Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015847.1 Corchorus olitorius cultivar O-4 contig15880, 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: 10783
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Found at i:1814 original size:678 final size:666
Alignment explanation
Indices: 6--2184 Score: 2564
Period size: 682 Copynumber: 3.2 Consensus size: 666
1 TACTT
* * * * *
6 TTTAGCCGAAATCGTGTACTAACCATCATGGTTTTTTACTAAAAATGCATT--GGA-CCCCGGCT
1 TTTAACCGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCATTCCGGAGTCCCGGCT
* * * * *
68 CAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTTATCTAACCAAATCTC
66 CAATTTTGCATGATTTTTGGC-GTAAAGAATCCTTCAAATATCTATATTCATCGAACCAAATCTC
* * * * * * * * *
132 AGCCATAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAA
130 AGCCACATTGTATATAAAAATTTGTTTTTACGAGCATCTGAATC-TTATTTCGATTTAATTAGAA
* * * ** *
197 ATGAATTCGAAAAAAAAAATTAGGAAAAACGATTTTAGAAGCTTGAAAAACACATCAATTTTTTT
194 ATTAATTCG-AAAAAAAAA--A-GAAAAACGATATTAGAAGCGTGAAAGTC-CGTCAATTTTTTT
* * * ** *
262 -AGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAAGTC
254 GA-CGTTGAATTATATATTTTTTCTGAATATT-TTGCAAAAAATT-A-GAAAAACTTTTCGGGTT
* * * * ** * * * **
326 AATTTTT-G-CAAAAT--T-T--TAGCCGA--ACGGTTTTTGGCTAAAAACGCGTTCCGGAGTGC
315 ACTTTTTAGCCGAAATCGTGTACTAACC-ATCACAGTTTTTTACTAAAAATGCATTTCGG-GCCC
* * * * *
382 CGGCTAAATTTTGCATGATTTTTG-AGCAAACACTCCTTGAAATATCTATACTCATCGAACCAAT
378 CGGCTAAGTTTTGCATGATTTTTGCAG-AAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
* *
446 TGTCAGCCACAATGGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTTATTTCGATTTAATT
442 TATCAGCCACAATGGATTTAAGGATTTGATTTTACGAGAATCTGAATCTTTATTTCGATTTAATT
* * *
511 AAAAATAAATTCGAGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCTTTCAATCTTTTT
507 AGAAATAAATTCGGGAAAAAACGGAAAAACGATATTAGAAGCGTGAAAAACCTTTCAATCTTTTT
*
576 GGCGTTGAATTATATATTTTTCTGAGTATTTGTGGCAAAAATTTGAGGAAAAACCTTTCGCGTTA
572 GGCGTTGAATTATATATTTTTCTGAGTA-TTGTGGCAAAAA-TTGAGGAAAAACCTTTCG-GTCA
*
641 ATATAGGAAAAACCTTTTTGGATCAATTTTTGC-AAAA
634 ATA-AGGAAAAA-C-TTTCGG-T-AATTTTTGCAAAAA
* * *
678 TATTAACCGAAATCGTGTACAAACTATCATGGTTTTTTTTTTAGGCTTAAAAACGCATTCCGGAG
1 T-TTAACCGAAATCGTGTACTAACCATCACGG----TTTTTT--GC-TAAAAACGCATTCCGGAG
*
743 TCCCGGCTCAATTTTGCATGATTTTTGGTGTAAAGAATCCTTCAAATATCTATATTCATCGAACC
58 TCCCGGCTCAATTTTGCATGATTTTTGGCGTAAAGAATCCTTCAAATATCTATATTCATCGAACC
* *
808 AAATCCCAGCCACATTGTATATAAGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAA
123 AAATCTCAGCCACATTGTATATAAAAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAA
* * * *
873 TTGGAAATTAATTCG-AAAAAAAAGGAAAAACGGTATTAGAAGCGTGAAAAGTTCGTCAATTTTT
188 TTAGAAATTAATTCGAAAAAAAAAAGAAAAACGATATTAGAAGCGTG-AAAGTCCGTCAATTTTT
* *
937 TTGACGTTGAATTATATATTTTTTCTGAATATTTTGCAAAACATTACAAAAACTTTTCGGGTTAC
252 TTGACGTTGAATTATATATTTTTTCTGAATATTTTGCAAAAAATTAGAAAAACTTTTCGGGTTAC
* *
1002 TTTTTAGCCGAAATCGTGTACAAACCATCACAGTTTTTTACTAAAAATGCATTTTGGGCCCCGGC
317 TTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTTACTAAAAATGCATTTCGGGCCCCGGC
* * * *
1067 TCAGTTTTGCAAGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTTACCAAATCTC
382 TAAGTTTTGCATGATTTTT-GCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATC
1132 AGCCACAATGGATTTAAGGATTTGATTTTACGAGAATCTGAATCTTTATTTCGATTTAATTAGAA
446 AGCCACAATGGATTTAAGGATTTGATTTTACGAGAATCTGAATCTTTATTTCGATTTAATTAGAA
* * *
1197 ATAAATTCGGGAAAAAACGGAAAAATGATATTAGAAGCGTGGAAAACCTTTCATTCTTTTTGGCG
511 ATAAATTCGGGAAAAAACGGAAAAACGATATTAGAAGCGTGAAAAACCTTTCAATCTTTTTGGCG
*
1262 TTGAATTATATATTTTTCAGAGTATTGTGGCGAAAAATTGAGGAAAAACCTTTCGGGTCAATAGA
576 TTGAATTATATATTTTTCTGAGTATTGTGGC-AAAAATTGAGGAAAAACCTTTC-GGTCAATA-A
1327 GGAAAAATCTTTCGGGTAAATTTTTGCAAAAA
638 GGAAAAA-CTTTC-GGT-AATTTTTGCAAAAA
* * *
1359 TTTACCCGAAATCGTGTACTAACTATCACGGTTTTTTTTTGCTAAAAACGCATTCCTGAGTCCCG
1 TTTAACCGAAATCGTGTACTAACCATCACGG---TTTTTTGCTAAAAACGCATTCCGGAGTCCCG
* *
1424 ACTCAATTTTGCATGATTTTTGGCGTAAAGAATCCTTCAAATATCTATATTCATCGAACCAAATT
63 GCTCAATTTTGCATGATTTTTGGCGTAAAGAATCCTTCAAATATCTATATTCATCGAACCAAATC
*
1489 TCAGCCACATTGTATATAAAAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATAAGA
128 TCAGCCACATTGTATATAAAAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGA
1554 AATTAATTCGAAAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAGGTCCGTCAATTTTTTTGAC
193 AATTAATTCGAAAAAAAAAAGAAAAACGATATTAGAAGCGTGAAA-GTCCGTCAATTTTTTTGAC
* *
1619 GTTGAATTATATATTTTTTTCTGAATATTTTGCAAAATATTTGAAAAACTTTTCGGGTTACTTTT
257 GTTGAATTATATA-TTTTTTCTGAATATTTTGCAAAAAATTAGAAAAACTTTTCGGGTTACTTTT
*
1684 TAGCCGAAATCGTGTACTAACCATCACAGTTTTTTACTAAAAATGCATTTCGGGCCCCGGCTTAG
321 TAGCCGAAATCGTGTACTAACCATCACAGTTTTTTACTAAAAATGCATTTCGGGCCCCGGCTAAG
* * *
1749 TTTTGCATGATTTTTGACAGAAAGACTCTTTGAAATATCTATATTTATCTAACCAACTATCAGCC
386 TTTTGCATGATTTTTG-CAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATCAGCC
* * * * * *
1814 ACAATGGATTTAAAGATTTG-TGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAATTG
450 ACAATGGATTTAAGGATTTGAT-TTTACGAGAATCTGAATCTTTATTTCGATTTAATTAGAAATA
* * *
1878 AATTCGGAAAAAAAAGCAAGGAAAAACGATATTAGAAGCGTGAAAAACAC-ATCAAAT-TTTTTA
514 AATTCGG-GAAAAAA-C--GGAAAAACGATATTAGAAGCGTGAAAAAC-CTTTC-AATCTTTTTG
* *
1941 GCATTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAA-CTTT---TC---
573 GCGTTGAATTATATA-TTTTTCTGAGTATTGTGGC-AAAAATTGAGGAAAAACCTTTCGGTCAAT
*
1999 -AGG--------TC---AATTTTTGCAAAAT
636 AAGGAAAAACTTTCGGTAATTTTTGCAAAAA
* * * * * * *
2018 TTTATCCGAAATCTTGTACTAACCATCACGGTATTTGGCTAAAAACGCGTTCCGGATTGCCGGCT
1 TTTAACCGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCATTCCGGAGTCCCGGCT
* * * * *
2083 AAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATGTCA
66 CAATTTTGCATGATTTTTGGCGTAAAGAATCCTTCAAATATCTATATTCATCGAACCAAATCTCA
***
2148 GCCACATTGTATATAGGGATTTGTTTTTTACGAGCAT
131 GCCACATTGTATATAAAAATTTG-TTTTTACGAGCAT
2185 GATATTAGAT
Statistics
Matches: 1328, Mismatches: 137, Indels: 99
0.85 0.09 0.06
Matches are distributed among these distances:
656 107 0.08
657 13 0.01
659 41 0.03
664 2 0.00
672 1 0.00
673 30 0.02
674 19 0.01
675 2 0.00
676 173 0.13
677 128 0.10
678 237 0.18
679 17 0.01
680 61 0.05
681 71 0.05
682 290 0.22
683 136 0.10
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (666 bp):
TTTAACCGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCATTCCGGAGTCCCGGCT
CAATTTTGCATGATTTTTGGCGTAAAGAATCCTTCAAATATCTATATTCATCGAACCAAATCTCA
GCCACATTGTATATAAAAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAAT
TAATTCGAAAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAGTCCGTCAATTTTTTTGACGTTG
AATTATATATTTTTTCTGAATATTTTGCAAAAAATTAGAAAAACTTTTCGGGTTACTTTTTAGCC
GAAATCGTGTACTAACCATCACAGTTTTTTACTAAAAATGCATTTCGGGCCCCGGCTAAGTTTTG
CATGATTTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATATCAGCCACAATG
GATTTAAGGATTTGATTTTACGAGAATCTGAATCTTTATTTCGATTTAATTAGAAATAAATTCGG
GAAAAAACGGAAAAACGATATTAGAAGCGTGAAAAACCTTTCAATCTTTTTGGCGTTGAATTATA
TATTTTTCTGAGTATTGTGGCAAAAATTGAGGAAAAACCTTTCGGTCAATAAGGAAAAACTTTCG
GTAATTTTTGCAAAAA
Found at i:2915 original size:334 final size:336
Alignment explanation
Indices: 2284--3120 Score: 1471
Period size: 334 Copynumber: 2.5 Consensus size: 336
2274 TCGGGTTACT
* * *
2284 TTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACACATTCCGGAGTGCCGGC
1 TTTTACCCGAAATCGTG-A-TAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTGCCGGC
2349 TAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATC
64 TAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATC
2414 AGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAA
129 AGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAA
2479 TTGAATTCGGAAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAACTTTTT
194 TTGAATTCGGAAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAACTTTTT
2544 TAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTC
259 TAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTC
2609 AATTTTTGCAAAA
324 AATTTTTGCAAAA
*
2622 TTTTATCCGAAATCGTG-T-ACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTGCCGGCTA
1 TTTTACCCGAAATCGTGATAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTGCCGGCTA
*
2685 AATTTTGCATGATTTTTGACGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATCAG
66 AATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATCAG
2750 CCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAATT
131 CCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAATT
* *
2815 GAATTCGGGAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAATTTTTTTA
196 GAATTCGGAAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAACTTTTTTA
2880 GCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCAA
261 GCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCAA
2945 TTTTTGCAAAA
326 TTTTTGCAAAA
* *
2956 TTTTACCCGAAATCGTGTACTAACCATCACGGTTATTGGCTAAAAACGCGTTCCGGAGTGCTGGC
1 TTTTACCCGAAATCGTG-A-TAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTGCCGGC
* *
3021 TAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATGTC
64 TAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATC
* * * * *
3086 AGCCACATTGTATATAAGGATTTGTTTTTTACGAG
129 AGCCACAATGGATTTAAAGATTTG-TGTTTACGAG
3121 CATGATATTA
Statistics
Matches: 477, Mismatches: 17, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
334 327 0.69
335 1 0.00
337 1 0.00
338 139 0.29
339 9 0.02
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (336 bp):
TTTTACCCGAAATCGTGATAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTGCCGGCTA
AATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATCAG
CCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAATT
GAATTCGGAAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAACTTTTTTA
GCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCAA
TTTTTGCAAAA
Found at i:2977 original size:939 final size:931
Alignment explanation
Indices: 1359--5046 Score: 3719
Period size: 939 Copynumber: 3.9 Consensus size: 931
1349 TTTGCAAAAA
* * *
1359 TTTACCCGAAATCGTGTACTAACTATCACGGTTTTTTTTTGCTAAAAACGCATTCCTGAGTCCCG
1 TTTAGCCGAAATCGTGTACTAACCATCACGG---TTTTTTGCTAAAAACGCATTCCGGAGTCCCG
* * * * *
1424 ACTCAATTTTGCATGATTTTTGGCGTAAAGAATCCTTCAAATATCTATATTCATCGAACCAAATT
63 GCTCAATTTTGCATGATTTTTGGCG-AAAGACTCCTTGAAATATCTATATTCATCGAACCAACTA
* * * * * * * * *
1489 TCAGCCACATTGTATATAAAAATTTGTTTTTACGAGCATCTGAATC-TTATTTCGATTTAATAAG
127 TCAGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAG
* ** *
1553 AAATT-AATTC-G-AAAAAAAA-AA-GAAAAACGATATTAGAAGCGTGAAAGGTC-CGTCAATTT
192 -AATTGAATTCGGAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAA-AACACATCAATTT
* * * * * *
1612 TTTTGACGTTGAATTATATATTTTTTTCTGAATATT-TTGCAAAATATT--TGAAAAACTTTTC-
255 TTTAG-CGTTGAATAATATA-TTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCA
* ** * * ** *
1673 GG------GTT---ACTTTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTTACTAAAAATG
318 GGTCAATTTTTGCAAAATTTTACCCGAAATCGTG---T-ACCATCACGGTTTTTGGCTAAAAACG
* * ** * * *
1729 CATTTCGG-GCCCCGGCTTAGTTTTGCATGATTTTTGACAGAAAGACTCTTTGAAATATCTATAT
379 CGTTCCGGAGTGCCGGCTAAATTTTGCATGATTTTTGACAGAAAGACTCCTTGAAATATCTATAT
* *
1793 TTATCTAACCAACTATCAGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTG
444 TCATCGAACCAACTATCAGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTG
*
1858 TTTCGATTTAATTAGAATTGAATTCGGAAAAAAAAGCAAGGAAAAACGATATTAGAAGCGTGAAA
509 TTTCGATTTAATTAGAATTGAATTCGGAAAAAAAAACAAGG-AAAACGATATTAGAAGCGTGAAA
* *
1923 AACACATCAAATTTTTTAGCATTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGG
573 AACACATCAATTTTTTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGG
*
1988 AAAAACTTTTCAGGTCAATTTTTGCAAAATTTTATCCGAAATCTTGTACTAACCATCACGGTATT
638 AAAAACTTTTCAGGTCAATTTTTGCAAAATTTTA-CCGAAATCGTGTACTAACCATCACGGT-TT
*
2053 TGGCTAAAAACGCGTTCCGGATTGCCGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTG
701 TGGCTAAAAACGCGTTCCGGAGTGCCGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTG
*
2118 AAATATCTATATTCATCGAACCAAATGTCAGCCACATTGTATATAGGGATTTGTTTTTTACGAGC
766 AAATATCTATATTCATCGAACCAAATGTCAGCCACATTGTATATAAGGATTTGTTTTTTACGAGC
*
2183 ATGATATTAGATGCGTGACAGGTCCGTCAATTTTTTTGACGTTGAATTATATATTTTTTCTGAAT
831 ATGATATTAGAAGCGTGACAGGTCCGTCAATTTTTTTGACGTTGAATTATATATTTTTTCTGAAT
*
2248 ATTTTGCAAAATATTTAAAAAACTTTTCGGGTTACTT
896 ATTTTGCAAAATATTTAAAAAA-ATTTCGGGTTACTT
* * *
2285 TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACACATTCCGGAGTGCCGGCT
1 TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCATTCCGGAGTCCCGGCT
*
2350 AAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATCA
66 CAATTTTGCATGATTTTTGGCG-AAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATCA
2415 GCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAAT
130 GCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAAT
2480 TGAATTCGGAAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAACTTTTTT
195 TGAATTCGG-AAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAA-TTTTTT
2545 AGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCA
258 AGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCA
*
2610 ATTTTTGCAAAATTTTATCCGAAATCGTGTACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGA
323 ATTTTTGCAAAATTTTACCCGAAATCGTGTACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGA
2675 GTGCCGGCTAAATTTTGCATGATTTTTGAC-GCAAAGACTCCTTGAAATATCTATATTCATCGAA
388 GTGCCGGCTAAATTTTGCATGATTTTTGACAG-AAAGACTCCTTGAAATATCTATATTCATCGAA
2739 CCAACTATCAGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATT
452 CCAACTATCAGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATT
2804 TAATTAGAATTGAATTCGGGAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACAT
517 TAATTAGAATTGAATTC-GGAAAAAAAAACAAGGAAAA-CGATATTAGAAGCGTGAAAAACACAT
2869 CAATTTTTTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACT
580 CAATTTTTTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACT
2934 TTTCAGGTCAATTTTTGCAAAATTTTACCCGAAATCGTGTACTAACCATCACGGTTATTGGCTAA
645 TTTCAGGTCAATTTTTGCAAAATTTTA-CCGAAATCGTGTACTAACCATCACGGTT-TTGGCTAA
*
2999 AAACGCGTTCCGGAGTGCTGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATC
708 AAACGCGTTCCGGAGTGCCGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATC
3064 TATATTCATCGAACCAAATGTCAGCCACATTGTATATAAGGATTTGTTTTTTACGAGCATGATAT
773 TATATTCATCGAACCAAATGTCAGCCACATTGTATATAAGGATTTGTTTTTTACGAGCATGATAT
*
3129 TATAAGCGTGACAGGTCCGTCAATTTTTTTGACGTTGAATTATATATTTTTTCTGAATATTTTGC
838 TAGAAGCGTGACAGGTCCGTCAATTTTTTTGACGTTGAATTATATATTTTTTCTGAATATTTTGC
3194 AAAATATTTAAAAAAATTTCGGGTTACTT
903 AAAATATTTAAAAAAATTTCGGGTTACTT
* * * * *
3223 TTTAGCCGAAATCGTGTACTAACCATTACGGTTTTTTACTAAAAATGCATTTCGG-GCCCCGGCT
1 TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCATTCCGGAGTCCCGGCT
* * * *
3287 CAGTTTTGCATGATTTTTGGCAGAAAGACTCTTTGAAATATCTATATTTATCTAACCAACTATCA
66 CAATTTTGCATGATTTTTGGC-GAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATCA
* *
3352 GCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATATTTGTTTCAATTTAATTAGAAT
130 GCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAAT
3417 TGAATTCGGAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAATTTTTTTA
195 TGAATTCGGAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAA-TTTTTTA
3482 GCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCAA
259 GCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCAA
* *
3547 TTTTTGCAAAATTTTACCCGAAATCGTGTA-CGTCACGGTTTTTGGCTAAAAACGCGTTCTGGAG
324 TTTTTGCAAAATTTTACCCGAAATCGTGTACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAG
*
3611 TGCCGTCTAAATTTTGCATGATTTTTGACAGAAAGACTCCTTGAAATATCTATATTCATCGAACC
389 TGCCGGCTAAATTTTGCATGATTTTTGACAGAAAGACTCCTTGAAATATCTATATTCATCGAACC
* * * * * * * * * *
3676 AAATGTCAGCCACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATC-TTGTTTTGATTTA
454 AACTATCAGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTA
* ** * * * * *
3740 ATTAGAAATT-AATTCGG-AAAAAAAA-ATGGAAAAAAATATTAGAAGCATGAGAAGC-CTGTTA
519 ATTAG-AATTGAATTCGGAAAAAAAAACAAGGAAAACGATATTAGAAGCGTGAAAAACAC-ATCA
* * * *
3801 ATCTTTTT-GTCAG-TGAATTATATA-TTTTTCTGAATATT-TCGCAAAAAATTGA-GAAAAACC
582 ATTTTTTTAG-C-GTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAA-C
* * * * *
3861 TTTTCTGGTCAGTTTTT-----A--GT--CGAAATCGTGTATTAACCATCACGGTTTTCGGCAAA
644 TTTTCAGGTCAATTTTTGCAAAATTTTACCGAAATCGTGTACTAACCATCACGGTTTT-GGCTAA
* * * ** * * *
3917 AAATGCGTTTCGGGGCCCCGGCTCAGTTTTGCGTGATTTTTGGCAG-AAAGACTCCTTGAAATAT
708 AAACGCGTTCCGGAGTGCCGGCTAAATTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAAATAT
** * * ** * *
3981 CTATATTCATTTAACCAAATCTCAGCCATAAAAG-ATTTAAGGATTTG-ATTTTACGAGCATCTG
772 CTATATTCATCGAACCAAATGTCAGCCA-CATTGTATATAAGGATTTGTTTTTTAC--G-A---G
* * * ** * ** * * *
4044 AATCTTTATTTCGATTTAATTAGAAATAAATTCGGGAAAAAAAT-GGAAAAATGATATTAGAAGC
830 ---C---A--T-GA--T-ATTAG-----AA-GCGTG--ACAGGTCCG-TCAAT-TTTTTTG-A-C
* * ** * *
4108 G-TGAAAAACCTT-TAAATCTTTTTGGCGTTGAATTATATATTTTTCTGAGTATTGTGGCAAAAA
871 GTTG---AA--TTATATAT-TTTTT--C--TG----A-ATATTTTGCAAAATATT-T--AAAAAA
** * *
4171 ATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAAT
918 ATTTCGG-------GTT-------A------C---TT
4208 TTTAGCCGAAATCGTGTACTTTTTTTTGCCAACGAAATCGTGTACTAACTATCATGGTTTTTTTT
1 TTTAGCCGAAATCGTGTAC-------T---AAC-----C----A-T--C-A-C--GG---TTTTT
* * * * * * *
4273 TGGCT--AAACGCATTCCTGAGTCCTGACTCAATTTTGCATGATTTTTTGCGTAAAAAATCCTTC
37 T-GCTAAAAACGCATTCCGGAGTCCCGGCTCAATTTTGCATGATTTTTGGCG-AAAGACTCCTTG
* * * * *
4336 AAATATCTATATTCATCGAACTAA--ATCCTAGCCACATTGTATAT-AAGAATTTGTTTTTACGA
100 AAATATCTATATTCATCGAACCAACTAT-C-AGCCACAATGGATTTAAAG-ATTTGTGTTTACGA
* * * *
4398 GAATCTGAATC-TTATTTCGATTTAATTAGAAATT-AATTCGG---AAAAAA-AAGGAAAAACGA
162 GTATCTCAATCTTTGTTTCGATTTAATTAG-AATTGAATTCGGAAAAAAAAACAAGGAAAACCGA
* * * * * *
4457 TATTAGAAGCATGAAAAGTC-CGTCAATTGTTTT-GACGTTGAATTATATCTTTTTTCTGAATAT
226 TATTAGAAGCGTGAAAA-ACACATCAATT-TTTTAG-CGTTGAATAATATATTTTTTCTGAGTAT
* * * * * * * *
4520 T-TTGCAAAACATT-A-GAAAAACTTTTCGGGTTACTTTTTAGCCGAAATTGT----G-TA-C-T
288 TGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCAATTTTT-G-CAAAATTTTACCCGAAATCGT
* ** ** * * ** * *
4575 -AACCATCACGGTTTTTTACTAAAAATACATTTCGG-GCCCCGGCTCAGTTTTGCATGATTTTTG
351 GTACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTGCCGGCTAAATTTTGCATGATTTTTG
* * * * * *
4638 GCAGAAAGACTCCTTGAAATATTTATATTTATCTAACCAAATCTCAGCCACAATGGATTTAAAGA
416 ACAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATCAGCCACAATGGATTTAAAGA
*
4703 TTTCTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAATTGAATTCGG------AAA-
481 TTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAATTGAATTCGGAAAAAAAAAC
*
4761 AA--AAAACGATATTAGAAGCTTGAAAAACACATCAATTTTTTTAGCGTTGAATAATATATTTTT
546 AAGGAAAACGATATTAGAAGCGTGAAAAACACATCAATTTTTTTAGCGTTGAATAATATATTTTT
*
4824 TCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCTGGTCAATTTTTGCAAAATTTTAGCCG
611 TCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCAATTTTTGCAAAATTTTA-CCG
* *
4889 AAATCGTGTTCTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTGTCGGCTAAATTTTG
675 AAATCGTGTACTAACCATCACGG-TTTTGGCTAAAAACGCGTTCCGGAGTGCCGGCTAAATTTTG
* * * *
4954 CATGATTTTTGTCGCAAAGACTCATTGAAATATCTATATTCATTGAACCAAATGTCAACCACATT
739 CATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATGTCAGCCACATT
*
5019 GTATATATGGATTTG-TTTTTACGAGCAT
804 GTATATAAGGATTTGTTTTTTACGAGCAT
5047 CTGAATCTTG
Statistics
Matches: 2339, Mismatches: 252, Indels: 276
0.82 0.09 0.10
Matches are distributed among these distances:
917 8 0.00
918 121 0.05
919 4 0.00
920 1 0.00
921 1 0.00
923 130 0.06
924 21 0.01
925 1 0.00
926 30 0.01
927 14 0.01
928 46 0.02
929 68 0.03
930 44 0.02
931 21 0.01
932 12 0.01
933 2 0.00
934 23 0.01
935 144 0.06
936 150 0.06
937 166 0.07
938 208 0.09
939 370 0.16
940 2 0.00
941 20 0.01
942 1 0.00
943 6 0.00
944 4 0.00
945 3 0.00
946 2 0.00
948 2 0.00
949 4 0.00
950 7 0.00
952 1 0.00
954 2 0.00
958 1 0.00
959 13 0.01
960 1 0.00
962 10 0.00
969 2 0.00
976 1 0.00
982 1 0.00
985 20 0.01
992 2 0.00
993 1 0.00
994 42 0.02
995 18 0.01
996 34 0.01
997 7 0.00
1000 106 0.05
1001 50 0.02
1002 1 0.00
1003 3 0.00
1004 3 0.00
1005 4 0.00
1006 142 0.06
1007 6 0.00
1008 21 0.01
1009 63 0.03
1010 7 0.00
1011 2 0.00
1012 2 0.00
1013 38 0.02
1014 97 0.04
1015 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (931 bp):
TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTGCTAAAAACGCATTCCGGAGTCCCGGCT
CAATTTTGCATGATTTTTGGCGAAAGACTCCTTGAAATATCTATATTCATCGAACCAACTATCAG
CCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAATTAGAATT
GAATTCGGAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCAATTTTTTAGC
GTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAGGTCAATT
TTTGCAAAATTTTACCCGAAATCGTGTACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTG
CCGGCTAAATTTTGCATGATTTTTGACAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAA
CTATCAGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATCTTTGTTTCGATTTAAT
TAGAATTGAATTCGGAAAAAAAAACAAGGAAAACGATATTAGAAGCGTGAAAAACACATCAATTT
TTTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCAG
GTCAATTTTTGCAAAATTTTACCGAAATCGTGTACTAACCATCACGGTTTTGGCTAAAAACGCGT
TCCGGAGTGCCGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCA
TCGAACCAAATGTCAGCCACATTGTATATAAGGATTTGTTTTTTACGAGCATGATATTAGAAGCG
TGACAGGTCCGTCAATTTTTTTGACGTTGAATTATATATTTTTTCTGAATATTTTGCAAAATATT
TAAAAAAATTTCGGGTTACTT
Found at i:4024 original size:321 final size:319
Alignment explanation
Indices: 3154--6855 Score: 1808
Period size: 322 Copynumber: 11.2 Consensus size: 319
3144 TCCGTCAATT
* * * *
3154 TTTTTGACGTTGAATTATATATTTTTTCTGAATATT-TTGCAAAATATTTA--AAAAA-ATTTCG
1 TTTTTG-CGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAACTTTTCG
* * * * ** *
3215 GGTTACTTTTTAGCCGAAATCGTGTACTAACCATTACGGTTTTTTACTAAAAATGCATTTC-GGG
65 GGTCAATTTTTAGTCGAAATCGTGTA-TAACCATCACGGTTTTTGGCTAAAAATGCGTTTCGGGG
* *
3279 CCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCTTTGAAATATCTATATTTATCTAACC
129 CCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACC
* * * * * * * **
3344 AACTATCAGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATATTTGTTTCAATTTA
194 AAATATCAGCCA-AATAGATTTAAGGATTTGTTTTTACGAGCATCTGAAT-CTTGTTTTGATTTA
* * * *
3409 ATTAG-AATTGAATTCGGAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACACATCA
257 ATTAGAAATT-AATTCGG-AAAAAAAA-ATGGAAAA-AGATATTAGAAGCGTGAAAAAC-CTTTA
*
3473 ATT
317 ATC
* * *
3476 TTTTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCA
1 TTTTT-GCGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAACTTTTCG
* * *
3541 GGTCAATTTTTGCAAAATTTTACCCGAAATCGTG--T-A-CGTCACGGTTTTTGGCTAAAAACGC
65 GGTCAATTTTT-----A--GT---CGAAATCGTGTATAACCATCACGGTTTTTGGCTAAAAATGC
* ** * * * *
3602 G-TTCTGGAGTGCCGTCTAAATTTTGCATGATTTTTGACAGAAAGACTCCTTGAAATATCTATAT
120 GTTTC-GGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATAT
* * * * *
3666 TCATCGAACCAAATGTCAGCCACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
184 TCATCTAACCAAATATCAGCCAAATAG-ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * *
3731 TTTGATTTAATTAGAAATTAATTCGGAAAAAAAAATGGAAAAAAATATTAGAAGCATGAGAAGCC
248 TTTGATTTAATTAGAAATTAATTCGGAAAAAAAAATGGAAAAAGATATTAGAAGCGTGAAAAACC
3796 TGTTAATC
313 T-TTAATC
*
3804 TTTTTGTCAG-TGAATTATATA-TTTTTCTGAATATT-TCGCAAAAAATTGA-GAAAAACCTTTT
1 TTTTTG-C-GTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAA-CTTTT
* * * *
3865 CTGGTCAGTTTTTAGTCGAAATCGTGTATTAACCATCACGGTTTTCGGCAAAAAATGCGTTTCGG
63 CGGGTCAATTTTTAGTCGAAATCGTGTA-TAACCATCACGGTTTTTGGCTAAAAATGCGTTTCGG
* *
3930 GGCCCCGGCTCAGTTTTGCGTGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATTTAA
127 GGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAA
* * *
3995 CCAAATCTCAGCCATAAAAGATTTAAGGATTTGATTTTACGAGCATCTGAATCTT-TATTTCGAT
192 CCAAATATCAGCCA-AATAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT-TTT-GAT
* *
4059 TTAATTAGAAATAAATTCGG-GAAAAAAATGGAAAAATGATATTAGAAGCGTGAAAAACCTTTAA
254 TTAATTAGAAATTAATTCGGAAAAAAAAATGGAAAAA-GATATTAGAAGCGTGAAAAACCTTT-A
4123 ATC
317 ATC
*
4126 TTTTTGGCGTTGAATTATATA-TTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAA-TCTTTC
1 TTTTT-GCGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAACT-TTTC
* ** * * * * ** * *
4189 GGGTCAATTTTT-G-CAAAATTTTAGCCGA-AATCGTGTACTTTTTTTTGCCAACGAAAT-CGTG
64 GGGTCAATTTTTAGTCGAAATCGT-G--TATAACCAT-CACGGTTTTTGGCTAA--AAATGCGT-
* *** ** * * *
4250 TAC----TAAC-TATCATGGTTT---T--TTTTTGGCTA-AACGCATTCCTGAGTCCTGACTCAA
122 TTCGGGGCCCCGGCTCA-GTTTTGCATGATTTTTGGC-AGAAAG-ACTCC----T--TGA---AA
* ** *** * * * * *** **
4304 T-TTTGCATGATTTTTTGCGTAA--AAA-ATCCTTCAAATATCTATATTCATCGAACTAAATCCT
175 TATCT--AT-A-TTCAT-C-TAACCAAATATCAGCCAAATA--GAT-TT-A-AGGATTTGTTTTT
* * * * *** * *
4365 AGCCACATTGTATATAAGAAT-TTGTTTTTACGAGAATCT-GAATCTTATTTC-GATTTAATTAG
229 A--C-GA--GCATCT--GAATCTTGTTTTGA-TTTAAT-TAGAA-ATTAATTCGGA---AA--A-
* * * *
4427 AAATTAATTCGGAAAAAAAAGGAAAAACGATATTAGAAGCATGAAAAGTCCGTCAAT-
278 AAA--AA-T-GG----------AAAAA-GATATTAGAAGCGTGAAAA-ACCTTTAATC
* * *
4484 TGTTTTGACGTTGAATTATATCTTTTTTCTGAATATT-TTGCAAAACATT-A-GAAAAACTTTTC
1 T-TTTTG-CGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAACTTTTC
* * * * ** * *
4546 GGGTTACTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTTACTAAAAATACATTTC-GG
64 GGGTCAATTTTTAGTCGAAATCGTGTA-TAACCATCACGGTTTTTGGCTAAAAATGCGTTTCGGG
* *
4610 GCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATTTATATTTATCTAAC
128 GCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * * * * * * *
4675 CAAATCTCAGCCACAATGGATTTAAAGATTTCTGTTTACGAGTATCTCAATCTTTGTTTCGATTT
193 CAAATATCAGCCA-AATAGATTTAAGGATTTGTTTTTACGAGCATCTGAATC-TTGTTTTGATTT
* * * *
4740 AATTAG-AATTGAATTCGG----AAAAA---AAAACGATATTAGAAGCTTGAAAAACACATCAAT
256 AATTAGAAATT-AATTCGGAAAAAAAAATGGAAAAAGATATTAGAAGCGTGAAAAAC-CTTTAAT
*
4797 T
319 C
* * *
4798 TTTTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCT
1 TTTTT-GCGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAACTTTTCG
* * *
4863 GGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTTCTAACCATCACGGTTTTTGGCTAAAAACG
65 GGTCAA----T------TTTTAGTCGAAATCGTG-TATAACCATCACGGTTTTTGGCTAAAAATG
* * *** * * * *
4928 CGTTCCGGAGTGTCGGCTAAATTTTGCATGATTTTTGTC-GCAAAGACTCATTGAAATATCTATA
119 CGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATA
* * * * * *
4992 TTCAT-TGAACCAAATGTCAACCACATTGTATATATGGATTTGTTTTTACGAGCATCTGAATCTT
183 TTCATCT-AACCAAATATCAGCCAAATAG-ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTT
* *
5056 GTTTTGATTTAATTAGAAATGAATTCTG--AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAA
246 GTTTTGATTTAATTAGAAATTAATTCGGAAAAAAAAATGGAAAAA-GATATTAGAAGCGTGAAAA
* *
5119 CCCTGTTAATA
310 ACCT-TTAATC
* *
5130 TTTTTGTCATTGAATTATATATTTTTTCTGAATATT-TCGCAAAAAAATTGA-GAAAAACCTTTT
1 TTTTTG-CGTTGAATTATATATTTTTTCTGAATATTGTGGC-AAAAAATTGAGGAAAAA-CTTTT
* * * * * * * *
5193 CTGGTCAGTTTTTAGTCGAAATCGTATACTCACAATCACGGTTTTCGGCAAAAAATGCGTTTTGG
63 CGGGTCAATTTTTAGTCGAAATCGTGTA-TAACCATCACGGTTTTTGGCTAAAAATGCGTTTCGG
* * *
5258 GGCCCCGACTTAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAA
127 GGCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAA
* * * *
5323 CCAAATCTCAGCCACAATAGATTTAAGAATCTGATTTTACGAGCATCTGAATCTT-TATTTCGAT
192 CCAAATATCAGCCA-AATAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT-TTT-GAT
* * *
5387 TTAATTAGAAATAAATTCAGG--AAAAAAATAGAAAAACGATATTTGAAGCGTGAAAAACCTTTC
254 TTAATTAGAAATTAATTC-GGAAAAAAAAATGGAAAAA-GATATTAGAAGCGTGAAAAACCTTT-
*
5450 AATAT
316 AAT-C
* *
5455 TTTTTGCGTTGAATTATATA-TTTTTCT-AAGTATTGTGGTAAAAAATTGAGGAAAAACCTTTCG
1 TTTTTGCGTTGAATTATATATTTTTTCTGAA-TATTGTGGCAAAAAATTGAGGAAAAACTTTTCG
** * * ** * * **
5518 GGTCAA----TAGAGGAAAAACCT-T-T--CGGGTCA--ATTTTT-GC-AAAATTTAAGCCGAAA
65 GGTCAATTTTTAGTCG-AAATCGTGTATAAC-CATCACGGTTTTTGGCTAAAA---ATG-CG-TT
** ** ** ** * * ** *
5571 TCGTGTACTAAC-TATCATGGTTTT---TTTTTTTTTGCTAAAAACG-CATTTTTG-AGTCCCGG
123 TCG-GGGC-CCCGGCTCA--GTTTTGCATGATTTTTGGC-AGAAA-GAC-TCCTTGAAAT-----
* * * * * * *** * * ***** *
5630 CTCAATTTTGCAT-TATTTTTGGCGTAAAGAATCCTTCAAATATCTATATTCAATGAACCAAATC
176 ATCTATATT-CATCTA------AC-CAAA-TATCAGCCAAATA--GAT-TT-AA-GGATTTGTTT
** * * * * ** * *
5694 CCAGCCACATTGTATATAGGAAT-TTGTTTTTA-CGAGCATCT-GAATCTTATTTC-GATTTAAT
227 TTA--C-GA--GCATCT--GAATCTTGTTTTGATTTA--AT-TAGAA-ATTAATTCGGA---AA-
* * * *
5755 TAGAAATTAATTCGGAAAAAAAAGGAAAAAGGATATTAGAAGCGTGAAAAGTCCGTCAATT
277 -A-AAA--AA-T-GG----------AAAAA-GATATTAGAAGCGTGAAAA-ACCTTTAATC
* *
5816 TTTTTGACGTTGAATTATATATTTTTTCTGAATATT-TTGCAAAACATT-A-GAAAAACTTTTCG
1 TTTTTG-CGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAACTTTTCG
* * * * * ** *
5878 GGTTACTTTTTAGCCGAAATCGTGCACTAACCATCATGGTTTTTTACTAAAAATGCATTTC-GGG
65 GGTCAATTTTTAGTCGAAATCGTGTA-TAACCATCACGGTTTTTGGCTAAAAATGCGTTTCGGGG
* * *
5942 CCCCGGCTCAGTTTTGCAAGATTTTTGGCAGAAAGACTCCTTGAAATAACTATATTTATCTAACC
129 CCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACC
* * * * * * * *
6007 AAATCTCAGCCACAATGGATTTAAAGATTTGTGTTTATGAGTATCTCAATCTTTGTTTCGATTTA
194 AAATATCAGCCA-AATAGATTTAAGGATTTGTTTTTACGAGCATCTGAATC-TTGTTTTGATTTA
* * * **
6072 ATTAGAAATGAATTCGG-AAAAAAAA-GGTAAAACA-ATATTAAAAGCGTGAAAAACAAATCAAA
257 ATTAGAAATTAATTCGGAAAAAAAAATGG-AAAA-AGATATTAGAAGCGTGAAAAAC--CTTTAA
6134 T-
318 TC
* * *
6135 TTTTTATCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGG-AAAACTTTTCG
1 TTTTT-GCGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAACTTTTCG
* *
6199 GGTCAATTTTTGTAAAATTTTAGTCGAAATCGTG--T-A-CATCACGGTATTTGGCTAAAAACGC
65 GGTCAA------T----TTTTAGTCGAAATCGTGTATAACCATCACGGTTTTTGGCTAAAAATGC
* * ** * *
6260 GTTCCGGAGTGCCGGCTAAATTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAAATATCTATAT
120 GTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATAT
* * * * *
6324 TCAT-TGAACCAAATGTCAGCGACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTG
184 TCATCT-AACCAAATATCAGCCAAATAG-ATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* * *
6388 TATTGATTTAATTAGAAATTAATTCGG-GAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAG
247 TTTTGATTTAATTAGAAATTAATTCGGAAAAAAAAATGGAAAAA-GATATTAGAAGCGTGAAAAA
6452 CCTGTTAATC
311 CCT-TTAATC
* * * *
6462 TTTTTGTCATTGAATTATATATTTTTTCTGAATATT-TCGCAAAAAATTG-GGAAAGACCTATTC
1 TTTTTG-CGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAA-AACTTTTC
* * * * * * *
6525 CGGTCAGTTCTTAGTCGAAATCGTGTACTAACTATCACAGTTTTCGGCAAAAAATGCGTTTCGGG
64 GGGTCAATTTTTAGTCGAAATCGTGTA-TAACCATCACGGTTTTTGGCTAAAAATGCGTTTCGGG
*
6590 GCCCCGGCTCAGTTTTGGATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
128 GCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAAC
* * * *
6655 CAAATCTCAGCCACAATGGATTTAAGGATCTGATTTTACGAGCATCTGAATCTT-TATTTCGATT
193 CAAATATCAGCCA-AATAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT-TTT-GATT
* * *
6719 TAATTAGAAATAAATTCGG-GAAAAAAATGTAAAAACGATATTAGAAGCGTGAAAAACCTTTCAA
255 TAATTAGAAATTAATTCGGAAAAAAAAATGGAAAAA-GATATTAGAAGCGTGAAAAACCTTT-AA
6783 TC
318 TC
* ** *
6785 TTTTCGGCGTTGAATTATATA-TTTTTCTGTGTATTGTGGCAAAAAATTGAGGAAAAACCTTTCG
1 TTTT-TGCGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAACTTTTCG
6849 GGTCAAT
65 GGTCAAT
6856 AGAGGAAAAA
Statistics
Matches: 2558, Mismatches: 507, Indels: 629
0.69 0.14 0.17
Matches are distributed among these distances:
312 5 0.00
313 56 0.02
314 20 0.01
315 4 0.00
316 42 0.02
317 32 0.01
318 13 0.01
319 62 0.02
320 34 0.01
321 181 0.07
322 402 0.16
323 228 0.09
324 80 0.03
325 29 0.01
326 200 0.08
327 271 0.11
328 49 0.02
329 21 0.01
330 20 0.01
331 89 0.03
332 187 0.07
333 3 0.00
334 6 0.00
335 9 0.00
336 10 0.00
337 8 0.00
338 13 0.01
339 14 0.01
340 24 0.01
341 21 0.01
342 36 0.01
343 1 0.00
344 3 0.00
345 5 0.00
347 9 0.00
348 10 0.00
349 7 0.00
350 13 0.01
351 10 0.00
352 12 0.00
353 4 0.00
354 3 0.00
355 6 0.00
356 6 0.00
357 31 0.01
358 18 0.01
359 70 0.03
360 32 0.01
361 9 0.00
362 59 0.02
363 36 0.01
364 18 0.01
365 7 0.00
366 3 0.00
367 4 0.00
368 3 0.00
369 5 0.00
370 1 0.00
371 4 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (319 bp):
TTTTTGCGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGGAAAAACTTTTCGG
GTCAATTTTTAGTCGAAATCGTGTATAACCATCACGGTTTTTGGCTAAAAATGCGTTTCGGGGCC
CCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAA
ATATCAGCCAAATAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTTGATTTAATTA
GAAATTAATTCGGAAAAAAAAATGGAAAAAGATATTAGAAGCGTGAAAAACCTTTAATC
Found at i:5558 original size:24 final size:24
Alignment explanation
Indices: 5502--5548 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
5492 GTAAAAAATT
5502 GAGGAAAAACCTTTCGGGTCAATA
1 GAGGAAAAACCTTTCGGGTCAATA
5526 GAGGAAAAACCTTTCGGGTCAAT
1 GAGGAAAAACCTTTCGGGTCAAT
5549 TTTTGCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (24 bp):
GAGGAAAAACCTTTCGGGTCAATA
Found at i:6837 original size:649 final size:645
Alignment explanation
Indices: 3154--6855 Score: 4345
Period size: 649 Copynumber: 5.6 Consensus size: 645
3144 TCCGTCAATT
* * *
3154 TTTTTGACGTTGAATTATATATTTTTTCTGAATATTTTGCAAAATATTTA-AAAAAA--TTTCGG
1 TTTTTGACATTGAATTATATATTTTTTCTGAATATTTCGCAAAA-AATTAGAAAAAACTTTTCGG
* * ** *
3216 GTTACTTTTTAGCCGAAATCGTGTACTAACCATTACGGTTTTTTACTAAAAATGCATTTCGGGCC
65 GTCACTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGACAAAAAATGCATTTCGGGCC
* *
3281 CCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCTTTGAAATATCTATATTTATCTAACCAA
130 CCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAA
* * * * * * *
3346 CTATCAGCCACAATGGATTTAAAGATTTGTGTTTACGAGTATCTCAATATTTGTTTCAATTTAAT
195 ATCTCAGCCACAATGGATTTAAAGATCTGT-TTTACGAGCATCTCAATCTTTATTTCGATTTAAT
* * * * *
3411 TAGAATTGAATTCGGAAAAAAAAACAAGGAAAACCGATATTAGAAGCGTGAAAAACAC-ATCAAT
259 TAGAAATAAATTCGG---GAAAAA-AATGAAAAACGATATTAGAAGCGTGAAAAAC-CTATCAAT
*
3475 TTTTTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTC
319 CTTTTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTC
* * *
3540 AGGTCAATTTTTGCAAAATTTTACCCGAAATCGTGTACGTCACGGTTTTTGGCTAAAAACGCGTT
384 GGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACATCACGGTTTTTGGCTAAAAACGCGTT
* * *
3605 CTGGAGTGCCGTCTAAATTTTGCATGATTTTTGACAG-AAAGACTCCTTGAAATATCTATATTCA
449 CCGGAGTGCCGGCTAAATTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTCA
*
3669 TCGAACCAAATGTCAGCCACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTT
513 TTGAACCAAATGTCAGCCACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTG-TTT
* * *
3734 GATTTAATTAGAAATTAATTCGGAAAAAAAAATGGAAAAA-AATATTAGAAGCATGAGAAGCCTG
577 GATTTAATTAGAAATTAATTCGG--AAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCTG
3798 TTAATC
640 TTAATC
* * * *
3804 TTTTTGTCAGTGAATTATATA-TTTTTCTGAATATTTCGCAAAAAATTGAGAAAAACCTTTTCTG
1 TTTTTGACATTGAATTATATATTTTTTCTGAATATTTCGCAAAAAATT-AGAAAAAACTTTTCGG
* * * * *
3868 GTCAGTTTTTAGTCGAAATCGTGTATTAACCATCACGGTTTTCGGCAAAAAATGCGTTTCGGGGC
65 GTCACTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGACAAAAAATGCATTTC-GGGC
* *
3933 CCCGGCTCAGTTTTGCGTGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATTTAACCA
129 CCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCA
* ** * * *
3998 AATCTCAGCCATAAAAGATTTAAGGATTTGATTTTACGAGCATCTGAATCTTTATTTCGATTTAA
194 AATCTCAGCCACAATGGATTTAAAGATCTG-TTTTACGAGCATCTCAATCTTTATTTCGATTTAA
* * *
4063 TTAGAAATAAATTCGGGAAAAAAATGGAAAAATGATATTAGAAGCGTGAAAAACCTTTAAATCTT
258 TTAGAAATAAATTCGGGAAAAAAAT-GAAAAACGATATTAGAAGCGTGAAAAACCTATCAATCTT
* *
4128 TTTGGCGTTGAATTATATA-TTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAA-TCTTTCGG
322 TTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACT-TTTCGG
4191 GTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTTTTTTTTGCCAACGAAATCGTGTACTAA
386 GTCAATTTTTGCAAAATTTTAGCCGAAATCGTG----------T---------A-C----A-T--
* * * *
4256 CTATCATGGTTTTTTTTTGGCT--AAACGCATTCCTGAGT-CCTGACTCAATTTTGCATGATTTT
424 C-A-C--GG----TTTTTGGCTAAAAACGCGTTCCGGAGTGCC-GGCTAAATTTTGCATGATTTT
* * * * * * * *
4318 TTGCGTAAAAAATCCTTCAAATATCTATATTCATCGAACTAAAT-CCTAGCCACATTGTATATAA
480 TGGCGCAAAGACTCCTTGAAATATCTATATTCATTGAACCAAATGTC-AGCCACATTGTATATAA
* * * *
4382 GAATTTGTTTTTACGAGAATCTGAATCTTATTTCGATTTAATTAGAAATTAATTCGGAAAAAAAA
544 GGATTTGTTTTTACGAGCATCTGAATCTTGTTT-GATTTAATTAGAAATTAATTCGGAAAAAAAT
* *
4447 GGAAAAACGATATTAGAAGCATGAAAAGTCC-GTCAAT-
608 GGAAAAACGATATTAGAAGCGTGAAAAG-CCTGTTAATC
* * * *
4484 TGTTTTGACGTTGAATTATATCTTTTTTCTGAATATTTTGCAAAACATTAG-AAAAACTTTTCGG
1 T-TTTTGACATTGAATTATATATTTTTTCTGAATATTTCGCAAAAAATTAGAAAAAACTTTTCGG
* * ** * *
4548 GTTACTTTTTAGCCGAAATTGTGTACTAACCATCACGGTTTTTTACTAAAAATACATTTCGGGCC
65 GTCACTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGACAAAAAATGCATTTCGGGCC
* *
4613 CCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATTTATATTTATCTAACCAA
130 CCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAA
* *
4678 ATCTCAGCCACAATGGATTTAAAGATTTCTG-TTTACGAGTATCTCAATCTTTGTTTCGATTTAA
195 ATCTCAGCCACAATGGATTTAAAGA--TCTGTTTTACGAGCATCTCAATCTTTATTTCGATTTAA
* * * *
4742 TTAGAATTGAATTC-GG---AAAA--AAAAACGATATTAGAAGCTTGAAAAACAC-ATCAATTTT
258 TTAGAAATAAATTCGGGAAAAAAATGAAAAACGATATTAGAAGCGTGAAAAAC-CTATCAATCTT
*
4800 TTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCTGG
322 TTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGG
4865 TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTTCTAACCATCACGGTTTTTGGCTAAAAACGCG
387 TCAATTTTTGCAAAATTTTAGCCGAAATCGTG---T-A-CATCACGGTTTTTGGCTAAAAACGCG
* * *
4930 TTCCGGAGTGTCGGCTAAATTTTGCATGATTTTTGTCGCAAAGACTCATTGAAATATCTATATTC
447 TTCCGGAGTGCCGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTC
* *
4995 ATTGAACCAAATGTCAACCACATTGTATATATGGATTTGTTTTTACGAGCATCTGAATCTTGTTT
512 ATTGAACCAAATGTCAGCCACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTG-TT
* * *
5060 TGATTTAATTAGAAATGAATTCTGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAACCCTGT
576 TGATTTAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCTGT
*
5125 TAATA
641 TAATC
* * *
5130 TTTTTGTCATTGAATTATATATTTTTTCTGAATATTTCGCAAAAAAATTGAGAAAAACCTTTTCT
1 TTTTTGACATTGAATTATATATTTTTTCTGAATATTTCGC-AAAAAATT-AGAAAAAACTTTTCG
* * * * * * * *
5195 GGTCAGTTTTTAGTCGAAATCGTATACTCACAATCACGGTTTTCGGCAAAAAATGCGTTTTGGGG
64 GGTCACTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGACAAAAAATGC-ATTTCGGG
* * *
5260 CCCCGACTTAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACC
128 CCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACC
* *
5325 AAATCTCAGCCACAATAGATTT-AAGAATCTGATTTTACGAGCATCTGAATCTTTATTTCGATTT
193 AAATCTCAGCCACAATGGATTTAAAG-ATCTG-TTTTACGAGCATCTCAATCTTTATTTCGATTT
* * * *
5389 AATTAGAAATAAATTCAGGAAAAAAATAGAAAAACGATATTTGAAGCGTGAAAAACCTTTCAATA
256 AATTAGAAATAAATTCGGGAAAAAAAT-GAAAAACGATATTAGAAGCGTGAAAAACCTATCAATC
* * * *
5454 TTTTTTGCGTTGAATTATATA-TTTTTCTAAGTATTGTGGTAAAAAATTGAGGAAAAACCTTTCG
320 TTTTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAA-------
*
5518 GGTCAATAGAGGAAAAACCTTTCGGGTCAATTTTTGCAAAATTTAAGCCGAAATCGTGTACTAAC
378 ---C--T------------TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTG---T-AC
* * * *** * * *
5583 TATCATGGTTTTTTTTTTTTTGCTAAAAACGCATTTTTGAGTCCCGGCTCAATTTTGCATTATTT
422 -ATCACGG-------TTTTTGGCTAAAAACGCGTTCCGGAGTGCCGGCTAAATTTTGCATGATTT
* * * * **
5648 TTGGCGTAAAGAATCCTTCAAATATCTATATTCAATGAACCAAATCCCAGCCACATTGTATAT-A
479 TTGGCGCAAAGACTCCTTGAAATATCTATATTCATTGAACCAAATGTCAGCCACATTGTATATAA
*
5712 GGAATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTCGGAAAAAAA
544 GG-ATTTGTTTTTACGAGCATCTGAATCTTGTTT-GATTTAATTAGAAATTAATTCGGAAAAAAA
* * * *
5777 AGGAAAAAGGATATTAGAAGCGTGAAAAGTCC-GTCAATT
607 TGGAAAAACGATATTAGAAGCGTGAAAAG-CCTGTTAATC
* * *
5816 TTTTTGACGTTGAATTATATATTTTTTCTGAATATTTTGCAAAACATTAG-AAAAACTTTTCGGG
1 TTTTTGACATTGAATTATATATTTTTTCTGAATATTTCGCAAAAAATTAGAAAAAACTTTTCGGG
* * * ** *
5880 TTACTTTTTAGCCGAAATCGTGCACTAACCATCATGGTTTTTTACTAAAAATGCATTTCGGGCCC
66 TCACTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGACAAAAAATGCATTTCGGGCCC
* * *
5945 CGGCTCAGTTTTGCAAGATTTTTGGCAGAAAGACTCCTTGAAATAACTATATTTATCTAACCAAA
131 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
* * * *
6010 TCTCAGCCACAATGGATTTAAAGATTTGTGTTTATGAGTATCTCAATCTTTGTTTCGATTTAATT
196 TCTCAGCCACAATGGATTTAAAGATCTGT-TTTACGAGCATCTCAATCTTTATTTCGATTTAATT
* * * * * * **
6075 AGAAATGAATTCGGAAAAAAAAGGTAAAACAATATTAAAAGCGTGAAAAACAAATCAAAT-TTTT
260 AGAAATAAATTCGGGAAAAAAATGAAAAACGATATTAGAAGCGTGAAAAACCTATC-AATCTTTT
*
6139 TATCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGG-AAAACTTTTCGGGTC
324 TAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTC
* * *
6203 AATTTTTGTAAAATTTTAGTCGAAATCGTGTACATCACGGTATTTGGCTAAAAACGCGTTCCGGA
389 AATTTTTGCAAAATTTTAGCCGAAATCGTGTACATCACGGTTTTTGGCTAAAAACGCGTTCCGGA
6268 GTGCCGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATTGAAC
454 GTGCCGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATTGAAC
*
6333 CAAATGTCAGCGACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTATTGATTTA
519 CAAATGTCAGCCACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGT-TTGATTTA
6398 ATTAGAAATTAATTCGGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCTGTTAATC
583 ATTAGAAATTAATTC-GGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCTGTTAATC
* * * * * *
6462 TTTTTGTCATTGAATTATATATTTTTTCTGAATATTTCGCAAAAAATTGGGAAAGACCTATTCCG
1 TTTTTGACATTGAATTATATATTTTTTCTGAATATTTCGCAAAAAATT-AGAAAAAACTTTTCGG
* * * * * * *
6527 GTCAGTTCTTAGTCGAAATCGTGTACTAACTATCACAGTTTTCGGCAAAAAATGCGTTTCGGGGC
65 GTCACTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGACAAAAAATGCATTTC-GGGC
*
6592 CCCGGCTCAGTTTTGGATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCA
129 CCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCA
* *
6657 AATCTCAGCCACAATGGATTTAAGGATCTGATTTTACGAGCATCTGAATCTTTATTTCGATTTAA
194 AATCTCAGCCACAATGGATTTAAAGATCTG-TTTTACGAGCATCTCAATCTTTATTTCGATTTAA
*
6722 TTAGAAATAAATTCGGGAAAAAAATGTAAAAACGATATTAGAAGCGTGAAAAACCTTTCAATCTT
258 TTAGAAATAAATTCGGGAAAAAAATG-AAAAACGATATTAGAAGCGTGAAAAACCTATCAATCTT
** * * *
6787 TTCGGCGTTGAATTATATA-TTTTTCTGTGTATTGTGGCAAAAAATTGAGGAAAAACCTTTCGGG
322 TTTAGCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGG
6851 TCAAT
387 TCAAT
6856 AGAGGAAAAA
Statistics
Matches: 2598, Mismatches: 325, Indels: 258
0.82 0.10 0.08
Matches are distributed among these distances:
643 9 0.00
644 2 0.00
645 352 0.14
646 103 0.04
647 9 0.00
648 117 0.05
649 407 0.16
650 141 0.05
651 1 0.00
652 61 0.02
653 138 0.05
654 3 0.00
655 35 0.01
656 49 0.02
657 36 0.01
658 3 0.00
659 1 0.00
665 1 0.00
666 3 0.00
667 1 0.00
668 1 0.00
669 2 0.00
671 1 0.00
672 48 0.02
673 75 0.03
674 2 0.00
675 4 0.00
676 1 0.00
677 1 0.00
678 4 0.00
679 177 0.07
680 77 0.03
681 100 0.04
682 333 0.13
683 57 0.02
684 11 0.00
685 12 0.00
686 218 0.08
687 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (645 bp):
TTTTTGACATTGAATTATATATTTTTTCTGAATATTTCGCAAAAAATTAGAAAAAACTTTTCGGG
TCACTTTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGACAAAAAATGCATTTCGGGCCC
CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
TCTCAGCCACAATGGATTTAAAGATCTGTTTTACGAGCATCTCAATCTTTATTTCGATTTAATTA
GAAATAAATTCGGGAAAAAAATGAAAAACGATATTAGAAGCGTGAAAAACCTATCAATCTTTTTA
GCGTTGAATAATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAA
TTTTTGCAAAATTTTAGCCGAAATCGTGTACATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGT
GCCGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATTGAACCA
AATGTCAGCCACATTGTATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTGATTTAATT
AGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCTGTTAATC
Found at i:6889 original size:24 final size:24
Alignment explanation
Indices: 6833--6879 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
6823 GCAAAAAATT
6833 GAGGAAAAACCTTTCGGGTCAATA
1 GAGGAAAAACCTTTCGGGTCAATA
6857 GAGGAAAAACCTTTCGGGTCAAT
1 GAGGAAAAACCTTTCGGGTCAAT
6880 TTTTGCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (24 bp):
GAGGAAAAACCTTTCGGGTCAATA
Done.