Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014266.1 Corchorus olitorius cultivar O-4 contig14299, 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: 3277
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Found at i:1201 original size:337 final size:334
Alignment explanation
Indices: 1--3218 Score: 4538
Period size: 337 Copynumber: 9.6 Consensus size: 334
* * *
1 AATAGTTTTGGCGTTTAATTATATGATTTTTCTGAGTATTGTGGCAAGAAATTGGGGAAAAAATT
1 AATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
*
66 TACAGGTAAGTTTTTATGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
66 TACGGGTAAGTTTTT-TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
* *
131 AAAATGCGTTTCGAGTCCCTAGCTCAGTTTTGCATGATTTTTGGAAGAATGACTTCTCGAAATAT
130 AAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATAT
* *
196 CTATATTCATCTAATCAAATCTCTCAGCCACAATTCATTTACAGATTTATTTTTACAAGTGTCTG
195 CTATATTCATCTAATCAAATC-CTCAGCCACAATGCATTTACGGATTTATTTTTACAAGTGTCTG
*
261 TATCTTGTTTCGATTTATTTAGAAATAAATTCAG-AAAAAATGGAAAAACGATATTAAAAGCGTG
259 AATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCGTG
325 AAAAACCCTAA
324 AAAAACCCTAA
* * *
336 AATAGTTTTGGCATTGAATTATATGATTTTTTTGAGTATTGTGGCAAAAAATTGGGGAAAAAAAT
1 AATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGG-AAAAACT
* *
401 TTTCGGATAAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTTGGC
65 TTACGGGTAAG-TTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGC
* * * * *
466 TAAAAATGTGTTTCGGGGCCCTGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTTCTCGAAAT
128 TAAAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAAT
* * * * * * *
531 ATCTATATTCATCTAACCAAAT-CTCACCCACATTGGC-TTGACGGATTTGTTTTTACGAGCGTC
193 ATCTATATTCATCTAATCAAATCCTCAGCCACAAT-GCATTTACGGATTTATTTTTACAAGTGTC
* * * *
594 TGAATCTTGTTAT-AATTTAATTAAAAATAAATTCAGAAAAAAATGGAAAAACGATATTAGAAGC
257 TGAATCTTGTT-TCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGC
658 GTGAAAAACCCTAA
321 GTGAAAAACCCTAA
* *
672 AATATTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAACACTT
1 AATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
* * ** *
737 TTCGGGTCAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAATTTTTGGCTGA
66 TACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAA
* * *
802 AAATGCGTTTCGAGGCCCTAGCTCAGTTTTGCATGATTTTTGACAGAATGACTTCTCGAAATATC
131 AAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATATC
* * * *
867 TATATTCATCTAGTCAAATCCATCAGCGACAATGCATTTATGGATTTATTTTTACAAGTATCTGA
196 TATATTCATCTAATCAAATCC-TCAGCCACAATGCATTTACGGATTTATTTTTACAAGTGTCTGA
*
932 ATCTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAATTGGAAAAACGATATTAAAAGCGTG
260 ATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAA-TGGAAAAACGATATTAAAAGCGTG
997 AAAAACCCTAA
324 AAAAACCCTAA
* * *
1008 AATAGTTTTGGCGTTTAATTATATGATTTTTCTGAGTATTGTGGCAAGAAATTGGGGAAAAAATT
1 AATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
*
1073 TACAGGTAAGTTTTTATGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
66 TACGGGTAAGTTTTT-TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
* *
1138 AAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGTAGATTGACTTCTCGAAATAT
130 AAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATAT
* *
1203 CTATATTCATCTAATCAAATCTCTCAGCCACAATGCATTTACAGATTTATATTTACAAGTGTCTG
195 CTATATTCATCTAATCAAATC-CTCAGCCACAATGCATTTACGGATTTATTTTTACAAGTGTCTG
* *
1268 TATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAGAAAATGGAAAAACGATATTAAAAGCGTG
259 AATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCGTG
*
1333 AAAAACGCTAA
324 AAAAACCCTAA
* * *
1344 AATAGTTTCGACATTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
1 AATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
* * * *
1409 TTCGGATCAGTTTTTTTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTTGGCT
66 TACGGGTAAG-TTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCT
* * * * *
1474 AAAAATGTGTTTCTG-GGCCC-GACTCAGTTTTGCATGATTTTTGGCAGAAAGACCTCTCGAAAT
129 AAAAATGCGTTTC-GAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAAT
* * * * * * * *
1537 ATCTATATTCATCTAACCAAAT-ATCACCCACATTGGC-TTGACGGATTTGTTTTTACGAGCGTC
193 ATCTATATTCATCTAATCAAATCCTCAGCCACAAT-GCATTTACGGATTTATTTTTACAAGTGTC
* * *
1600 TGAATCTTGTTAT-GATTTAATTA-AAATAAATTCAGAACAAAATGGAAAAACGATATTAGAAGC
257 TGAATCTTGTT-TCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGC
1663 GTGAAAAACCCTAA
321 GTGAAAAACCCTAA
* * * *
1677 AATATTTTTTGCGTTGAATTATATGATTTTTCTGATTATTGTGGCAAAAAATTGGGGAAACACTT
1 AATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
* * * *
1742 TTCGGGTCAGCTTTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTTGGCT
66 TACGGGTAAG-TTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACG-GTTTTTGGCT
* *
1807 AAAAATGCGTTTCGAGGCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGACATA
129 AAAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATA
* ** *
1872 TCTATATTCATCTAATTAAATCTCTCAGCCACAATGCATTTACATATTTATTTTTACAAGTGTAT
194 TCTATATTCATCTAATCAAATC-CTCAGCCACAATGCATTTACGGATTTATTTTTACAAGTGTCT
* * * *
1937 GTATCTTGTTTCTATTTATTTAGAAATAAATTAAGAAAAAAATGGAAAAATGATATTAAAAGCGT
258 GAATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCGT
2002 GAAAAACCCTAA
323 GAAAAACCCTAA
* *
2014 AATAGTTTTGACATTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
1 AATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
* * *
2079 TTCGGATAAGTTTTTTTGCAAAATTTTAGCCGAAATC--GT--T---CATCACGATTTTTTGGCT
66 TACGGGTAAG-TTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACG-GTTTTTGGCT
* * * * * * *
2137 GAAAATGTGTTTCGGGACCCTGACTCAGTTTTGAATGATTTTTGGCAGAAAGACTTCTCGAAATA
129 AAAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATA
* * * * * * *
2202 TCTATATTCATCTAACCAAAT-CTCACCCACATTGGC-TTGACGGATTTGTTTTTACGAGCGTCT
194 TCTATATTCATCTAATCAAATCCTCAGCCACAAT-GCATTTACGGATTTATTTTTACAAGTGTCT
* * * * * *
2265 GAATCTTGTTAT-AATTTAATTAAAAATAAATTTAGAAAAAAATGGAAAAACGATATTAGAAGCC
258 GAATCTTGTT-TCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCG
2329 TGAAAAACCCTAA
322 TGAAAAACCCTAA
* * *
2342 AATACTTTTGGCGTTGAATTATATGATTTTTTCTGAGTATTGTGGCAAGAAATTGGGGAAAAAAT
1 AATAGTTTTGGCGTTGAATTATATGA-TTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACT
* * * **
2407 TTACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTATACTAACAATTACAATTTTTGGCTA
65 TTACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
* * * *
2472 AAAATGCGTTTCGA-TGCCCTGGCTGAGTTTTTCATGATTTTTGGTACAATGACTTCTCGAAATA
130 AAAATGCGTTTCGAGT-CCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATA
* * * *
2536 TCTATATTCATCTAGTCAAATCCCTCAGACACAATGCATTTATGGATTTATTTTTACAAGTATCT
194 TCTATATTCATCTAATCAAAT-CCTCAGCCACAATGCATTTACGGATTTATTTTTACAAGTGTCT
* * *
2601 GAATCTTGTTTCGATTTATTTAGACATAAATTCATAAAAAAAAAAGG-AAAACGATATTAAAAGC
258 GAATCTTGTTTCGATTTATTTAGAAATAAATTC--AGAAAAAAATGGAAAAACGATATTAAAAGC
*
2665 GTGAAAAAACCTAA
321 GTGAAAAACCCTAA
* *
2679 AATAGTTTTGGCGTTTAATTATATGATTTTTTCTGAGTATTGTGGCAAGAAATTGGGGAAAAACT
1 AATAGTTTTGGCGTTGAATTATATGA-TTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACT
* *
2744 TTACGGGTCAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCTA
65 TTACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
* * * *
2809 AAAATGCGTTTTGAGTCCCTGGCTCGGTTTTGCATGATTTTTGGAAGATTGACTTCTCGAAATAT
130 AAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATAT
* * *
2874 CTACATTCATCTCATCAAATCTCTCAGCCACAATGCATTTACGGATTTATTTTTACAAGTATCTG
195 CTATATTCATCTAATCAAATC-CTCAGCCACAATGCATTTACGGATTTATTTTTACAAGTGTCTG
* *
2939 TATCGTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGG-AAAACGATATTAAAAGCGTG
259 AATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCGTG
3003 AAAAACCCTAA
324 AAAAACCCTAA
* * *
3014 AATAGTTTTGGCGTTCAATTATATGATTTTTTCTGAGTATTATGGCAAGAAATTGGGGAAAAACT
1 AATAGTTTTGGCGTTGAATTATATGA-TTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACT
* *
3079 TTACGGGTCAGTTTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACGGTTTTTGGCTA
65 TTACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
* *
3144 AAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTTATCGAAATAT
130 AAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATAT
3209 CTATATTCAT
195 CTATATTCAT
3219 TTTGCAAAAT
Statistics
Matches: 2565, Mismatches: 273, Indels: 90
0.88 0.09 0.03
Matches are distributed among these distances:
328 146 0.06
329 48 0.02
330 95 0.04
332 2 0.00
333 272 0.11
334 234 0.09
335 444 0.17
336 555 0.22
337 756 0.29
338 13 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (334 bp):
AATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
TACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAA
AAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATATC
TATATTCATCTAATCAAATCCTCAGCCACAATGCATTTACGGATTTATTTTTACAAGTGTCTGAA
TCTTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCGTGAA
AAACCCTAA
Found at i:1882 original size:670 final size:668
Alignment explanation
Indices: 1--3218 Score: 4542
Period size: 670 Copynumber: 4.8 Consensus size: 668
* * * * *
1 AATAGTTTTGGCGTTTAATTATATGATTTTTCTGAGTATTGTGGCAAGAAATTGGGGAAAAAATT
1 AATAGTTTTGACATTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
* * *
66 TACAGG-TAAGTTTTTATGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCT
66 TTC-GGATCAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCT
* * *
130 AAAAATGCGTTTCGAGTCCCTAGCTCAGTTTTGCATGATTTTTGGAAGAATGACTTCTCGAAATA
130 AAAAATGCGTTTCGAGGCCCGA-CTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATA
*
195 TCTATATTCATCTAATCAAATCTCTCAGCCACAATT-CATTTACAGATTTATTTTTACAAGTGTC
194 TCTATATTCATCTAATCAAA--TCTCAGCCAC-ATTGCATTTACGGATTTATTTTTACAAGTGTC
* *
259 TGTATCTTGTTTCGATTTATTTAGAAATAAATTCAG-AAAAAATGGAAAAACGATATTAAAAGCG
256 TGAATCTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCG
* * *
323 TGAAAAACCCTAAAATAGTTTTGGCATTGAATTATATGATTTTTTTGAGTATTGTGGCAAAAAAT
321 TGAAAAACCCTAAAATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAGAAAT
* *
388 TGGGGAAAAAAATTTTCGGATAAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATC
386 TGGGG-AAAAAATTTACGGGTAAG-TTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATC
* * * *
453 ACGGTTTTTTGGCTAAAAATGTGTTTCGGGGCCCTGACTCAGTTTTGCATGATTTTTGGCAGAAA
449 ACGG-TTTTTGGCTAAAAATGCGTTTCGAGGCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAAT
* * * * * *
518 GACTTCTCGAAATATCTATATTCATCTAACCAAA--TCTCACCCACATTGGC-TTGACGGATTTG
513 GACTTCTCGAAATATCTATATTCATCTAATCAAATCTCTCAGCCACAAT-GCATTTACAGATTTA
* * * * *
580 TTTTTACGAGCGTCTGAATCTTGTTAT-AATTTAATTAAAAATAAATTCAGAAAAAAATGGAAAA
577 TTTTTACAAGTGTCTGAATCTTGTT-TCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAA
*
644 ACGATATTAGAAGCGTGAAAAACCCTAA
641 ACGATATTAAAAGCGTGAAAAACCCTAA
* * * *
672 AATATTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAACACTT
1 AATAGTTTTGACATTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
* ** *
737 TTCGGGTCAG-TTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAATTTTTGGCTG
66 TTCGGATCAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
* *
801 AAAATGCGTTTCGAGGCCCTAGCTCAGTTTTGCATGATTTTTGACAGAATGACTTCTCGAAATAT
131 AAAATGCGTTTCGAGGCCCGA-CTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATAT
* * * * *
866 CTATATTCATCTAGTCAAATCCATCAGCGACAATGCATTTATGGATTTATTTTTACAAGTATCTG
195 CTATATTCATCTAATCAAAT-C-TCAGCCACATTGCATTTACGGATTTATTTTTACAAGTGTCTG
931 AATCTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAATTGGAAAAACGATATTAAAAGCGT
258 AATCTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAA-TGGAAAAACGATATTAAAAGCGT
*
996 GAAAAACCCTAAAATAGTTTTGGCGTTTAATTATATGATTTTTCTGAGTATTGTGGCAAGAAATT
322 GAAAAACCCTAAAATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAGAAATT
*
1061 GGGGAAAAAATTTACAGGTAAGTTTTTATGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
387 GGGGAAAAAATTTACGGGTAAGTTTTT-TGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
* * *
1126 GGTTTTTGGCTAAAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGTAGATTGAC
451 GGTTTTTGGCTAAAAATGCGTTTCGAGGCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGAC
*
1191 TTCTCGAAATATCTATATTCATCTAATCAAATCTCTCAGCCACAATGCATTTACAGATTTATATT
516 TTCTCGAAATATCTATATTCATCTAATCAAATCTCTCAGCCACAATGCATTTACAGATTTATTTT
* *
1256 TACAAGTGTCTGTATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAGAAAATGGAAAAACGAT
581 TACAAGTGTCTGAATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGAT
*
1321 ATTAAAAGCGTGAAAAACGCTAA
646 ATTAAAAGCGTGAAAAACCCTAA
*
1344 AATAGTTTCGACATTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
1 AATAGTTTTGACATTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
*
1409 TTCGGATCAGTTTTTTTGCAAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTTGGCT
66 TTCGGATCAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG-TTTTTGGCT
* * *
1474 AAAAATGTGTTTCTG-GGCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACCTCTCGAAATA
130 AAAAATGCGTTTC-GAGGCCCGACTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATA
* * * * * * *
1538 TCTATATTCATCTAACCAAATATCACCCACATTGGC-TTGACGGATTTGTTTTTACGAGCGTCTG
194 TCTATATTCATCTAATCAAATCTCAGCCACATT-GCATTTACGGATTTATTTTTACAAGTGTCTG
* *
1602 AATCTTGTTAT-GATTTAATTA-AAATAAATTCAGAACAAAATGGAAAAACGATATTAGAAGCGT
258 AATCTTGTT-TCGATTTAATTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCGT
* * * *
1665 GAAAAACCCTAAAATATTTTTTGCGTTGAATTATATGATTTTTCTGATTATTGTGGCAAAAAATT
322 GAAAAACCCTAAAATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAGAAATT
* * * * *
1730 GGGGAAACACTTTTCGGGTCAGCTTTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
387 GGGGAAAAAATTTACGGGTAAG-TTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
*
1795 GATTTTTTGGCTAAAAATGCGTTTCGAGGCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGA
451 G-GTTTTTGGCTAAAAATGCGTTTCGAGGCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGA
* * *
1860 CTTCTCGACATATCTATATTCATCTAATTAAATCTCTCAGCCACAATGCATTTACATATTTATTT
515 CTTCTCGAAATATCTATATTCATCTAATCAAATCTCTCAGCCACAATGCATTTACAGATTTATTT
* * * * *
1925 TTACAAGTGTATGTATCTTGTTTCTATTTATTTAGAAATAAATTAAGAAAAAAATGGAAAAATGA
580 TTACAAGTGTCTGAATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGA
1990 TATTAAAAGCGTGAAAAACCCTAA
645 TATTAAAAGCGTGAAAAACCCTAA
2014 AATAGTTTTGACATTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
1 AATAGTTTTGACATTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
* *
2079 TTCGGATAAGTTTTTTTGCAAAATTTTAGCCGAAATC--GT--T---CATCACGATTTTTTGGCT
66 TTCGGATCAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACG-GTTTTTGGCT
* * * *
2137 GAAAATGTGTTTCG-GGACCCTGACTCAGTTTTGAATGATTTTTGGCAGAAAGACTTCTCGAAAT
130 AAAAATGCGTTTCGAGG-CCC-GACTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAAT
* * * * * *
2201 ATCTATATTCATCTAACCAAATCTCACCCACATTGGC-TTGACGGATTTGTTTTTACGAGCGTCT
193 ATCTATATTCATCTAATCAAATCTCAGCCACATT-GCATTTACGGATTTATTTTTACAAGTGTCT
* * * * *
2265 GAATCTTGTTAT-AATTTAATTAAAAATAAATTTAGAAAAAAATGGAAAAACGATATTAGAAGCC
257 GAATCTTGTT-TCGATTTAATTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCG
*
2329 TGAAAAACCCTAAAATACTTTTGGCGTTGAATTATATGATTTTTTCTGAGTATTGTGGCAAGAAA
321 TGAAAAACCCTAAAATAGTTTTGGCGTTGAATTATATGA-TTTTTCTGAGTATTGTGGCAAGAAA
* * *
2394 TTGGGGAAAAAATTTACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTATACTAACAATTA
385 TTGGGGAAAAAATTTACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCA
** * * * * *
2459 CAATTTTTGGCTAAAAATGCGTTTCGATGCCCTGGCTGAGTTTTTCATGATTTTTGGTACAATGA
450 CGGTTTTTGGCTAAAAATGCGTTTCGAGGCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGA
* * * **
2524 CTTCTCGAAATATCTATATTCATCTAGTCAAATCCCTCAGACACAATGCATTTATGGATTTATTT
515 CTTCTCGAAATATCTATATTCATCTAATCAAATCTCTCAGCCACAATGCATTTACAGATTTATTT
* * * *
2589 TTACAAGTATCTGAATCTTGTTTCGATTTATTTAGACATAAATTCATAAAAAAAAAAGG-AAAAC
580 TTACAAGTGTCTGAATCTTGTTTCGATTTATTTAGAAATAAATTC--AGAAAAAAATGGAAAAAC
*
2653 GATATTAAAAGCGTGAAAAAACCTAA
643 GATATTAAAAGCGTGAAAAACCCTAA
* * * *
2679 AATAGTTTTGGCGTTTAATTATATGATTTTTTCTGAGTATTGTGGCAAGAAATTGGGGAAAAACT
1 AATAGTTTTGACATTGAATTATATGA-TTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACT
* * *
2744 TTACGGGTCAG-TTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAACCATCACGGTTTTTGGCT
65 TTTCGGATCAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCT
* * * * * *
2808 AAAAATGCGTTTTGAGTCCCTGGCTCGGTTTTGCATGATTTTTGGAAGATTGACTTCTCGAAATA
130 AAAAATGCGTTTCGAGGCCC-GACTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATA
* * * *
2873 TCTACATTCATCTCATCAAATCTCTCAGCCACAATGCATTTACGGATTTATTTTTACAAGTATCT
194 TCTATATTCATCTAATCAAA--TCTCAGCCACATTGCATTTACGGATTTATTTTTACAAGTGTCT
* * *
2938 GTATCGTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGG-AAAACGATATTAAAAGCGT
257 GAATCTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCGT
* *
3002 GAAAAACCCTAAAATAGTTTTGGCGTTCAATTATATGATTTTTTCTGAGTATTATGGCAAGAAAT
322 GAAAAACCCTAAAATAGTTTTGGCGTTGAATTATATGA-TTTTTCTGAGTATTGTGGCAAGAAAT
* * *
3067 TGGGGAAAAACTTTACGGGTCAGTTTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCAC
386 TGGGGAAAAAATTTACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
* *
3132 GGTTTTTGGCTAAAAATGCGTTTCGAGTCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAAAGAC
451 GGTTTTTGGCTAAAAATGCGTTTCGAGGCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGAC
*
3197 TTATCGAAATATCTATATTCAT
516 TTCTCGAAATATCTATATTCAT
3219 TTTGCAAAAT
Statistics
Matches: 2299, Mismatches: 210, Indels: 75
0.89 0.08 0.03
Matches are distributed among these distances:
662 3 0.00
663 31 0.01
664 278 0.12
665 191 0.08
666 99 0.04
667 2 0.00
668 3 0.00
669 140 0.06
670 614 0.27
671 256 0.11
672 486 0.21
673 169 0.07
674 26 0.01
675 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (668 bp):
AATAGTTTTGACATTGAATTATATGATTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTT
TTCGGATCAGTTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTA
AAAATGCGTTTCGAGGCCCGACTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTCGAAATATC
TATATTCATCTAATCAAATCTCAGCCACATTGCATTTACGGATTTATTTTTACAAGTGTCTGAAT
CTTGTTTCGATTTAATTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAAAAGCGTGAAA
AACCCTAAAATAGTTTTGGCGTTGAATTATATGATTTTTCTGAGTATTGTGGCAAGAAATTGGGG
AAAAAATTTACGGGTAAGTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTT
TTGGCTAAAAATGCGTTTCGAGGCCCTGGCTCAGTTTTGCATGATTTTTGGCAGAATGACTTCTC
GAAATATCTATATTCATCTAATCAAATCTCTCAGCCACAATGCATTTACAGATTTATTTTTACAA
GTGTCTGAATCTTGTTTCGATTTATTTAGAAATAAATTCAGAAAAAAATGGAAAAACGATATTAA
AAGCGTGAAAAACCCTAA
Done.