Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007715.1 Corchorus capsularis cultivar CVL-1 contig07736, 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: 20609
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Found at i:90 original size:12 final size:13
Alignment explanation
Indices: 49--93 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
39 AATTATTGTT
49 TGCTTTATTAATC
1 TGCTTTATTAATC
*
62 TGCTTTATTAATT
1 TGCTTTATTAATC
75 TGCTTTA-TAATC
1 TGCTTTATTAATC
87 TGCTTTA
1 TGCTTTA
94 GATTTAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.56
Consensus pattern (13 bp):
TGCTTTATTAATC
Found at i:1125 original size:332 final size:331
Alignment explanation
Indices: 343--4757 Score: 4304
Period size: 331 Copynumber: 13.5 Consensus size: 331
333 TTTCCGAATA
* * * ** * ** * *
343 AAATCGAAACAAGATTCTTATGCTAATAAAAACAAATCCCCAAATGCAACATGGCTGAGATTTTG
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTGG
* * * * * *
408 TTAGATAAATACAAAAATTTTAATGAGTCTTGGCGCC-AAAATCATGTAAAACTAAGTTGGGACC
66 TTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGACC
* * * * * * * *
472 TCAGAATGCGTTTTTAGCCAAAAACTTATGATAGTTAGTACACGGTTTCAGCTAAAATTTTGCGA
131 CCGGAACGCGTTTTTAGCCCAAAAC-TGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGC-A
* * * * *
537 AAAA-GGACCCGAAACATTTTTCCTCAATTTTTGGCCAGAATACTCACAAAAAATATATAATT-T
194 AAAATTGACCCGAAAGA-TTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCA
* * *
600 ATCGCCAAAAAGATTGAAGGGTTTTTCATGCTT-CAATTATCGTTTATCCTA-TTTTTTCGAATT
258 AT-GCCAAAAATATTGAAGGGCTTTTCATGCTTCCAA-TATCATTTATCCTATTTTTTTCGAATT
*
663 AATTTCTAATT
321 AATTTCTATTT
* * * * * *
674 AAATCGAAACAAGATTCTGATGCTCGCAAAAAGAAATCCTTAAATCCAATGTGCCGGAGATTTGG
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTGG
* * * * * *
739 TCAAATGAATACATATATTTTAATGTGTCTTGGCGCCAAAAA-CAATGGAAAACTGAGTTGGGAC
66 TTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATC-ATGCAAAACTGAGTCGGGAC
* * * * *
803 CTCGGAACGCGTCTTTAGTCCAAAATTGTGATGGTTAGTACACG-TTTCCGGCTCAAATTTTGCA
130 CCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTT-CGGCTAAAATTTTGCA
* * *
867 AAAATTGACCCGAACGATTTTCCTCAATTTTTTGCCACAATACTCATAAAAATTATATAATTCAA
194 AAAATTGACCCGAAAGATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAA
* ** * * * * *
932 TGCCTAAAATGATTGAATGGTTTTTTTATGCTTCTATTATCGTTTATCCTATTTTTTTTGAATTA
259 TGCCAAAAAT-ATTGAA-GGGCTTTTCATGCTTCCAATATCATTTATCCTATTTTTTTCGAATTA
*
997 ATTTCTAATT
322 ATTTCTATTT
* * * * * *
1007 AAATCGAAAAAAGATTCTGATGCTCGCAAAAACAAATCCTTAAATCCAATGTGTCGGAGATTAGG
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTGG
* * *
1072 -TAGATGAATACAGATATTTTAATGAGTCTTGGCGTCAAGAATCATGCAAAACTGAGTCGGAACC
66 TTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGACC
* * *
1136 CCAGAACGCGTTTTTAGCCCAAAACTGTGAT-G---G-ACACGATTTCGGCTTAAATTTTGCGAA
131 CCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAA
* * * * * *
1196 AATTGACCGGAATGATTTTCCTCAATTTTTGGCCACAATAGTCA-AAAATATTACATGATTCAAT
196 AATTGACCCGAAAGATTTTCCTCAATTTTTGGCCACAATACTCATAAAA-AATATATAATTCAAT
* * *
1260 ACCAAAAATATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTTTCCAGAATTAAT
260 GCCAAAAATATTGAAGGGCTTTTCATGCTTCCAATATCATTTATCCTATTTTTTTC-GAATTAAT
1325 TTCTATTT
324 TTCTATTT
* * *
1333 AAATCGAAATAGGATTCTGATCCTAGTAAAAACAAATCCTTAAATCAACCAT-TG-CTGAGATTT
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATC--CAATGTGTCTGAGATTT
* * * * * * *
1396 GGTTAGATAAATACAGATATTTTAATAAGTTTTGTCGCCAAAAATCATGTAAAAATGTGTCGGGA
64 GGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGA
* * * * *
1461 CCCCGGAACGCGTTTTTAGCACAAAACTATGATAGTTATTATAACGATTTCGGCTAAAATTTTGC
129 CCCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTA-CACGATTTCGGCTAAAATTTTGC
** * * * * ** * * *
1526 TTAAATTGATCTGAAATATTTTTCCTCAATTTCTACCCAAAATACTTATAAAAAATATATAATTT
193 AAAAATTGACCCGAAAGA-TTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTC
* *
1591 AATGCCAAAAATATTGAAGGGCTTTTCAAT-CTTACAATATCATTTATCCTATTTTTTCCCGAAT
257 AATGCCAAAAATATTGAAGGGCTTTTC-ATGCTTCCAATATCATTTATCCTATTTTTT-TCGAAT
1655 TAATTTCTATTT
320 TAATTTCTATTT
* *
1667 AAATCGAAACAAGATTCTGATCCTAGT---AA-AAA--C----A---AATGTGCCGGAGATTTGG
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTGG
* * * * *
1719 TTAGATGAATACAGATATTTTAGTGAGTTTTAGTGCCAAAAATCATGCAAAATTGAGTCGGGA-C
66 TTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGACC
* *
1783 CCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGCACATGATTTCGGCTAAAATTTTGCAAA
131 CCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAA
* * *
1848 AATTGACCTGAATGATTTTCCTCAATTTTAGGCCACAATACTCATAAAAAATATATAATTCAAT-
196 AATTGACCCGAAAGATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAATG
* *
1912 CCAAAAAATATTGAAGGGCTTTCCATTCTTCCAATATCATTTATCCTATTTTTTTCCGAATTAAT
261 CC-AAAAATATTGAAGGGCTTTTCATGCTTCCAATATCATTTATCCTATTTTTTT-CGAATTAAT
1977 TT-TCATTT
324 TTCT-ATTT
* * * * * * *
1985 AAATCTAAAGAAGATTTTGATCCTAGTAAAAACAATTTCTCAAATCAGACATG-GT-TGAGATTT
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATC-CA-ATGTGTCTGAGATTT
* *
2048 GTTTAGATGAATACAGATATTTTAATGAGTCTTGCCGCCAAAAATCATGCAAAACTGAGTCGGGA
64 GGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGA
* * ** * * *
2113 ACTCGGATTGCATTTTTAG-CTAATAACTTGTGATGGTTAGTACACGATTTCGGTTAAAA--TT-
129 CCCCGGAACGCGTTTTTAGCCCAA-AAC-TGTGATGGTTAGTACACGATTTCGGCTAAAATTTTG
*
2174 ------TT--CCC---------T--T-AATTTTTGGCCAGAATACTCATAAAAAATATATAATTC
192 CAAAAATTGACCCGAAAGATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTC
* * *** **
2219 -ATCGCCAAAAAAATTGAAGGGTTTTTCATGCTTCTGTTATTGTTTATCCTATTTTTTTTTCGAA
257 AAT-GCCAAAAATATTGAAGGGCTTTTCATGCTTCCAATATCATTTATCCTA--TTTTTTTCGAA
*
2283 TTAATTTCTAATT
319 TTAATTTCTATTT
* * * * *
2296 AAATCCAAACAAGATTCTGA-CGCTTGTAAAAAGAAATCCTTAAATCC--TGTGCCCGAGATTTG
1 AAATCGAAACAAGATTCTGATC-CTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTG
* * *
2358 GTTAGATGAATACAGATATTTTAATGAGACTTGGCGCCAAAAA-AATGCAAAACCGAGTCGGGAC
65 GTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGAC
* * *
2422 CCCGGAATGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGTTAAAATTTTGCGA
130 CCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAA
* * *
2487 AAATTGACCTGAAAGATTTTTCCTCAATTTTTGGCCAGAATACTCACAAAAAATATATAATTC-A
195 AAATTGACCCGAAAGA-TTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAA
* * * * *
2551 TCGCCAAAAAGATTG-ATGGCTTTTTTTATGCTTCTATTATCATTTATCCTATTTTTTTCGAATT
259 T-GCCAAAAATATTGAAGGGC--TTTTCATGCTTCCAATATCATTTATCCTATTTTTTTCGAATT
*
2615 AATTTCTAATT
321 AATTTCTATTT
* * * * * *
2626 AAATCGAAACAAGATTTTGATGCTCGTAAAAACAAATTCTTAAATCCAATGTGTCGGAGATTAGG
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTGG
** * * * *
2691 TTAGATGAATACTTATATTTTAATGAGTTTTGGCGTCAAGAATCATGCAAAACTGAGTCGGAACC
66 TTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGACC
* * * *
2756 CCAGAACGCGTTTTCAGCCCAAAACTGTGA-GG---G-ACACGATTTCGGCTTAAATTTTGCGAA
131 CCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAA
* * * * * *
2816 AATTGACCGGAATGATTTTCCTCAATTTTTTGCCACAATACTCA-AAAATAGTACATAATTCAAC
196 AATTGACCCGAAAGATTTTCCTCAATTTTTGGCCACAATACTCATAAAA-AATATATAATTCAAT
** * * *
2880 ATCAAAAATATTGAATGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTTCTTAAGAATTAA
260 GCCAAAAATATTGAAGGGCTTTTCATGCTTCCAATATCATTTATCCTATTTTT-TT-CGAATTAA
*
2945 TTACTATTT
323 TTTCTATTT
* * * ** *
2954 AAATCGAAACAAGATTCGGATCCTAAGTAAAAACAAATCCTCAAACCCAACATGGCTGAGATTTG
1 AAATCGAAACAAGATTCTGATCCT-AGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTG
* * * * * * * *
3019 GTTAGATGAATATAGATATTTTAATGAGCCTTGGCGCCAAAATTCGTACATAACTGCGTCGGGAT
65 GTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGAC
* * * *
3084 CCCGAAACGCGTTTTTAGCCCAAAACTGCGATGGTTAGTACACGTTTTCGGCTAAAATTTTGCGA
130 CCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAA
* * * * * * *
3149 AAATTGACCGGAACGATTTTCCTCAATTTTTTTGCCACAATACTGATAAGAATTATATAATTCAT
195 AAATTGACCCGAAAGATTTTCCTCAA-TTTTTGGCCACAATACTCATAAAAAATATATAATTCAA
* * * * * * *
3214 TGCCAAAATTATTGAGGGGCTTTACATTCTTACAATATCATATATCATATTTTTTTTCTGAATTA
259 TGCCAAAAATATTGAAGGGCTTTTCATGCTTCCAATATCATTTATCCTA-TTTTTTTC-GAATTA
* *
3279 ATTTCCATCT
322 ATTTCTATTT
* * ** *
3289 AAATCGAAACAAGATTCTGATCCTAGTGAAAACAAATCCTCAAATCCAACATGGCTGAGATTTGG
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTGG
* * *
3354 TTAGATGAATACAGATATTTTAATGAGTCTTGACACCAAAAATCATGCAAAACCGAGTCGGGACC
66 TTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGACC
* * *
3419 CCGGAATGCGTTTTTAGCCCAAAAC--TGATGGTTAGTACACGTTTTCGGCTAAAATTTTGCGAA
131 CCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAA
* * * *
3482 GATTGACCCGAATGATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTTAACG
196 AATTGACCCGAAAGATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAATG
* * * *
3547 CCAAAAATATTGAAAGGCTTTTCATTCTTCCATTATCATTTATCCTATTTTTTTCAAAATTAATT
261 CCAAAAATATTGAAGGGCTTTTCATGCTTCCAATATCATTTATCCTATTTTTTTC-GAATTAATT
3612 TCTATTT
325 TCTATTT
* * * * **
3619 ACATCGAAACAAGATTCTGATCCTGGTAACAATAAATCCTTAAATCCAACATG-CATGAGATTTG
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTC-TGAGATTTG
* * *
3683 ATTAGATGAATACAAATATTTTAATGAGTCTTTGCGCCAAAAATCATGCAAAACTGAGTCGGGAC
65 GTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGAC
* *
3748 CCCGGAACACGTTTTTAGCCCAAAACTGTGAT-G-TA-T--A-G---T---CTAAAAATTTTGCT
130 CCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCT-AAAATTTTGCA
* * * ** *
3801 AAAATTGACCCGAAATATTTTTCCTGAATTTCTACCCAGAATACTCATAAAAGAATATATAATTC
194 AAAATTGACCCGAAAGA-TTTTCCTCAATTTTTGGCCACAATACTCATAAAA-AATATATAATTC
* * *
3866 AAT-CCTAAAAATATTGAAGGGCTTTTCA-GTCTTCCAATATCATTTATCATATTTTTTCCGAAC
257 AATGCC-AAAAATATTGAAGGGCTTTTCATG-CTTCCAATATCATTTATCCTATTTTTTTCGAAT
3929 TAATTTCTATTT
320 TAATTTCTATTT
* * * * *
3941 AAATCGAAACAAGATTCTGATACTAGTAAAAA-AAATCCTCAAATACAATGTGACTGAGATTGGG
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTGG
* * * * * * * *
4005 TTACATAAATACGGATATTTTAACGAGTCTTGGTGTCAAAAATCATGCAAAACTAAGTCAGGACC
66 TTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGACC
** * * * * **
4070 CCGGAATACGTTTTTGGCACAAAACTGTGAT-GTAACATACACGATTTCGTTTAAAATTTTGCAA
131 CCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTA-GTACACGATTTCGGCTAAAATTTTGCAA
** * * * *
4134 AAATTGACCTAAAAGATATTTCCTCAATTTTTGGCCAGAATACTCACAAATAATATATAATT-TA
195 AAATTGACCCGAAAGAT-TTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAA
* * * * * * *
4198 TCGCCAAAAAGATTGAAGTGTTTTTCATGCTTCTATTATCGTTTCTCCTA---TTTT----TT--
259 T-GCCAAAAATATTGAAGGGCTTTTCATGCTTCCAATATCATTTATCCTATTTTTTTCGAATTAA
4254 TTTC-----
323 TTTCTATTT
* * *** * * **
4258 -GA---AAACAAGATTCTGATACTCCCAAAAACAAATCCTTAAATCTAATGTGTCAGAGATTTCT
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTGG
* ** * ** **
4319 TTAGATGAATACAGATATTTTAATGAGTCTTCGTACAAAAAAATCATGCAAATTTGAGTCAAGAC
66 TTAGATGAATACAGATATTTTAATGAGTCTTGGCGC-CAAAAATCATGCAAAACTGAGTCGGGAC
* * * * * * *
4384 CTCAGAACGCGTTTTTATCCTAAAACTTTGATGGTTATTATACGATTTCGGCTAAAATTTTG-AG
130 CCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCA-
* * * * * * *
4448 AAAATTGACTCGGAACGATTTTCCTCAATTTTTTTTGCCATAATACTCATAAAAATTGTATAGTT
194 AAAATTGAC-CCGAAAGATTTTCCTCAA--TTTTTGGCCACAATACTCATAAAAAATATATAATT
* * * *
4513 CAATGCCAAAAATATTGAAGGACTTTTCATTCTTCCAATCTCATTTATCCTATTTTTTTCAAAAT
256 CAATGCCAAAAATATTGAAGGGCTTTTCATGCTTCCAATATCATTTATCCTATTTTTTTC-GAAT
*
4578 TAATTTCCATTT
320 TAATTTCTATTT
* * * * * *
4590 AAATCGAAACAAGATTATGATCCTAGTAAAAACAAATTCTCAAAACGAATGTGGCT-AGGATTTG
1 AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGA-GATTTG
** * * * * * * *
4654 GTTCCATAAATACAGATATTTTAAAGATTCTTTGCACCAAAAACCATGCAAAATTGAGTCGGGA-
65 GTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGAC
* * *
4718 CCCGGAACACGTTTTTTGCCCAAAACTGTGAGGGTTAGTA
130 CCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTA
4758 TATTTTATAT
Statistics
Matches: 3399, Mismatches: 528, Indels: 311
0.80 0.12 0.07
Matches are distributed among these distances:
307 33 0.01
308 37 0.01
309 55 0.02
310 73 0.02
311 53 0.02
312 8 0.00
313 24 0.01
314 54 0.02
315 85 0.03
316 12 0.00
317 71 0.02
318 131 0.04
319 36 0.01
320 43 0.01
321 198 0.06
322 83 0.02
323 61 0.02
324 6 0.00
325 34 0.01
326 111 0.03
327 220 0.06
328 93 0.03
329 112 0.03
330 294 0.09
331 375 0.11
332 361 0.11
333 198 0.06
334 320 0.09
335 137 0.04
336 81 0.02
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (331 bp):
AAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTTAAATCCAATGTGTCTGAGATTTGG
TTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGACC
CCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAA
AATTGACCCGAAAGATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAATG
CCAAAAATATTGAAGGGCTTTTCATGCTTCCAATATCATTTATCCTATTTTTTTCGAATTAATTT
CTATTT
Found at i:1949 original size:652 final size:652
Alignment explanation
Indices: 399--4757 Score: 3966
Period size: 652 Copynumber: 6.7 Consensus size: 652
389 CAACATGGCT
* * * * * *
399 GAGATTTTGTTAGATAAATACAAAAATTTTAATGAGTCTTGGCGCC-AAAATCATGTAAAACTAA
1 GAGATTTGGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGA
* * * * * * * * *
463 GTTGGGACCTCAGAATGCGTTTTTAGCCAAAAACTTATGATAGTTAGTACACGGTTTCAGCTAAA
66 GTCGGGACCCCGGAACGCGTTTTTAGCCCAAAAC-TGTGATGGTTAGTACACGATTTCGGCTAAA
* * ** * *
528 ATTTTGCGAAAAA-GGACCCGAAACATTTTTCCTCAATTTTTGGCCAGAATACTCACAAAAAATA
130 ATTTTGC-AAAAATTGACCGGAATGA-TTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATA
* * * * *
592 TATAATT-TATCGCCAAAAAGATTGAAGGGTTTTTCATGCTT-CAATTATCGTTTATCCTATTTT
193 TATAATTCAAT--CCAAAAATATTGAAGGGCTTTTCATTCTTCCAA-TATCATTTATCCTATTTT
* * * * * *
655 TT-CGAATTAATTTCTAATTAAATCGAAACAAGATTCTGATGCTCGCAAAAAGAAATCCTTAAAT
255 TTCCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCAAAT
* * * * * *
719 C-CAATGTGCCGGAGATTTGGTCAAATGAATACATATATTTTAATGTGTCTTGGCGCCAAAAA-C
320 CACAATGTG-CTGAGATTTGGTTAGATGAATACAGATATTTTAATGAGTTTTGGCGCCAAAAATC
* * * * *
782 AATGGAAAACTGAGTTGGGACCTCGGAACGCGTCTTTAGTC-CAAAATTGTGATGGTTAGTACAC
384 -ATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAG-CACAAAACTGTGATGGTTAGTACAC
* ** *
846 G-TTTCCGGCTCAAATTTTGCAAAAATTGACCCGAACGATTTTCCTCAATTTTTTGCCACAATAC
447 GATTT-CGGCTAAAATTTTGC-AAAATTGACCCGAAATATTTTCCTCAATTTTTGGCCACAATAC
* * * * * ** *
910 TCATAAAAATTATATAATTCAATGCCTAAAATGATTGAATGGTTTTTTTATGCTTCTATTATCGT
510 TCATAAAAAATATATAATTTAATGCCAAAAAT-ATTGAAGGGCTTTTCAATGCTTCTATTATCAT
* * * **
975 TTATCCTATTTTTTTT-GAATTAATTTCTAATTAAATCGAAAAAAGATTCTGATGCTCGCAAAAA
574 TTATCCTATTTTTTTTCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGAT-C-C-TAGTAA
*
1039 CAAATCCTTAAATCCAATGTGTCG
636 CAAA-CC-T--A---AATGTGCCG
* * *
1063 GAGATTAGG-TAGATGAATACAGATATTTTAATGAGTCTTGGCGTCAAGAATCATGCAAAACTGA
1 GAGATTTGGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGA
* * *
1127 GTCGGAACCCCAGAACGCGTTTTTAGCCCAAAACTGTGAT-G---G-ACACGATTTCGGCTTAAA
66 GTCGGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAA
* * * *
1187 TTTTGCGAAAATTGACCGGAATGATTTTCCTCAATTTTTGGCCACAATAGTCA-AAAATATTACA
131 TTTTGCAAAAATTGACCGGAATGATTTTCCTCAATTTTTGGCCACAATACTCATAAAA-AATATA
*
1251 TGATTCAATACCAAAAATATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTTTCC
195 TAATTCAAT-CCAAAAATATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTTTCC
* * *
1316 AGAATTAATTTCTATTTAAATCGAAATAGGATTCTGATCCTAGTAAAAACAAATCCTTAAATCAA
259 -GAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCAAATC-A
* * * *
1381 CCAT-TGCTGAGATTTGGTTAGATAAATACAGATATTTTAATAAGTTTTGTCGCCAAAAATCATG
322 CAATGTGCTGAGATTTGGTTAGATGAATACAGATATTTTAATGAGTTTTGGCGCCAAAAATCATG
* * * * * * *
1445 TAAAAATGTGTCGGGACCCCGGAACGCGTTTTTAGCACAAAACTATGATAGTTATTATAACGATT
387 CAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCACAAAACTGTGATGGTTAGTA-CACGATT
* * * * ** * *
1510 TCGGCTAAAATTTTGCTTAAATTGATCTGAAATATTTTTCCTCAATTTCTACCCAAAATACTTAT
451 TCGGCTAAAATTTTGC-AAAATTGACCCGAAATA-TTTTCCTCAATTTTTGGCCACAATACTCAT
*
1575 AAAAAATATATAATTTAATGCCAAAAATATTGAAGGGCTTTTCAAT-CTTAC-AATATCATTTAT
514 AAAAAATATATAATTTAATGCCAAAAATATTGAAGGGCTTTTCAATGCTT-CTATTATCATTTAT
**
1638 CCTATTTTTTCCCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAA-AAA-C-
578 CCTATTTTTTTTCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAACAAACCT
1700 AAATGTGCCG
643 AAATGTGCCG
* * * * *
1710 GAGATTTGGTTAGATGAATACAGATATTTTAGTGAGTTTTAGTGCCAAAAATCATGCAAAATTGA
1 GAGATTTGGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGA
* *
1775 GTCGGGA-CCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGCACATGATTTCGGCTAAAA
66 GTCGGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAA
* *
1839 TTTTGCAAAAATTGACCTGAATGATTTTCCTCAATTTTAGGCCACAATACTCATAAAAAATATAT
131 TTTTGCAAAAATTGACCGGAATGATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATAT
*
1904 AATTCAATCCAAAAAATATTGAAGGGCTTTCCATTCTTCCAATATCATTTATCCTATTTTTTTCC
196 AATTCAATCC-AAAAATATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTA-TTTTTTCC
* * * * * *
1969 GAATTAATTT-TCATTTAAATCTAAAGAAGATTTTGATCCTAGTAAAAACAATTTCTCAAATCAG
259 GAATTAATTTCT-ATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCAAATCAC
* * * *
2033 ACATG-GTTGAGATTTGTTTAGATGAATACAGATATTTTAATGAGTCTTGCCGCCAAAAATCATG
323 A-ATGTGCTGAGATTTGGTTAGATGAATACAGATATTTTAATGAGTTTTGGCGCCAAAAATCATG
* * ** * *
2097 CAAAACTGAGTCGGGAACTCGGATTGCATTTTTAGCTA-ATAACTTGTGATGGTTAGTACACGAT
387 CAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGC-ACAAAAC-TGTGATGGTTAGTACACGAT
* *
2161 TTCGGTTAAAA--TT------TT--CCC---------T--T-AATTTTTGGCCAGAATACTCATA
450 TTCGGCTAAAATTTTGCAAAATTGACCCGAAATATTTTCCTCAATTTTTGGCCACAATACTCATA
* * * * **
2204 AAAAATATATAA-TTCATCGCCAAAAAAATTGAAGGGTTTTTC-ATGCTTCTGTTATTGTTTATC
515 AAAAATATATAATTTAAT-GCCAAAAATATTGAAGGGCTTTTCAATGCTTCTATTATCATTTATC
* * * *
2267 CTATTTTTTTTTCGAATTAATTTCTAATTAAATCCAAACAAGATTCTGA-CGCTTGTAAAAAGAA
579 CTA-TTTTTTTTCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATC-CTAGT---AACAA
*
2331 ATCCTTAAATCCTGTGCCC
639 A-CC-TAAA---TGTGCCG
* * *
2350 GAGATTTGGTTAGATGAATACAGATATTTTAATGAGACTTGGCGCCAAAAA-AATGCAAAACCGA
1 GAGATTTGGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGA
* *
2414 GTCGGGACCCCGGAATGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGTTAAAA
66 GTCGGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAA
* * * * *
2479 TTTTGCGAAAATTGACCTGAAAGATTTTTCCTCAATTTTTGGCCAGAATACTCACAAAAAATATA
131 TTTTGCAAAAATTGACCGGAATGA-TTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATA
* * * * * *
2544 TAATTC-ATCGCCAAAAAGATTG-ATGGCTTTTTTTATGCTTCTATTATCATTTATCCTATTTTT
195 TAATTCAAT--CCAAAAATATTGAAGGGC--TTTTCATTCTTCCAATATCATTTATCCTATTTTT
* * * * * * *
2607 TTCGAATTAATTTCTAATTAAATCGAAACAAGATTTTGATGCTCGTAAAAACAAATTCTTAAATC
256 TCCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCAAATC
* * ** * *
2672 -CAATGTGTCGGAGATTAGGTTAGATGAATACTTATATTTTAATGAGTTTTGGCGTCAAGAATCA
321 ACAATGTG-CTGAGATTTGGTTAGATGAATACAGATATTTTAATGAGTTTTGGCGCCAAAAATCA
* * * *
2736 TGCAAAACTGAGTCGGAACCCCAGAACGCGTTTTCAGCCCAAAACTGTGA-GG---G-ACACGAT
385 TGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCACAAAACTGTGATGGTTAGTACACGAT
* * *
2796 TTCGGCTTAAATTTTGCGAAAATTGA-CCGGAATGATTTTCCTCAATTTTTTGCCACAATACTCA
450 TTCGGCTAAAATTTTGC-AAAATTGACCCGAAAT-ATTTTCCTCAATTTTTGGCCACAATACTCA
* * * *** * * * *
2860 -AAAATAGTACATAATTCAACATCAAAAATATTGAATGGCTTTTC-ATTCTTCCAATATCATTTA
513 TAAAA-AATATATAATTTAATGCCAAAAATATTGAAGGGCTTTTCAATGCTTCTATTATCATTTA
** * *
2923 TCCTATTTTTCTTAAGAATTAATTACTATTTAAATCGAAACAAGATTCGGATCCTAAGTAAAAAC
577 TCCTATTTTT-TTTCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCT-AGT---AAC
** * *
2988 AAATCCTCAAACCCAACATGGCT
637 AAA-CCT---A---AATGTGCCG
* * * * * * *
3011 GAGATTTGGTTAGATGAATATAGATATTTTAATGAGCCTTGGCGCCAAAATTCGTACATAACTGC
1 GAGATTTGGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGA
* * * *
3076 GTCGGGATCCCGAAACGCGTTTTTAGCCCAAAACTGCGATGGTTAGTACACGTTTTCGGCTAAAA
66 GTCGGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAA
* * * * * *
3141 TTTTGCGAAAATTGACCGGAACGATTTTCCTCAATTTTTTTGCCACAATACTGATAAGAATTATA
131 TTTTGCAAAAATTGACCGGAATGATTTTCCTCAA-TTTTTGGCCACAATACTCATAAAAAATATA
* * * * * * *
3206 TAATTCATTGCCAAAATTATTGAGGGGCTTTACATTCTTACAATATCATATATCATATTTTTTTT
195 TAATTCAAT-CCAAAAATATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTA--TTTTTT
* * * *
3271 CTGAATTAATTTCCATCTAAATCGAAACAAGATTCTGATCCTAGTGAAAACAAATCCTCAAATC-
257 CCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCAAATCA
* * *
3335 CAACATG-GCTGAGATTTGGTTAGATGAATACAGATATTTTAATGAGTCTTGACACCAAAAATCA
322 C-A-ATGTGCTGAGATTTGGTTAGATGAATACAGATATTTTAATGAGTTTTGGCGCCAAAAATCA
* * * *
3399 TGCAAAACCGAGTCGGGACCCCGGAATGCGTTTTTAGCCCAAAAC--TGATGGTTAGTACACGTT
385 TGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCACAAAACTGTGATGGTTAGTACACGAT
*
3462 TTCGGCTAAAATTTTGCGAAGATTGACCCG-AATGATTTTCCTCAATTTTTGGCCACAATACTCA
450 TTCGGCTAAAATTTTGC-AAAATTGACCCGAAAT-ATTTTCCTCAATTTTTGGCCACAATACTCA
* * * *
3526 TAAAAAATATATAATTTAACGCCAAAAATATTGAAAGGCTTTTC-ATTCTTCCATTATCATTTAT
513 TAAAAAATATATAATTTAATGCCAAAAATATTGAAGGGCTTTTCAATGCTTCTATTATCATTTAT
* * *
3590 CCTA-TTTTTTTCAAAATTAATTTCTATTTACATCGAAACAAGATTCTGATCCTGGTAACAATAA
578 CCTATTTTTTTTC-GAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAC---AA
* **
3654 ATCCTTAAATCCAACATGCAT
639 A-CC-TAAAT-----GTGCCG
* * *
3675 GAGATTTGATTAGATGAATACAAATATTTTAATGAGTCTTTGCGCCAAAAATCATGCAAAACTGA
1 GAGATTTGGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGA
*
3740 GTCGGGACCCCGGAACACGTTTTTAGCCCAAAACTGTGAT-G-TA-T--A-G---T---CTAAAA
66 GTCGGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCT-AAA
* * * * ** *
3793 ATTTTGCTAAAATTGACCCGAAAT-ATTTTTCCTGAATTTCTACCCAGAATACTCATAAAAGAAT
130 ATTTTGCAAAAATTGA-CCGGAATGA-TTTTCCTCAATTTTTGGCCACAATACTCATAAAA-AAT
* *
3857 ATATAATTCAATCCTAAAAATATTGAAGGGCTTTTCAGTCTTCCAATATCATTTATCATATTTTT
192 ATATAATTCAATCC-AAAAATATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTT
* *
3922 TCCGAACTAATTTCTATTTAAATCGAAACAAGATTCTGATACTAGTAAAAA-AAATCCTCAAAT-
256 TCCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCAAATC
* * * * * * * *
3985 ACAATGTGACTGAGATTGGGTTACATAAATACGGATATTTTAACGAGTCTTGGTGTCAAAAATCA
321 ACAATGTG-CTGAGATTTGGTTAGATGAATACAGATATTTTAATGAGTTTTGGCGCCAAAAATCA
* * ** * * *
4050 TGCAAAACTAAGTCAGGACCCCGGAATACGTTTTTGGCACAAAACTGTGAT-GTAACATACACGA
385 TGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCACAAAACTGTGATGGTTA-GTACACGA
** ** * *
4114 TTTCGTTTAAAATTTTGCAAAAATTGACCTAAAAGATATTTCCTCAATTTTTGGCCAGAATACTC
449 TTTCGGCTAAAATTTTGC-AAAATTGACCCGAAATAT-TTTCCTCAATTTTTGGCCACAATACTC
* * * * * *
4179 ACAAATAATATATAATTT-ATCGCCAAAAAGATTGAAGTGTTTTTC-ATGCTTCTATTATCGTTT
512 ATAAAAAATATATAATTTAAT-GCCAAAAATATTGAAGGGCTTTTCAATGCTTCTATTATCATTT
* ** * * ** **
4242 CTCCTATTTTTTTTTCGAAAACAAGATTCTGA--T-ACTCCCAA-AA-A--CAAATCCT--T---
576 ATCCTA-TTTTTTTTCG-AATTAA-TTTCT-ATTTAAATCGAAACAAGATTCTGATCCTAGTAAC
* * *
4295 AAATCT-AATGTGTCA
637 AAACCTAAATGTGCCG
** * ** * **
4310 GAGATTTCTTTAGATGAATACAGATATTTTAATGAGTCTTCGTACAAAAAAATCATGCAAATTTG
1 GAGATTTGGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGC-CAAAAATCATGCAAAACTG
** * * * * * * *
4375 AGTCAAGACCTCAGAACGCGTTTTTATCCTAAAACTTTGATGGTTATTATACGATTTCGGCTAAA
65 AGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAA
* * * *
4440 ATTTTG-AGAAAATTGACTCGGAACGATTTTCCTCAATTTTTTTTGCCATAATACTCATAAAAAT
130 ATTTTGCA-AAAATTGAC-CGGAATGATTTTCCTCAA--TTTTTGGCCACAATACTCATAAAAAA
* * * *
4504 TGTATAGTTCAATGCCAAAAATATTGAAGGACTTTTCATTCTTCCAATCTCATTTATCCTATTTT
191 TATATAATTCAAT-CCAAAAATATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTA-TTT
** * * *
4569 TTTCAAAATTAATTTCCATTTAAATCGAAACAAGATTATGATCCTAGTAAAAACAAATTCTCAAA
254 TTTCCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCAAA
** * * * *
4634 --ACGAATGTGGCT-AGGATTTGGTTCCATAAATACAGATATTTTAAAGA-TTCTTTGCACCAAA
319 TCAC-AATGT-GCTGA-GATTTGGTTAGATGAATACAGATATTTTAATGAGTT-TTGGCGCCAAA
* * * * * *
4695 AACCATGCAAAATTGAGTCGGGA-CCCGGAACACGTTTTTTGCCCAAAACTGTGAGGGTTAGTA
380 AATCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCACAAAACTGTGATGGTTAGTA
4758 TATTTTATAT
Statistics
Matches: 3059, Mismatches: 475, Indels: 337
0.79 0.12 0.09
Matches are distributed among these distances:
627 7 0.00
628 68 0.02
629 46 0.02
631 1 0.00
632 2 0.00
633 3 0.00
635 58 0.02
636 50 0.02
637 6 0.00
638 2 0.00
639 23 0.01
640 143 0.05
641 195 0.06
642 29 0.01
643 5 0.00
644 2 0.00
645 3 0.00
646 1 0.00
647 77 0.03
648 111 0.04
649 110 0.04
650 80 0.03
651 111 0.04
652 331 0.11
653 102 0.03
654 153 0.05
655 6 0.00
656 20 0.01
657 101 0.03
658 139 0.05
659 191 0.06
660 82 0.03
661 146 0.05
662 135 0.04
663 189 0.06
664 160 0.05
665 45 0.01
666 119 0.04
667 7 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (652 bp):
GAGATTTGGTTAGATGAATACAGATATTTTAATGAGTCTTGGCGCCAAAAATCATGCAAAACTGA
GTCGGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATGGTTAGTACACGATTTCGGCTAAAA
TTTTGCAAAAATTGACCGGAATGATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATAT
AATTCAATCCAAAAATATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTTTCCGA
ATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCAAATCACAAT
GTGCTGAGATTTGGTTAGATGAATACAGATATTTTAATGAGTTTTGGCGCCAAAAATCATGCAAA
ACTGAGTCGGGACCCCGGAACGCGTTTTTAGCACAAAACTGTGATGGTTAGTACACGATTTCGGC
TAAAATTTTGCAAAATTGACCCGAAATATTTTCCTCAATTTTTGGCCACAATACTCATAAAAAAT
ATATAATTTAATGCCAAAAATATTGAAGGGCTTTTCAATGCTTCTATTATCATTTATCCTATTTT
TTTTCGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAACAAACCTAAATGTGC
CG
Found at i:5231 original size:26 final size:26
Alignment explanation
Indices: 5195--6870 Score: 1215
Period size: 26 Copynumber: 59.7 Consensus size: 26
5185 GAGGGAGTAT
*
5195 TGAATATGCAACAATATGACCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
* ** **
5221 TGAATATGCAACTCTATGGGCATTAC
1 TGAATATGCAACTATATGACCCCTAC
5247 TGAATATGCAACTATATGACCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
* *
5273 TGAATATGTAACTATATGATCATTTGTCCTAC
1 TGAATATGCAACTATATGA-C-----CCCTAC
**
5305 TGAATATGCAACTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
* *** *
5331 TAAATATGCCACTACATGATAATGTGTCTTAC
1 TGAATATG-CA--AC-T-AT-ATGACCCCTAC
*
5363 TGAATATGCAATTATATGATCATGGCCCCTAC
1 TGAATATGCAACTATATG---A---CCCCTAC
*
5395 TGAATATGCAAATATATGATCATGGCCCTAC
1 TGAATATGCAACTATATGA-C----CCCTAC
**
5426 TGAATATGCAACTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
5452 TGAATATGCAAATATATGATCATGGCCCTAC
1 TGAATATGCAACTATATGA-C----CCCTAC
*
5483 TGAATATGCAAC--TATGGCCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
5507 TGAATATGCAAATATATGATCATGGCCCTAC
1 TGAATATGCAACTATATGA-C----CCCTAC
*
5538 TGAATATGCAACTATATGATCATGTGTCCTAC
1 TGAATATGCAACTATATGA-C-----CCCTAC
*
5570 TGAATATGCAACTATATGGCCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
* **
5596 TGAATATGCAATTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
5622 TGAATATGCAACAATATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGA-C-----CCCTAC
**
5654 TGAATATGCAACTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
* *** *
5680 TGAATATGGCATTATATGATAATGTGTCATAC
1 TGAATAT-GCA--A-CT-AT-ATGACCCCTAC
*
5712 TGAATATGTAACTATATGATCATGGCCCCTAC
1 TGAATATGCAACTATATG---A---CCCCTAC
*
5744 TGAATATGCAACTCTATGGA-CCCTAC
1 TGAATATGCAACTATAT-GACCCCTAC
*
5770 TGAATATGCAACTATATGATCATGTGCCCTTC
1 TGAATATGCAACTATATGA-C-----CCCTAC
* *
5802 TAAATATGCATCTATATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGA-C-----CCCTAC
* *
5834 TGAATATGCAACTATATGAACATGTGTCATAC
1 TGAATATGCAACTATATG-AC-----CCCTAC
5866 TGAATATGCAACTATATGAACATGTGCCCTAC
1 TGAATATGCAACTATATG-AC-----CCCTAC
** *
5898 TGAATATGCAACTATATGGGCCTTAC
1 TGAATATGCAACTATATGACCCCTAC
** *
5924 TGAATATGCAACTATATGGGCCTTAC
1 TGAATATGCAACTATATGACCCCTAC
* * ***
5950 TTAATATGCCACCATATGATAATGTGTCCTAC
1 TGAATATG-CA--A-CT-AT-ATGACCCCTAC
5982 TGAATATGCAACTATATGATCATGGCCCCTAC
1 TGAATATGCAACTATATG---A---CCCCTAC
**
6014 TGAATATGCAACTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
6040 TGAATATGCAACTATATGACCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
6066 TGAATATGCAACTATATGGCCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
6092 TGAATATGCAACTATATGGGCACCCTAC
1 TGAATATGCAACTATAT-GAC-CCCTAC
* **
6120 GGAATATGCAACTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
* **
6146 GGAATATGCAACTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
6172 GGAATATGCAACTATATGACCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
* *
6198 TGAATATGCAACTATACAGGCACCCTAC
1 TGAATATGCAACTATA-TGAC-CCCTAC
*
6226 GGAATATGCAACTATATGACCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
6252 TGAATATGCAACTATATGGGCACCCTAC
1 TGAATATGCAACTATAT-GAC-CCCTAC
6280 TGAATATGCAACTATATGACCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
6306 TGAATATGCAACTATATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGA-C-----CCCTAC
* ** *
6338 TAAATATGCAACTATATGGGCCCTTC
1 TGAATATGCAACTATATGACCCCTAC
* *
6364 AGAATATGCAACTATATGGCCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
6390 TGAATATGCAACTATAT-AGGCCCTAC
1 TGAATATGCAACTATATGA-CCCCTAC
*
6416 TGAATATGCAACTATATAACCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
6442 TGAATATGCAACTATATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGA-C-----CCCTAC
* ** *
6474 TAAATATGCAACTATATGGGCCCTTC
1 TGAATATGCAACTATATGACCCCTAC
**
6500 AT-AATATGCAACTATATGTGCCCTAC
1 -TGAATATGCAACTATATGACCCCTAC
6526 TGAATATGCAACTATATGACCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
* **
6552 TCAATATGCAACTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
6578 TGAATATGCAACTATATGGCCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
6604 TGAATATGCAA--ATATGAGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
**
6628 TGAATATGCAACTATGATCATGTGCCCTAC
1 TGAATATGCAAC--T-AT-ATGACCCCTAC
* *
6658 TGAATATGCAATTATATGTCCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
6684 TGAATATGCAACTATATGATCATGACCCCTAC
1 TGAATATGCAAC----T-AT-ATGACCCCTAC
**
6716 TGAATATGCAACTATATGAGACCTAC
1 TGAATATGCAACTATATGACCCCTAC
* **
6742 TGAATATGCATCTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
* *
6768 TGAATATGCAACAATATGGCCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
6794 TGAATATGCAACTATATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGA-C-----CCCTAC
* **
6826 TGAATATGTAACTATATGGGCCCTAC
1 TGAATATGCAACTATATGACCCCTAC
*
6852 TGAATATGCCACTATATGA
1 TGAATATGCAACTATATGA
6871 TAATGTGTCC
Statistics
Matches: 1378, Mismatches: 158, Indels: 228
0.78 0.09 0.13
Matches are distributed among these distances:
24 39 0.03
25 3 0.00
26 727 0.53
27 38 0.03
28 72 0.05
29 14 0.01
30 26 0.02
31 81 0.06
32 376 0.27
33 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (26 bp):
TGAATATGCAACTATATGACCCCTAC
Found at i:5311 original size:58 final size:55
Alignment explanation
Indices: 5195--6952 Score: 1378
Period size: 58 Copynumber: 31.1 Consensus size: 55
5185 GAGGGAGTAT
* * * **
5195 TGAATATGCAACAATATGACCCCTACTGAATATGCAACTCTATG---GGCATTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* *
5247 TGAATATGCAACTATATGACCCCTACTGAATATGTAACTATATGATCATTTGTCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCA---GCCCTAC
** * * * * * *
5305 TGAATATGCAACTATATGGGCCCTACTAAATATGCCACTACATGATAATGTGTCTTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCA---GCCCTAC
* *
5363 TGAATATGCAATTATATGATCATGGCCCCTACTGAATATGCAAATATATGATCATGGCCCTAC
1 TGAATATGCAACTATATG---A---CCCCTACTGAATATGCAACTATATGATCA--GCCCTAC
** *
5426 TGAATATGCAACTATATGGGCCCTACTGAATATGCAAATATATGATCATGGCCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCA--GCCCTAC
* *
5483 TGAATATGCAAC--TATGGCCCCTACTGAATATGCAAATATATGATCATGGCCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCA--GCCCTAC
* *
5538 TGAATATGCAACTATATGATCATGTGTCCTACTGAATATGCAACTATATG-GC--CCCTAC
1 TGAATATGCAACTATATGA-C-----CCCTACTGAATATGCAACTATATGATCAGCCCTAC
* ** *
5596 TGAATATGCAATTATATGGGCCCTACTGAATATGCAACAATATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCA---GCCCTAC
** * * * *
5654 TGAATATGCAACTATATGGGCCCTACTGAATATGGC-ATTATATGATAATGTGTCATAC
1 TGAATATGCAACTATATGACCCCTACTGAATAT-GCAACTATATGATCA---GCCCTAC
* * *
5712 TGAATATGTAACTATATGATCATGGCCCCTACTGAATATGCAACTCTATG--GA-CCCTAC
1 TGAATATGCAACTATATG---A---CCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* * *
5770 TGAATATGCAACTATATGATCATGTGCCCTTCTAAATATGCATCTATATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGA-C-----CCCTACTGAATATGCAACTATATGATCA---GCCCTAC
* * *
5834 TGAATATGCAACTATATGAACATGTGTCATACTGAATATGCAACTATATGAACATGTGCCCTAC
1 TGAATATGCAACTATATG-AC-----CCCTACTGAATATGCAACTATATGATCA---GCCCTAC
** * * *
5898 TGAATATGCAACTATATGGGCCTTACTGAATATGCAACTATATG---GGCCTTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* * ***
5950 TTAATATGCCACCATATGATAATGTGTCCTACTGAATATGCAACTATATGATCATGGCCCCTAC
1 TGAATATG-CA--A-CT-AT-ATGACCCCTACTGAATATGCAACTATATGATCA--G-CCCTAC
**
6014 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGA-C--CCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* **
6066 TGAATATGCAACTATATGGCCCCTACTGAATATGCAACTATATGGGCA-CCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* ** * *
6120 GGAATATGCAACTATATGGGCCCTACGGAATATGCAACTATATG---GGCCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* * *
6172 GGAATATGCAACTATATGACCCCTACTGAATATGCAACTATA-CAGGCA-CCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGA-TCAGCCCTAC
* **
6226 GGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGGGCA-CCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
6280 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCA---GCCCTAC
* ** * * *
6338 TAAATATGCAACTATATGGGCCCTTCAGAATATGCAACTATATG-GC--CCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* *
6390 TGAATATGCAACTATAT-AGGCCCTACTGAATATGCAACTATAT-A--ACCCCTAC
1 TGAATATGCAACTATATGA-CCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* * *
6442 TGAATATGCAACTATATGATCATGTGCCCTACTAAATATGCAACTATATG---GGCCCTTC
1 TGAATATGCAACTATATGA-C-----CCCTACTGAATATGCAACTATATGATCAGCCCTAC
**
6500 AT-AATATGCAACTATATGTGCCCTACTGAATATGCAACTATATGA-C--CCCTAC
1 -TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* ** *
6552 TCAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATG-GC--CCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* * **
6604 TGAATATGCAA--ATATGAGCCCTACTGAATATGCAACTATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTAT-ATGATCAGCCCTAC
* *
6658 TGAATATGCAATTATATGTCCCCTACTGAATATGCAACTATATGATCATGACCCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCA-G--CCCTAC
** * *
6716 TGAATATGCAACTATATGAGACCTACTGAATATGCATCTATATG---GGCCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
* *
6768 TGAATATGCAACAATATGGCCCCTACTGAATATGCAACTATATGATCATGTGCCCTAC
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCA---GCCCTAC
* ** * * * *
6826 TGAATATGTAACTATATGGGCCCTACTGAATATGCCACTATATGATAATGTGTCCTAT
1 TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCA---GCCCTAC
*
6884 TGAATATGCGACTATATGATCATGGCCCCTACTGAATATGCAACTATATGATCATGGCCCCTAC
1 TGAATATGCAACTATATG---A---CCCCTACTGAATATGCAACTATATGATCA--G-CCCTAC
6948 TGAAT
1 TGAAT
6953 GATCTATATG
Statistics
Matches: 1436, Mismatches: 162, Indels: 204
0.80 0.09 0.11
Matches are distributed among these distances:
50 27 0.02
51 3 0.00
52 368 0.26
53 6 0.00
54 167 0.12
55 60 0.04
56 28 0.02
57 57 0.04
58 490 0.34
59 5 0.00
60 2 0.00
61 1 0.00
62 2 0.00
63 50 0.03
64 169 0.12
65 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (55 bp):
TGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGATCAGCCCTAC
Found at i:5885 original size:16 final size:16
Alignment explanation
Indices: 5834--5915 Score: 53
Period size: 16 Copynumber: 5.1 Consensus size: 16
5824 TGTGCCCTAC
5834 TGAATATGCAACTATA
1 TGAATATGCAACTATA
* ***
5850 TGAACATGTGTC-ATA
1 TGAATATGCAACTATA
5865 CTGAATATGCAACTATA
1 -TGAATATGCAACTATA
* * *
5882 TGAACATGTGC-CCTA-C
1 TG-A-ATATGCAACTATA
5898 TGAATATGCAACTATA
1 TGAATATGCAACTATA
5914 TG
1 TG
5916 GGCCTTACTG
Statistics
Matches: 46, Mismatches: 14, Indels: 12
0.64 0.19 0.17
Matches are distributed among these distances:
14 5 0.11
15 7 0.15
16 22 0.48
17 7 0.15
18 5 0.11
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (16 bp):
TGAATATGCAACTATA
Found at i:6427 original size:110 final size:108
Alignment explanation
Indices: 5195--6933 Score: 1550
Period size: 110 Copynumber: 15.4 Consensus size: 108
5185 GAGGGAGTAT
* ** * * **
5195 TGAATATGCAACAATATGACCCCTACTGAATATGCAACTCTATGGGCATTACTGAATATGCAACT
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGGCCCCTACTGAATATGCAACT
* * * *
5260 ATATGACCCCTACTGAATATGTAACTATATGATCATTTGTCCTAC
66 ATATGAGCCCTACTGAATATGCAACTATATGA-CA-TGGCCCTAC
* * *
5305 TGAATATGCAACTATATGGGCCCTACTAAATATGCCACTACATGATAATGTG-TCTTACTGAATA
1 TGAATATGCAACTATATGGGCCCTACTGAATATG-CA--AC-T-AT-ATG-GCCCCTACTGAATA
* *
5369 TGCAATTATATGATCATGGCCCCTACTGAATATGCAAATATATGATCATGGCCCTAC
59 TGCAACTATATG---A--G-CCCTACTGAATATGCAACTATATGA-CATGGCCCTAC
* *
5426 TGAATATGCAACTATATGGGCCCTACTGAATATGCAAATATATGATCATGGCCCTACTGAATATG
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATG-----GCCCCTACTGAATATG
*
5491 CAAC--TATG-GCCCCTACTGAATATGCAAATATATGATCATGGCCCTAC
61 CAACTATATGAG-CCCTACTGAATATGCAACTATATGA-CATGGCCCTAC
*
5538 TGAATATGCAACTATATGATCATGTGTCCTACTGAATATGCAACTATATGGCCCCTACTGAATAT
1 TGAATATGCAACTATATG-----G-GCCCTACTGAATATGCAACTATATGGCCCCTACTGAATAT
* * *
5603 GCAATTATATGGGCCCTACTGAATATGCAACAATATGATCATGTGCCCTAC
60 GCAACTATATGAGCCCTACTGAATATGCAACTATATGA-CATG-GCCCTAC
* * *
5654 TGAATATGCAACTATATGGGCCCTACTGAATATGGCATTATATGATAATGTG-TCATACTGAATA
1 TGAATATGCAACTATATGGGCCCTACTGAATAT-GCA--A-CT-AT-ATG-GCCCCTACTGAATA
* * *
5718 TGTAACTATATGATCATGGCCCCTACTGAATATGCAACTCTATG----GACCCTAC
59 TGCAACTATATG---A--G-CCCTACTGAATATGCAACTATATGACATGGCCCTAC
* * * *
5770 TGAATATGCAACTATATGATCATGTGCCCTTCTAAATATGCATCTATATGATCATGTGCCCTACT
1 TGAATATGCAACTATATG-----G-GCCCTACTGAATATGCAACTATATG-----G-CCCCTACT
* *
5835 GAATATGCAACTATATGAACATGTGTCATACTGAATATGCAACTATATGAACATGTGCCCTAC
54 GAATATGCAACTATATG---A---GCCCTACTGAATATGCAACTATATG-ACATG-GCCCTAC
* * * *
5898 TGAATATGCAACTATATGGGCCTTACTGAATATGCAACTATATGGGCCTTACTTAATATGCCACC
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGGCCCCTACTGAATATG-CA--
* * *
5963 ATATGATAATGTGTCCTACTGAATATGCAACTATATGATCATGGCCCCTAC
63 A-CT-AT-ATGAGCCCTACTGAATATGCAACTATATGA-CATGG-CCCTAC
*
6014 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGACCCCTACTGAATATGCAACT
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGGCCCCTACTGAATATGCAACT
*
6079 ATATG-GCCCCTACTGAATATGCAACTATATGGGCA---CCCTAC
66 ATATGAG-CCCTACTGAATATGCAACTATAT-GACATGGCCCTAC
* * * *
6120 GGAATATGCAACTATATGGGCCCTACGGAATATGCAACTATATGGGCCCTACGGAATATGCAACT
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGGCCCCTACTGAATATGCAACT
*
6185 ATATGACCCCTACTGAATATGCAAC--TAT-ACA-GGCACCCTAC
66 ATATGAGCCCTACTGAATATGCAACTATATGACATGG--CCCTAC
* **
6226 GGAATATGCAACTATATGACCCCTACTGAATATGCAACTATATGGGCACCCTACTGAATATGCAA
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATAT-GGC-CCCTACTGAATATGCAA
*
6291 CTATATGACCCCTACTGAATATGCAACTATATGATCATGTGCCCTAC
64 CTATATGAGCCCTACTGAATATGCAACTATATGA-CATG-GCCCTAC
* * *
6338 TAAATATGCAACTATATGGGCCCTTCAGAATATGCAACTATATGGCCCCTACTGAATATGCAACT
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGGCCCCTACTGAATATGCAACT
*
6403 ATAT-AGGCCCTACTGAATATGCAACTATAT-A-A--CCCCTAC
66 ATATGA-GCCCTACTGAATATGCAACTATATGACATGGCCCTAC
* * *
6442 TGAATATGCAACTATATGATCATGTGCCCTACTAAATATGCAACTATATGGGCCCTTCAT-AATA
1 TGAATATGCAACTATATG-----G-GCCCTACTGAATATGCAACTATATGGCCCCTAC-TGAATA
*
6506 TGCAACTATATGTGCCCTACTGAATATGCAACTATATGAC----CCCTAC
59 TGCAACTATATGAGCCCTACTGAATATGCAACTATATGACATGGCCCTAC
*
6552 TCAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGGCCCCTACTGAATATGCAA--
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGGCCCCTACTGAATATGCAACT
6615 ATATGAGCCCTACTGAATATGCAAC--TATGATCATGTGCCCTAC
66 ATATGAGCCCTACTGAATATGCAACTATATGA-CATG-GCCCTAC
* **
6658 TGAATATGCAATTATATGTCCCCTACTGAATATGCAACTATATGATCATGACCCCTACTGAATAT
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATG-----G-CCCCTACTGAATAT
* *
6723 GCAACTATATGAGACCTACTGAATATGCATCTATATG----GGCCCTAC
60 GCAACTATATGAGCCCTACTGAATATGCAACTATATGACATGGCCCTAC
* * *
6768 TGAATATGCAACAATATGGCCCCTACTGAATATGCAACTATATGATCATGTGCCCTACTGAATAT
1 TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATG-----G-CCCCTACTGAATAT
* * * * * *
6833 GTAACTATATGGGCCCTACTGAATATGCCACTATATGATAATGTGTCCTAT
60 GCAACTATATGAGCCCTACTGAATATGCAACTATATGA-CATG-GCCCTAC
*
6884 TGAATATGCGACTATATGATCATGGCCCCTACTGAATATGCAACTATATG
1 TGAATATGCAACTATATG-----GG-CCCTACTGAATATGCAACTATATG
6934 ATCATGGCCC
Statistics
Matches: 1388, Mismatches: 118, Indels: 234
0.80 0.07 0.13
Matches are distributed among these distances:
100 5 0.00
101 1 0.00
102 26 0.02
103 1 0.00
104 65 0.05
105 1 0.00
106 181 0.13
107 3 0.00
108 43 0.03
109 4 0.00
110 308 0.22
111 17 0.01
112 121 0.09
113 23 0.02
114 26 0.02
115 43 0.03
116 229 0.16
117 10 0.01
118 29 0.02
119 4 0.00
120 20 0.01
121 48 0.03
122 153 0.11
123 2 0.00
127 1 0.00
128 24 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (108 bp):
TGAATATGCAACTATATGGGCCCTACTGAATATGCAACTATATGGCCCCTACTGAATATGCAACT
ATATGAGCCCTACTGAATATGCAACTATATGACATGGCCCTAC
Found at i:10379 original size:1 final size:1
Alignment explanation
Indices: 10375--10400 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
10365 TTTAAAATTT
10375 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
10401 CAGATTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14185 original size:663 final size:662
Alignment explanation
Indices: 12402--14414 Score: 2807
Period size: 663 Copynumber: 3.0 Consensus size: 662
12392 TTAGCCAATA
* * * * *
12402 TTTTTCCGAATTAATTTCTATTTAAATCAAAACAAGATTATGATCCTTGTAGAAACAAATCCTCA
1 TTTTTCCGAATTAATTTCCATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
* * * * * *
12467 AATCCAACGTGGCT-AAATTGGGTTACATAAATACAGATATTTTAACGAGTCTTTGTGACAAAAA
66 AATCCAACATGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
* * *
12531 TCATGCAAAACTAAGTCGGGACTCCGGAACGCGTTTTTAACCCAAAATTGTGAT-G---GTACAC
131 TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
* * * * *
12592 GATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTATCCAGAATAC
196 GATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTCAAATTCTAACCAGAATAC
* * * * ** * * *
12657 TCACAAAAAATATATAATT-GATCGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTATTATCGTT
261 TCATAAAAAATATATAATTCAAT-GCCAAAAATATTGAA-GGCTTTTCATTCTTCCAATATCATT
* * * * *
12721 TATCATATTTTTTTTC-GAATTAGTTTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAA
324 TATCCTA-TTTTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAA
* * * * *
12785 CAAATTCTTAAATCCAATGTGCCGAAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTG
388 CAAATCCTCAAATCCAACGTGCTG-GGATTTGGTTACATAAATACAGATATTTTAACGAGTCTT-
* * * * * *
12850 GCGCCAAAAATCATGCAAAATTGAGTCAGGACCTCGGAACGCGTTTTTAGCCCAAAATTGTGGTG
451 GCGCCAAAAATCATGCAATACTGAGTCAGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATA
* *
12915 GTTAGTACACAATTTCGGCTAGAATTTTGCGAAAATTGACCCGAATGATTTTCCTCAA-TTTTTG
516 GTTAGTACACGATTTCGGCTAAAATTTTGCGAAAATTGACCCGAATGATTTTCCTCAATTTTTTG
* *
12979 CCTACAATACTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAAGGCTTTTCATTCTTCC
581 -CAACAATACTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGGGCTTTTCATTCTTCC
*
13044 AATATCATTTATCTTA-T
645 AATATCATTTATCCTATT
13061 TTTTTCCGAATTAATTTCCATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
1 TTTTTCCGAATTAATTTCCATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
* * * * * *
13126 AATCCAACATGGTTGAGATTTGATTAGATGAATACAGATATTTTAATGAGTCTTGGCGCTAAAAA
66 AATCCAACATGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
* * * * * * *
13191 TCATGCAAAATTGAGTCGGGAACTCGAAACACGTTTTTAGCCAAAAACTTGTGATGATTAGTACA
131 TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAA-TTGTGATGGTTAGTACA
* * * *
13256 CGATTTCGGCTAAAATTTGGCGAAAAA-AGATCCGAAAGATTTTTCCTCAAATTCTAACCAGAAT
195 CGATTTCGGCTAAAATTTTGC-AAAAATTGACCCGAAACATTTTTCCTCAAATTCTAACCAGAAT
* * *
13320 ACTCATAAAAATTATATAATTCAATGCCAAAAATATTGAATTGCTTTTCATTCTACCAATATCAT
259 ACTCATAAAAAATATATAATTCAATGCCAAAAATATTGAA-GGCTTTTCATTCTTCCAATATCAT
*
13385 TTATCCTATTTTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAG
323 TTATCCTATTTTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAA
* * *
13450 CAAATCCTCAAAACCAACGTGGCTGGGATTTGGTTACATAAATACAAATATTTTAACGAGTCCTG
388 CAAATCCTCAAATCCAACGT-GCTGGGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTG
*
13515 CGCCAAAAATCATGCAATACTGAGTCGGGACCCCGGAACGCGTTTTTAG-CCAAAACTGTGAT-G
452 CGCCAAAAATCATGCAATACTGAGTCAGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATAG
* * *
13578 TTAGTACACGATTTCGGCTAAAATTTTGCGAAAATTGACCCGAACGGTTTTTCTCAATTTTTTTG
517 TTAGTACACGATTTCGGCTAAAATTTTGCGAAAATTGACCCGAATGATTTTCCTCAA-TTTTTTG
* * *
13643 CAACGATACTCATAAAAATTATATAATTCAATGTCAAAAATATTGAAGGGCTTTTCATTCTTCCA
581 CAACAATACTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGGGCTTTTCATTCTTCCA
13708 ATATCATTTATCCTATT
646 ATATCATTTATCCTATT
** *
13725 TTTTTCAAAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
1 TTTTTCCGAATTAATTTCCATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
*
13790 AAACCAACATGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
66 AATCCAACATGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
*
13855 TCATGCAAAACTGAGTCGGGACCCCGGAGCGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
131 TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
* * * *
13920 GATTTCGGCTAAAATTTTGCTAAAATTGACCCGAAATATTTTTCCTCAACTTCT-GCCTAGAATA
196 GATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTCAAATTCTAACC-AGAATA
* *
13984 TTCATAAAAAATATATAATTCAATGCCAAGAATATTGAAGGACTTTTCATTCTTCCAATATCATT
260 CTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGG-CTTTTCATTCTTCCAATATCATT
* * *
14049 TATCCTA-TTTTTTCAGTATTAACTTCTATTTAAATCGAAACAAGATTCTGATCCTAATAAAAAC
324 TATCCTATTTTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAAC
* *
14113 AAATCCTCAAATCCAACGTAGCTGGGATTTGATTACATAAATACAGATATTTTAACGAGTTTTGT
389 AAATCCTCAAATCCAACGT-GCTGGGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTG-
* * * *
14178 TGCCAAAAATCATGCAATACTGAGTCAGGATCCCGGAACTCGTTTTTAGCCCAAAACTGTGATAA
452 CGCCAAAAATCATGCAATACTGAGTCAGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATAG
* * *
14243 TTAGTACACGATTTCAGCTAAAA--TTGCGAAAAATGACCCGAATGATTTTCCTCAATTTTTGGC
517 TTAGTACACGATTTCGGCTAAAATTTTGCGAAAATTGACCCGAATGATTTTCCTCAATTTTTTGC
* * * *
14306 CACAATACTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGTGCTTTTTAGTCTTCCAA
582 AACAATACTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGGGCTTTTCATTCTTCCAA
14371 TATCATTTATCCTATT
647 TATCATTTATCCTATT
*
14387 TTTTCCCGAATTAATTTCCATTTAAATC
1 TTTTTCCGAATTAATTTCCATTTAAATC
14415 AATGATGAAA
Statistics
Matches: 1193, Mismatches: 142, Indels: 35
0.87 0.10 0.03
Matches are distributed among these distances:
659 72 0.06
660 78 0.07
661 7 0.01
662 276 0.23
663 289 0.24
664 234 0.20
665 227 0.19
666 10 0.01
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (662 bp):
TTTTTCCGAATTAATTTCCATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
AATCCAACATGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
GATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTCAAATTCTAACCAGAATAC
TCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGGCTTTTCATTCTTCCAATATCATTTA
TCCTATTTTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAA
ATCCTCAAATCCAACGTGCTGGGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGCGCC
AAAAATCATGCAATACTGAGTCAGGACCCCGGAACGCGTTTTTAGCCCAAAACTGTGATAGTTAG
TACACGATTTCGGCTAAAATTTTGCGAAAATTGACCCGAATGATTTTCCTCAATTTTTTGCAACA
ATACTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGGGCTTTTCATTCTTCCAATATC
ATTTATCCTATT
Found at i:14193 original size:332 final size:332
Alignment explanation
Indices: 12402--14414 Score: 2650
Period size: 332 Copynumber: 6.1 Consensus size: 332
12392 TTAGCCAATA
* * * * *
12402 TTTTTCCGAATTAATTTCTATTTAAATCAAAACAAGATTATGATCCTTGTAGAAACAAATCCTCA
1 TTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
* * * * *
12467 AATCCAACGTGGCT-AAATTGGGTTACATAAATACAGATATTTTAACGAGTCTTTGTGACAAAAA
66 AATCCAACGTGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
* * *
12531 TCATGCAAAACTAAGTCGGGACTCCGGAACGCGTTTTTAACCCAAAATTGTGAT-G---GTACAC
131 TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
* * * * *
12592 GATTTCGGCTAAAATTTTGCAAAAATTGACCTGAAACATTTCTCCTCAATTTTTATCCAGAATAC
196 GATTTCGGCTAAAATTTTGCGAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCAGAATAC
* * * * ** * * *
12657 TCACAAAAAATATATAATT-GATCGCCAAAAAGATTGAAGGGTTTTTCACGCTTCTATTATCGTT
261 TCATAAAAAATATATAATTCAAT-GCCAAAAATATTGAA-GGCTTTTCATTCTTCCAATATCATT
*
12721 TATCATATTT
324 TATCCTA-TT
* * * * * *
12731 TTTTTC-GAATTAGTTTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATTCTTA
1 TTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
* *
12795 AATCCAATGT-GCCGAAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAA
66 AATCCAACGTGGCTG-AGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAA
* * * *
12859 ATCATGCAAAATTGAGTCAGGACCTCGGAACGCGTTTTTAGCCCAAAATTGTGGTGGTTAGTACA
130 ATCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACA
* * *
12924 CAATTTCGGCTAGAATTTTGCGAAAATTGACCCG-AATGA-TTTTCCTCAATTTTT-GCCTACAA
195 CGATTTCGGCTAAAATTTTGCGAAAATTGACCCGAAAT-ATTTTTCCTCAATTTTTAGCC-AGAA
12986 TACTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAAGGCTTTTCATTCTTCCAATATCA
258 TACTCATAAAAAATATATAATTCAATGCCAAAAATATTG-AAGGCTTTTCATTCTTCCAATATCA
*
13051 TTTATCTTA-T
322 TTTATCCTATT
* *
13061 TTTTTCCGAATTAATTTCCATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
1 TTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
* * * * * * *
13126 AATCCAACATGGTTGAGATTTGATTAGATGAATACAGATATTTTAATGAGTCTTGGCGCTAAAAA
66 AATCCAACGTGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
* * * * * * *
13191 TCATGCAAAATTGAGTCGGGAACTCGAAACACGTTTTTAGCCAAAAACTTGTGATGATTAGTACA
131 TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAA-TTGTGATGGTTAGTACA
* ** * * * * *
13256 CGATTTCGGCTAAAATTTGGCGAAAAAAGATCCGAAAGATTTTTCCTCAAATTCTAACCAGAATA
195 CGATTTCGGCTAAAATTTTGCGAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCAGAATA
* * *
13321 CTCATAAAAATTATATAATTCAATGCCAAAAATATTGAATTGCTTTTCATTCTACCAATATCATT
260 CTCATAAAAAATATATAATTCAATGCCAAAAATATTGAA-GGCTTTTCATTCTTCCAATATCATT
13386 TATCCTATT
324 TATCCTATT
*
13395 TTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAGCAAATCCTCA
1 TTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
* * * *
13460 AAACCAACGTGGCTGGGATTTGGTTACATAAATACAAATATTTTAACGAGTCCT-GCGCCAAAAA
66 AATCCAACGTGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
* *
13524 TCATGCAATACTGAGTCGGGACCCCGGAACGCGTTTTTAG-CCAAAACTGTGAT-GTTAGTACAC
131 TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
*** * *
13587 GATTTCGGCTAAAATTTTGCGAAAATTGACCCGAACGGTTTTT-CTCAATTTTTTTGCAACG-AT
196 GATTTCGGCTAAAATTTTGCGAAAATTGACCCGAAATATTTTTCCTCAA-TTTTTAGCCA-GAAT
* *
13650 ACTCATAAAAATTATATAATTCAATGTCAAAAATATTGAAGGGCTTTTCATTCTTCCAATATCAT
259 ACTCATAAAAAATATATAATTCAATGCCAAAAATATTGAA-GGCTTTTCATTCTTCCAATATCAT
13715 TTATCCTATT
323 TTATCCTATT
*
13725 TTTTTCAAAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
1 TTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
* *
13790 AAACCAACATGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
66 AATCCAACGTGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
*
13855 TCATGCAAAACTGAGTCGGGACCCCGGAGCGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
131 TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
* * *
13920 GATTTCGGCTAAAATTTTGCTAAAATTGACCCGAAATATTTTTCCTCAACTTCT-GCCTAGAATA
196 GATTTCGGCTAAAATTTTGCGAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCC-AGAATA
* *
13984 TTCATAAAAAATATATAATTCAATGCCAAGAATATTGAAGGACTTTTCATTCTTCCAATATCATT
260 CTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGG-CTTTTCATTCTTCCAATATCATT
14049 TATCCTA-T
324 TATCCTATT
* * *
14057 TTTTTCAGTATTAACTTCTATTTAAATCGAAACAAGATTCTGATCCTAATAAAAACAAATCCTCA
1 TTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
* * * * **
14122 AATCCAACGTAGCTGGGATTTGATTACATAAATACAGATATTTTAACGAGTTTTGTTGCCAAAAA
66 AATCCAACGTGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
* * * * * **
14187 TCATGCAATACTGAGTCAGGATCCCGGAACTCGTTTTTAGCCCAAAACTGTGATAATTAGTACAC
131 TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
* * * *
14252 GATTTCAGCTAAAA--TTGCGAAAAATGACCCG-AATGA-TTTTCCTCAATTTTTGGCCACAATA
196 GATTTCGGCTAAAATTTTGCGAAAATTGACCCGAAAT-ATTTTTCCTCAATTTTTAGCCAGAATA
* *
14313 CTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGTGCTTTTTAGTCTTCCAATATCATT
260 CTCATAAAAAATATATAATTCAATGCCAAAAATATTGAAG-GCTTTTCATTCTTCCAATATCATT
14378 TATCCTATT
324 TATCCTATT
* * *
14387 TTTTCCCGAATTAATTTCCATTTAAATC
1 TTTTTCAGAATTAATTTCTATTTAAATC
14415 AATGATGAAA
Statistics
Matches: 1481, Mismatches: 172, Indels: 61
0.86 0.10 0.04
Matches are distributed among these distances:
327 2 0.00
328 58 0.04
329 190 0.13
330 289 0.20
331 203 0.14
332 336 0.23
333 289 0.20
334 114 0.08
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (332 bp):
TTTTTCAGAATTAATTTCTATTTAAATCGAAACAAGATTCTGATCCTAGTAAAAACAAATCCTCA
AATCCAACGTGGCTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAA
TCATGCAAAACTGAGTCGGGACCCCGGAACGCGTTTTTAGCCCAAAATTGTGATGGTTAGTACAC
GATTTCGGCTAAAATTTTGCGAAAATTGACCCGAAATATTTTTCCTCAATTTTTAGCCAGAATAC
TCATAAAAAATATATAATTCAATGCCAAAAATATTGAAGGCTTTTCATTCTTCCAATATCATTTA
TCCTATT
Found at i:15581 original size:300 final size:299
Alignment explanation
Indices: 15048--15627 Score: 776
Period size: 300 Copynumber: 1.9 Consensus size: 299
15038 AATTGACCTA
* * *
15048 AAATATTTTCCCTCAATTTTTGGCCGGAATACTCACAAATATATATAATTCATCGCCAAAAAGAT
1 AAATATTTTCCCTCAATTTTTGGCCAGAATACTCAAAAAAATATATAATTCATCGCCAAAAAGAT
* * * * *
15113 TGAAGAGTTTTTCACGATTCTATTATCGTTTATCCTATTTTGTTCGAATTAATTTCTAATTAATT
66 TGAAGAGTTTTTCACGATTCCAATATCATTTATCCTATTTTGTTCAAATTAATTTCTAATTAAAT
* * * * * * * *
15178 CGAAACAAGATTCTGATGCTCGTAAAAACAAATTCTTAAATCCAATGTGTCGGAGATTTGGTTAC
131 CAAAACAAGATTCCGATCCTCGTAAAAACAAATCCTCAAATCCAACGTGGCGGAGATTGGGTTAC
15243 ATAAATACAGATATTTTAACGAGTCTTGGCACCAAAAATCATGCAAAACTTAGTCGAGACCCCGG
196 ATAAATACAGATATTTTAACGAGTCTTGGCACCAAAAATCATGCAAAACTTAGTCGAGACCCCGG
*
15308 AACGCGTTTTTAGCCCAAAATACTCATAAAATTGACTCG
261 AACGCGTTTTTAACCCAAAATACTCATAAAATTGACTCG
* * *
15347 AAATATTTTTCCTCAATTTCTT-GCCAGAATACTCATAAAAAATATATACTTCAAT-GGCAAAAA
1 AAATATTTTCCCTCAATTT-TTGGCCAGAATACTCA-AAAAAATATATAATTC-ATCGCCAAAAA
* * *
15410 TATTGAAGGGCTTTTT-A-GTCTTCCAATATCATTTATCCTATTTT-TTCCAAATTAATTTC-AA
63 GATTGAAGAG-TTTTTCACG-ATTCCAATATCATTTATCCTATTTTGTT-CAAATTAATTTCTAA
* *
15471 TTTAAATCAAAACAAGATTCCGATCCTTGTAAAAACAAATCCTCAAATCCAACGTGGCTGAGATT
125 -TTAAATCAAAACAAGATTCCGATCCTCGTAAAAACAAATCCTCAAATCCAACGTGGCGGAGATT
* * ***
15536 GGGTTACATAAATACAGATATTTTCAGGAGTCTTGGTGGCAAAAATCATGCAAAACTTAGTCGAG
189 GGGTTACATAAATACAGATATTTTAACGAGTCTTGGCACCAAAAATCATGCAAAACTTAGTCGAG
*
15601 ACCCTGGAACGCGTTTTTAACCCAAAA
254 ACCCCGGAACGCGTTTTTAACCCAAAA
15628 CTGTGATAGT
Statistics
Matches: 243, Mismatches: 31, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
299 35 0.14
300 201 0.83
301 7 0.03
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (299 bp):
AAATATTTTCCCTCAATTTTTGGCCAGAATACTCAAAAAAATATATAATTCATCGCCAAAAAGAT
TGAAGAGTTTTTCACGATTCCAATATCATTTATCCTATTTTGTTCAAATTAATTTCTAATTAAAT
CAAAACAAGATTCCGATCCTCGTAAAAACAAATCCTCAAATCCAACGTGGCGGAGATTGGGTTAC
ATAAATACAGATATTTTAACGAGTCTTGGCACCAAAAATCATGCAAAACTTAGTCGAGACCCCGG
AACGCGTTTTTAACCCAAAATACTCATAAAATTGACTCG
Found at i:16233 original size:332 final size:329
Alignment explanation
Indices: 15335--16579 Score: 1518
Period size: 332 Copynumber: 3.8 Consensus size: 329
15325 AAATACTCAT
* *
15335 AAAATTGA-CTCGAAATATTTTTCCTCAATTTCTT-GCCAGAATACTCATAAAAAATATATACTT
1 AAAATTGACCT-G-AATATTTTTCCTCAATTT-TTGGCCACAATACTCATAAAAAATATATAATT
* * * * *
15398 CAATGGCAAAAATATTGAAGGGCTTTTTAGTCTTCCAATATCATTTATCCTATTTTTTCCAAATT
63 CAATGCCAAAAAGATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTTT-CGAATT
* * * * * *
15463 AATTTCAATTTAAATCAAAACAAGATTCCGATCCTTGTAAAAACAAATCCTCAAATCCAACGTGG
127 AATTTCTATTTAAATCGAAACAAGATTCTGATGCTAGTAAAAACAAATCCTCAAATCCAATGTGG
* * * * *
15528 CTGAGATTGGGTTACATAAATACAGATATTTTCAGGAGTCTTGGTGGCAAAAATCATGCAAAACT
192 CTGAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAATCATGCAAAA-T
* * **
15593 T-AGTCGAGACCCTGGAACGCGTTTTTAACCCAAAACTGTGATAGTTAGTGCACGATTTCGGCTA
256 TGAGTCGGGACCC-GGAACGCGTTTTTATCCCAAAACTGTGATAGTTAGTATACGATTTCGGCTA
*
15657 AAATTTTCCA
320 AAATTTTGCA
* * * * *
15667 AAAATTGACTTGAAAGATTTTTCCTCAATTTTTGGCCAGAATACTCACAAAAAATATATAATTGA
1 AAAATTGACCTG-AATATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCA
* * * ** * * * *
15732 TTGTCAAAAAGATTGAAGGGTTTTTCACGCTTCTATTATCGTGTATCCTATTTTTTCGAATTAAT
65 ATGCCAAAAAGATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTTTCGAATTAAT
* * * * *
15797 TTCTAATTAAATCGAAACAAGATTCTGATGTTCGTAAAAACAAATTCTTAAATCCAATGT-GCTG
130 TTCTATTTAAATCGAAACAAGATTCTGATGCTAGTAAAAACAAATCCTCAAATCCAATGTGGCT-
*
15861 GAGATTTGGTTACATAAATACAGATATATTAACGAGTCTTGGCGCCAAAAATCATGCAAAATTGA
194 GAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAATCATGCAAAATTGA
*
15926 GTCGGGACCTCGGAACGCGTTTTTATCCCAAAACTGTGATGGTTAGTATACGATTTCGGCTAAAA
259 GTCGGGACC-CGGAACGCGTTTTTATCCCAAAACTGTGATAGTTAGTATACGATTTCGGCTAAAA
**
15991 TTTTGTG
323 TTTTGCA
* * *
15998 ACAATTGACCAGAATATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATCTATAATTCAA
1 AAAATTGACCTGAATATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAA
*
16063 TGCCAAAAATATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTTTTCCGAATTAA
66 TGCCAAAAAGATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTA-TTTTTT-CGAATTAA
* *
16128 TTTTTATTTAAATCGAAACAAGATTCTGATGCTAGTAAAAACAAATCCTCAAATCCAATGTAGCT
129 TTTCTATTTAAATCGAAACAAGATTCTGATGCTAGTAAAAACAAATCCTCAAATCCAATGTGGCT
* * * ** * **
16193 GAGATTTGGTTAAATGAATACAAATATTTTAACGAGTCTTGTTGCCAAAAATTATGCAAAGCTGA
194 GAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAATCATGCAAAATTGA
* ** * * * * *
16258 GTCGGGACAACGGAACGTTTTTTTAT--CAAAATTATGATAGATAGTATGCGATTTCAGCTAAAA
259 GTCGGGAC-CCGGAACGCGTTTTTATCCCAAAACTGTGATAGTTAGTATACGATTTCGGCTAAAA
16321 TTTTGCA
323 TTTTGCA
* * *
16328 AAAATTGACCTGAA-AGATTTTCCTCAATTTTTGGCCACAATAGT-A-AAAAAATATGTAATTCA
1 AAAATTGACCTGAATA-TTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCA
* * * *
16390 ATGCCAAAGAGATTGAAGGGTTTTTCATTCTTCCAATTTCATTTATCCCATTTTTTTCGAATTAA
65 ATGCCAAAAAGATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTA-TTTTTTCGAATTAA
* * * * * *
16455 ATTCTATTTAAATGGAAACAAGATTCTGCTGCTAGTAAAAACAAATCTTTAAATCTAATGTGGCT
129 TTTCTATTTAAATCGAAACAAGATTCTGATGCTAGTAAAAACAAATCCTCAAATCCAATGTGGCT
** * * * *
16520 GAGATTTGGTTTGATGAATACAGTTATTTTATCGAGTCTTGGCGCGAAAAATCATGCAAA
194 GAGATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAATCATGCAAA
16580 GCGGAAAACT
Statistics
Matches: 790, Mismatches: 113, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
327 116 0.15
328 67 0.08
329 2 0.00
330 166 0.21
331 193 0.24
332 242 0.31
333 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (329 bp):
AAAATTGACCTGAATATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAATTCAA
TGCCAAAAAGATTGAAGGGCTTTTCATTCTTCCAATATCATTTATCCTATTTTTTCGAATTAATT
TCTATTTAAATCGAAACAAGATTCTGATGCTAGTAAAAACAAATCCTCAAATCCAATGTGGCTGA
GATTTGGTTACATAAATACAGATATTTTAACGAGTCTTGGCGCCAAAAATCATGCAAAATTGAGT
CGGGACCCGGAACGCGTTTTTATCCCAAAACTGTGATAGTTAGTATACGATTTCGGCTAAAATTT
TGCA
Found at i:17015 original size:30 final size:31
Alignment explanation
Indices: 16957--17030 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
16947 AATATATAAA
*
16957 AAAAAAATCCCTTATGATTTTCTTTTGGGAC
1 AAAATAATCCCTTATGATTTTCTTTTGGGAC
*
16988 AAAATAATCCCTTATG-TTTTTTTTTGGGAC
1 AAAATAATCCCTTATGATTTTCTTTTGGGAC
* *
17018 AAATTAGTCCCTT
1 AAAATAATCCCTT
17031 GCTGACGTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 24 0.62
31 15 0.38
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (31 bp):
AAAATAATCCCTTATGATTTTCTTTTGGGAC
Done.