATTAGAAGCCTT-AAATTCCCATCAATCT
257 TAGAAATTAATTCG-AAAAAAATGAAAAAAAACGATATTAGAAG-CTTGAAAAGCCCGTCAATCT
4177 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTCGG
320 TATTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTCGG
* * * * *
4242 GTCAGTTTTTATCCGAAATCGTGTACT-ACTCATCACGCTTTTTGGCT-AAACCGCGTTCCTGGG
385 GTCAGTTTTTAGCCGAAATCGTGTACTAAC-CATCATGATTTTTGGCTAAAAACGCGTTCCGGGG
* * *
4305 CCCCGACTCAATTTTGCATGATTTTTGGCGCAAAAACTCCTTGAAATATCTATATTCATGGAACG
449 CCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACA
* * * * * *
4370 AAATCTCAACCATACTGGGTATAAGGATTT-TTTTTTTCGAGCATCCCAATCATGTTTCGATATA
514 AAATCTCAGCCATACTGGATATAAGGATTTGTTTTTTTGGAGCATCTCAATCTTGTTTCGATTTA
* ** * * **
4434 ATTAAAAATTAATTCGGAAAAAAATGATAAAAAAAAACGATATTAGAAGCCTT-AAATTCCCGTC
579 ATTAGAAATTAATTC--AAAAAAAAAAGAAAAAAAAACGATATTAGAA-ACTTGAAAAGCCCGTC
4498 AATCT
641 AATCT
*
4503 TATTGGCGTTGAATTATATTTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAAATTCGG
1 TATTGGCGTTGAATTATA-TTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGG
* * * *
4568 GTCAGTTTTTAGCCGAAATCGTGCACTAACCATCACGGTTTTGGCTAAAAACGCGTTCCGTGTCC
65 GTCAGTTTTTAGCCGAAATCATG--CTAACCATCACGTTTTTGGCTAAAAACGCGTTCCGGGGCC
* *
4633 CC-G----A------ATGATTTTTGGCGCAAAGACTCCCTGAAATATCTATATTCATCGAACAAA
128 CCGGCTCAATTTTGCATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAACAAA
* *
4687 ATCTTAGCCATACTGGATATAAGGA--TTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAATT
193 ATCTCAACCATACTGGATATAAGGATTTTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAATT
* * *
4750 AGAAATTAATTCGAAAAAAAATG-TAAAAAACGATATTAGAAGTTTGAAAAGCCCATCAATCTTA
258 AGAAATTAATTCG-AAAAAAATGAAAAAAAACGATATTAGAAGCTTGAAAAGCCCGTCAATCTTA
* * * *
4814 TTGGCGTTGAATTATATTTTTTTTTAAGTATTGTGGAAAAAAATTGAGAAGAAAAATTTTTGGGT
322 TTGGCGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTCGGGT
* * * * *
4879 CAGTTTTTAGCCGAAATCGTGTACTAACCAACACGGTTTTTTGCTAAAAACGCGTTACGGG
387 CAGTTTTTAGCCGAAATCGTGTACTAACCATCATGATTTTTGGCTAAAAACGCGTTCCGGG
4940 AATATCTATA
Statistics
Matches: 3695, Mismatches: 458, Indels: 289
0.83 0.10 0.07
Matches are distributed among these distances:
629 4 0.00
630 1 0.00
631 42 0.01
632 20 0.01
633 59 0.02
634 178 0.05
635 365 0.10
636 171 0.05
637 195 0.05
638 59 0.02
639 92 0.02
640 292 0.08
641 202 0.05
642 181 0.05
643 69 0.02
644 173 0.05
645 455 0.12
646 77 0.02
647 435 0.12
648 228 0.06
649 252 0.07
650 100 0.03
651 45 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (645 bp):
TATTGGCGTTGAATTATATTTTTTTCGAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGG
TCAGTTTTTAGCCGAAATCATGCTAACCATCACGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCG
GCTCAATTTTGCATGATTTTTGGCGAAAAGACTCCTTGAAATATCTATATTCATCGAACAAAATC
TCAACCATACTGGATATAAGGATTTTTTTTTTCGAGCATCTCAATCATGTTTCGATTTAATTAGA
AATTAATTCGAAAAAAATGAAAAAAAACGATATTAGAAGCTTGAAAAGCCCGTCAATCTTATTGG
CGTTGAATTATATTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTCGGGTCAGT
TTTTAGCCGAAATCGTGTACTAACCATCATGATTTTTGGCTAAAAACGCGTTCCGGGGCCCCGAC
TCAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACAAAATCTC
AGCCATACTGGATATAAGGATTTGTTTTTTTGGAGCATCTCAATCTTGTTTCGATTTAATTAGAA
ATTAATTCAAAAAAAAAAGAAAAAAAAACGATATTAGAAACTTGAAAAGCCCGTCAATCT
Found at i:5340 original size:221 final size:215
Alignment explanation
Indices: 4940--5364 Score: 602
Period size: 221 Copynumber: 1.9 Consensus size: 215
4930 GCGTTACGGG
* * * *
4940 AATATCTATATTTATCGAACCAAATCTCAGTCATTGATATAAGGATTTTTTTTTGGAGCATCTTA
1 AATATCTATATTTATCGAACAAAATCTCAGCCATTGATATAAGGATTTTTTTTTCGAGCATCTCA
* * * *
5005 ATCTTGTTTCGATTTAATTAGAAATAATTCGGAAAAAAAATGAAAAAAATGATTTTAGAAGCTTG
66 ATCATATTTCGATTTAATTAGAAATAATTCGGAAAAAAAATGAAAAAAACGATATTAGAAGCTTG
* ** *
5070 AAAAGCCCATCAATCTTATTGGAGTTGAATTATATATTTTTCTAAGTATTGTGGCAAAAATTTGA
131 AAAAGCCCATCAATCTTATTGGAGTTGAAGTATATATTTTTAGAAGTATTGTGGCAAAAAATTGA
5135 GAAAAAAAATGACTTCTTGA
196 GAAAAAAAATGACTTCTTGA
**
5155 AATATCTATATTTATCGAACAAAATCTTTGCCATACTGGATATAAGGATTTTGTTCTTTCGAGCA
1 AATATCTATATTTATCGAACAAAATCTCAGCCAT--T-GATATAAGGATTTT-TT-TTTCGAGCA
5220 TCTCAATCATATTTCGATTTAATTAGAAATTAATTCGG-AAAAAAATGAAAAATAACGATATTAG
61 TCTCAATCATATTTCGATTTAATTAGAAA-TAATTCGGAAAAAAAATGAAAAA-AACGATATTAG
* * * *
5284 AAGGTTGAAAATCCCGTCAATCTTATTGGCGTTGAAGTATAT-TTTGTTAGAAGTATTGTGGCAA
124 AAGCTTGAAAAGCCCATCAATCTTATTGGAGTTGAAGTATATATTT-TTAGAAGTATTGTGGCAA
5348 AAAATTGAGAAAAAAAA
188 AAAATTGAGAAAAAAAA
5365 AATCTCTGGT
Statistics
Matches: 184, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
215 30 0.16
217 1 0.01
218 14 0.08
219 2 0.01
220 51 0.28
221 86 0.47
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (215 bp):
AATATCTATATTTATCGAACAAAATCTCAGCCATTGATATAAGGATTTTTTTTTCGAGCATCTCA
ATCATATTTCGATTTAATTAGAAATAATTCGGAAAAAAAATGAAAAAAACGATATTAGAAGCTTG
AAAAGCCCATCAATCTTATTGGAGTTGAAGTATATATTTTTAGAAGTATTGTGGCAAAAAATTGA
GAAAAAAAATGACTTCTTGA
Done.