Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011016.1 Corchorus capsularis cultivar CVL-1 contig11037, 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: 52148
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:2407 original size:323 final size:321
Alignment explanation
Indices: 1--4690 Score: 5753
Period size: 320 Copynumber: 14.7 Consensus size: 321
* * * *
1 CTGACCCGAAAATTTTTTTCTCAATTTTTTGCCACAATACACAAAAAAAGATATATAATTCAATG
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAA-ATATATAATTCAACG
* * * *
66 CCAAA-ATGATTGTC-GGACTTTTCACGCTTCTGATATCATTTTTCTATTTTTTTCTGAATTAAT
65 CCAAAGA-GATTGACAGG-CTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTCTGAATTAAT
* * * * *
129 TT-TAATTAAATTGAAACAAGATTGAGATGCTTGAAAAAACAAATCATTATATCCGATATTGCTG
127 TTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTG
* * * *
193 AGATTTGCTTCGATGAATATAGATATTTCAAGGATTCTTTGTGTCAAAAATCATGCAAAATTGAG
192 AGATTTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAG
* * * *
258 TCGGGGCTCCGGAATGCGTTTTTAGCCAAAAAAAAACGTGATGGTTAGTACACGTTTTCGGCTAA
257 TCGGGGCTCTGGAACGCGTTTTTAGCC---AAAAACCGTGATGGTTAGTACACGATTTCGGCTAA
323 AAA
319 AAA
* * * *
326 TTTGACCCGAAAAGTTTTTTCCCAATTTTTTGCCACAACATTCAGAAAAAATATATAATTCAACG
1 -CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
* * **
391 CCAAACAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCTATTTTTTTTTCCAAATTAAT
65 CCAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCA---TTTTTTCTGAATTAAT
* *
456 TTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATTCTTCTATCCAATATGGCTG
127 TTCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTG
* * * * * *
521 AGATTTGCTTCTATGGATATAAATGTTTCAAATCAAAGAG-CTTTGCGCCAACAATCATGGAAAA
192 AGATTTGCTTCGATGGATATAGAT-ATT----TCAAGGAGTCTTTGCGCCAAAAATCATGCAAAA
* * * * *
585 TTGAGTCAGGGCTTTTGAACGCATTTTTAGCCAAAAACTGTGATGGTTAGTACACGAATTT-GGC
252 TTGAGTCGGGGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACG-ATTTCGGC
649 TAAAAA
316 TAAAAA
* *
655 CTGACCCGAAAAGTTTTTGCTCAATTTTTTGCCACAATACT-AAAAAAAATATATAATTCAACGC
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
* * * * * * * *
719 CAAAAAGATTGACGGGTTTTTCACACTTCTAATATCATTTTTCCATTTTCTCCGAATTAAATTCT
66 CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCTGAATTAATTTCT
* * * * * *
784 AATTAGATCGAAACAAGATTCATATACTC-ATAAAAACAAATCCTTATATCCAATGTGGCTGATA
131 AATTAAATCGAAACAAGATTGAGATGCTCGA-AAAAACAAATCCTTATATCCAATATGGCTGAGA
* * * *
848 TTTGGTTCAATGAATATAGATATTTCAAGGAGTCTTTGCGCC-AAAATCATGTAAAATTGAGTCG
195 TTTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCG
* * **
912 GGGCTCTGGAA--C---ATTAGCCAAACACTATGATGGTTAGTACACGATTTCGGCTAAAAA
260 GGGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* * * *
969 CTAACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACACAGAAAAGATATATAATTCAACAC
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
* * * *
1034 CAAA-ATGATT-ATCGGGCTTTTCACACTTCTAATATCGTTTTTCCATTTTTCTCTCAATTAAAT
66 CAAAGA-GATTGA-CAGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTT-TCTGAATTAATT
* * * ** * *
1097 TCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCATTATATCTGATATTGCTAA
128 TCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGA
* * * * **
1162 CATTTGGTTCAAT-GACTATAGATATTTCAAGGTGTCTTTGCGCCAAAAATCATATAAAATTGAG
193 GATTTGCTTCGATGGA-TATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAG
* * *
1226 TCTGGGCTCTGGAACGCGTTTTTACCCAAAAACCGTGATGCTTAGTACACGATTTCGGCTAAAAA
257 TCGGGGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* * * * *
1291 TTGACTCGAAAAGTTTTTTCTCAA-TTTTTGCCACAACACTCAGAAAGACTATATAATTCAACGC
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
*
1355 CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTC
66 CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTCTGAATTAATTTC
* *
1420 TAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAAACAAATCCTTATATCCAATATGGCTAAA
130 TAATTAAATCGAAACAAGATTGAGATGCTCG-AAAAAACAAATCCTTATATCCAATATGGCTGAG
* * * * * *
1485 ATTTGCTTCAATGTATATAGATATTTCAAGGAGTGTTTGTGCCAACAATCATGCAAAATTGAGCC
194 ATTTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTC
* * * *
1550 GAGGCTCTGGAATGCGTTTTTAGCAAAAAACCGTGAT-G---GT------TTTCGGCCAAAAA
259 GGGGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
*
1603 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGT
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
* * * *
1668 CAAAGATATTGACAGGTTTTTCACGCTTTTAATATCGTTTTTCTA-TTTTTCTGAATTAATTTCT
66 CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCTGAATTAATTTCT
* *
1732 AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAAGAAATCCATATATCCAATATGGCTGAGAT
131 AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGAT
1797 TTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGG
196 TTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGG
** * * *
1862 GG-TCCAGAACACGTTTTTAGCCAAAAATCTTGATGGTTAGTACACGATTTCGGCTAAAAA
261 GGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* * * *
1922 CTGACACGAAAAGTTTTTTCTCAAATTTTTGCCACAATACTCAGAAAAAATATATAGTTCAACGT
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
* * * * * *
1987 CAAGGATATTGACAAGTTTTTCACGCTTTTAATATCGTTTTTCCAGTTTTTCTGAATTAATTTCT
66 CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCTGAATTAATTTCT
*
2052 AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGATAT
131 AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGAT
* *
2117 TTGTTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTTGG
196 TTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGG
** * ** *
2182 GGCTCCAGAACGCGTTTTTAGCCAAAAACCGTGATGGTTATAGTGCATAATGTCGGCTAAAAA
261 GGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGG-T-TAGTACACGATTTCGGCTAAAAA
* * * *
2245 CTGACCCGAGAAGTTTTTTCTCAATTTTTTGCCACAACACTCAGTAAAAATATATAATTCAATGC
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
* * * * *
2310 CAAAGAGATGGACGGGCTTTTCACGCTTCTAATATTGTTTTTCTATTTTTTCTGAATTAATTTTT
66 CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCTGAATTAATTTCT
* * *
2375 AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCATTATATCCGATATAGCTGAGAT
131 AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGAT
* * * * * **
2440 TTGCTTCGATGAATATAGATATTTCAAGAAATCTTTGTGCAAAAAATCATGCAAAATTGACCCGG
196 TTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGG
* *** * ** *
2505 TGCTCCAAAACGCGTTTTTAGCTAAAAAAATGTGATGGTTAGTACACGTTTTCGGCTAAAAA
261 GGCTCTGGAACGCGTTTTTAGC-CAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* * * *
2567 TTGACCCGAAAAGTTTTTTCCCAATTTTTTGCCACAACACTAAGAAAAAAATATATAATTCAACG
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAG-AAAAAATATATAATTCAACG
* * * *
2632 CCAAAGAGATTGACAGCCTTTTCACACTTCTAATATCATTTTTCCATTTTTTTCCGAATTAATTT
65 CCAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTCTGAATTAATTT
* * *
2697 CTAATTAAATCGAAACAATATTGAGATGCACGTAAAAACAAATCCTTATATCCAATATGGCTGAG
129 CTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAG
* * * * * *
2762 ATTTGCTTCGATGGATATAGATATTTTAGGGAGTTTTTGCGCCAAAAATAATTCAAAATTGAGCC
194 ATTTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTC
* * *
2827 GGGGCTCTGGAAGGCATTTTTAG-CAAAAAGCCATGATGGTTAGTACACGATTTCGGCTAAAAA
259 GGGGCTCTGGAACGCGTTTTTAGCCAAAAA-CCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* ** * *
2890 CTGACCCGAAAAGATCTTTT-GGAATTTTTTGCCGCAATACTTAG-AAAAATATATAATTCAACG
1 CTGACCCGAAAAG-TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
* * * * * * * * *
2953 CCAAAAATATTGA-TGGGTTTCTCACACTTCTAATATCATTTTTCCATTTTCTCCGAATTAAATT
65 CCAAAGAGATTGACAGGCTTT-TCACGCTTCTAATATCGTTTTTCCATTTTTTCTGAATTAATTT
* ** * *
3017 CTAATTAAATTGAAACAAGATTCCGATACTC-ATAAAAACAAATCCTTATATCCAATGTGGCTGA
129 CTAATTAAATCGAAACAAGATTGAGATGCTCGA-AAAAACAAATCCTTATATCCAATATGGCTGA
* * * * * * **
3081 TATTTGGTTCAATGAATATAGATATTTCAAGAAATCTTTGCGCCAAAAATCATGCAAAATTGACC
193 GATTTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGT
* * * * * *
3146 CGGAGCTCTAGAACGCGTTTTTAGCCAAAAAAAAAAACATGATGGTTAGTACAAGTTTTCGGCTA
258 CGGGGCTCTGGAACGCGTTTTTAGCC-----AAAAACCGTGATGGTTAGTACACGATTTCGGCTA
3211 AAAA
318 AAAA
* * * *
3215 TTGACCGGAAAAGTTTTTTCCCAATTTTTTGCCACAACACTCAGAAAAAATATATAATTCAACGC
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
*
3280 CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCGTTTTTTTTTCTGAATTAATT
66 CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCC---ATTTTTTCTGAATTAATT
* * *
3345 TCTAATTAAATCGAAACAAGATTGACATGCTTGAAAAATACAAATCCTTATATCCAATATGGCTA
128 TCTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAA-ACAAATCCTTATATCCAATATGGCTG
* * * * *
3410 AGATTTGCTTCAATGTATATAGATATTTCAAGGAGTGTTTGTGCCAACAATCATGCAAAATTGAG
192 AGATTTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAG
* * * *
3475 CCGGGGCTCTGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTACACGTTTTCGGCCAAAAA
257 TCGGGGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
3540 CTGACCCGAAAAGTTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
1 CTGACCCGAAAAG-TTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
* * * * *
3605 TCAAAGATATTGACAGGTTTTTCACGCTTTTAATATCGTTTTTCCATTTTTTCTAAATTAATTTC
65 CCAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCTGAATTAATTTC
*
3670 TAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAAGAAATCCTTATATCCAATATGGCTGAGA
130 TAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGA
*
3735 TTTGCTTCGATGGATATAGATATTTCAAAGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCG
195 TTTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCG
** **
3800 GGGCTCCAGAACGCGTTTTTAGCCAAAAACTATGATGGTTAGTACACGATTTCGGCT-AAAA
260 GGGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* * * * *
3861 CTGACACGAAAGGTTTTTTCTCAAATTTTTGCCACAATACTCAGAAAATATATATAATTCAACGT
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
* * * * *
3926 CAAAGATATTGACAAGTTTTTCACGCTTTTAATATCGTTTTTCCAGTTTTTCTGAATTAATTTCT
66 CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCTGAATTAATTTCT
3991 AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGAT
131 AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGAT
* * *
4056 TTGCTTCGATGGATATAGATATTTCAAGGAGTGTTTGCGCCAACAATCATGCAAAATTGAGCCGG
196 TTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGG
4121 GGCTCTGGAACGCGTTTTTAG-------CC---------A--A-ACGATTTCGGCTAAAAA
261 GGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* * * *
4163 CTGACCCGAAAAGATTTTTCTCAATTTTTTGCCACAATACTTAGAAATAATATATAATTAAACGC
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
* * * * * * *
4228 CAAAAATATTGACGGGCTTTTCACACTTCCT-ATATCGTTTTTCCATTTTCTCCGAATTAAATTC
66 CAAAGAGATTGACAGGCTTTTCACGCTT-CTAATATCGTTTTTCCATTTTTTCTGAATTAATTTC
* * * * * *
4292 TAATTAAATCGAAACAAAATTCAGATACTC-ATAAAAACAAATCCTTATATCCAATGTGTCTGAC
130 TAATTAAATCGAAACAAGATTGAGATGCTCGA-AAAAACAAATCCTTATATCCAATATGGCTGAG
* * * * * *
4356 TTTTGGTTCGATGAATATAGATATTTAAAGGAGTCTTTGCACCAAAAATCATGTAAAATAT-AGT
194 ATTTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAAT-TGAGT
* * * * *
4420 CGGGGCTCCGGAA--C---ATTAACCAAACACTGTGATGGTTAGTACACGATTTCGGCTAAAAA
258 CGGGGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* ** * * * * *
4479 CTAACCCGAAATTTTTTTTCTTAATTTTTTGACACAATACACAGAAAAGATATATAAGTCAACGC
1 CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
* * * *
4544 CAAA-ATGATTGTCGGGCTTTTCACGCTTCTGATATCGTTTTTCTATTTTTTTCTGAATTAATTT
66 CAAAGA-GATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTCTGAATTAATTT
* * ** *
4608 TTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCATTATATCTGATATTGCTGAG
129 CTAATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAG
*
4673 ATTTGCTTCGATGAATAT
194 ATTTGCTTCGATGGATAT
4691 GTATCCAAGG
Statistics
Matches: 3795, Mismatches: 474, Indels: 199
0.85 0.11 0.04
Matches are distributed among these distances:
297 3 0.00
300 1 0.00
301 13 0.00
302 234 0.06
303 2 0.00
304 2 0.00
309 25 0.01
310 92 0.02
311 48 0.01
312 34 0.01
313 85 0.02
314 77 0.02
315 68 0.02
316 209 0.06
317 115 0.03
318 3 0.00
319 152 0.04
320 559 0.15
321 216 0.06
322 379 0.10
323 441 0.12
324 256 0.07
325 157 0.04
326 192 0.05
327 83 0.02
328 112 0.03
329 77 0.02
330 108 0.03
332 46 0.01
333 6 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (321 bp):
CTGACCCGAAAAGTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGC
CAAAGAGATTGACAGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCTGAATTAATTTCT
AATTAAATCGAAACAAGATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGAT
TTGCTTCGATGGATATAGATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGTCGG
GGCTCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
Found at i:5826 original size:322 final size:321
Alignment explanation
Indices: 4911--6484 Score: 2061
Period size: 321 Copynumber: 4.9 Consensus size: 321
4901 TAACTTTGGT
* * * * * *
4911 ATATTTCAAGGAATCTTTGCGTCAAAAATCATGCAAAATTGACCCGGCGCTCTAGAACGGGTTTT
1 ATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGCCGGGGCTCTGGAACGCGTTTT
* * * *
4976 TAGCAAAAAAAAAAAGTGATGGTTAGTACACGTTTTTGGCTAAAAATTGACCTGAAAAGTTTTTT
66 TAGC---AAAAAAACGTGATGGTTA-TACACGATTTTGGCTAAAAACTGACCCGAAAAGTTTTTT
* * ** *
5041 CCCAAATTTTTGCCACAACACTCAGAAATTATATATAATTCAATGCCAAAGAGATTGACAGGCTT
127 CTCAATTTTTTGCCACAACACTCAGAAAAAATATATAATTCAATGCCAAAGAGATTGACAGACTT
* *
5106 TTCACGCTTTTAATATCGTTTTTCCATTTTTTTTCCGAATTAATTTCTAATTAAATCGAAACCAG
192 TTCACGCTTCTAATATCGTTTTTCCA-TTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAG
* * *
5171 ATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGATATTTGCTTCTATGGATATA
256 ATTGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGATTTGCTTCGATGAATATA
5236 G
321 G
* *
5237 ATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGCCGGGACTCCGGAACGCGTTTT
1 ATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGCCGGGGCTCTGGAACGCGTTTT
* * ** * * *
5302 TAGCCAAAAACCGTGATGGTTATAGTGCATAATGTCGGCTAAAAACTGACCCGAGAAGTTTTTTC
66 TAGCAAAAAAACGTGATGGTTATA---CACGATTTTGGCTAAAAACTGACCCGAAAAGTTTTTTC
* * * * *
5367 TCAATTTTTTGCCACAATATTCAGAATAAATATATAATTCAATGCCAAAGAGATGGACGGACTTT
128 TCAATTTTTTGCCACAACACTCAGAAAAAATATATAATTCAATGCCAAAGAGATTGACAGACTTT
* * * *
5432 TCACGTTTCTAATATCGTTTTTCTA-TTTTTTCTGAATTAATTTTTAATTAAATCGAAACAAGAT
193 TCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * * *
5496 TCAGATGCTCGAAAAAACAAATCATTATATCCGATATTGCTGAGATTTGCTTCGATGAATATAG
258 TGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGATTTGCTTCGATGAATATAG
* * * **
5560 -TATTTCAAGGAATCTTTGCGCCTAAAATCATGCAAAATTGACCCGGGGCTCCAGAACGCGTTTT
1 ATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGCCGGGGCTCTGGAACGCGTTTT
** * * *
5624 TATTTAAAAAAACGTGATGGTTACTACACGTTTTTGGCTAAAAATTGACCCGAAAAGTTTTGTC-
66 TA-GCAAAAAAACGTGATGGTTA-TACACGATTTTGGCTAAAAACTGACCCGAAAAGTTTTTTCT
* *
5688 CTAATTTTTTGCCATAACACTCAGAAAAAATATATAATTCAATACCAAAGAGATTGACAGACTTT
129 C-AATTTTTTGCCACAACACTCAGAAAAAATATATAATTCAATGCCAAAGAGATTGACAGACTTT
*
5753 TCACACTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
193 TCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
*
5818 TGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGATTTGCTTCGATGGATATAG
258 TGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGATTTGCTTCGATGAATATAG
* * * *
5882 A-ATTTCAAGGAGTCTTTACGCCAACAATCATGCAAAATTGAGTCGGGGCTCTGGAATGCGTTTT
1 ATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGCCGGGGCTCTGGAACGCGTTTT
* * *
5946 TAGC-CAAAAACAGTGATGGTTAGTACACGATTTTGGCTAAAAACTGACCTGAAAGGTTTTTTCT
66 TAGCAAAAAAAC-GTGATGGTTA-TACACGATTTTGGCTAAAAACTGACCCGAAAAGTTTTTTCT
* * * * *
6010 CAATTTTTTGCAAAAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGAC-GAGCTTT
129 CAATTTTTTGCCACAACACTCAGAAAAAATATATAATTCAATGCCAAAGAGATTGACAGA-CTTT
*
6074 TCACGCTTCTAATATCG-TTTTCC-TTTTTTTCCGAATTAATTTCTAATTAAATCAAAACAAGAT
193 TCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGAT
* * *
6137 TCAGATGCTCGTAAAAACAAATCCTTATATCCAATATGGCTGAGATTTGGTTCGATGAATATAG
258 TGAGATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGATTTGCTTCGATGAATATAG
** * * * *
6201 ATATTTCAAGGAGTCTTTGCGTTAAAAATCATTCAAAATTGAGCCAGGACTCTGGAATGCGTTTT
1 ATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGCCGGGGCTCTGGAACGCGTTTT
* * ** * * *
6266 TAGCCAAAAACCGTGATGGTTATAGTGCATAATGTCGGTTAAAAAACTGACCCGAAAAGTTTTTT
66 TAGCAAAAAAACGTGATGGTTATA---CACGATTTTGGCT-AAAAACTGACCCGAAAAGTTTTTT
* ** *
6331 CTCAATTTTTTGCCACAACACTCAGAAAAAATATATAATTCAATACCAAAGAG-TTGGATGGGCT
127 CTCAATTTTTTGCCACAACACTCAGAAAAAATATATAATTCAATGCCAAAGAGATT-GACAGACT
* * * *
6395 TTTCACGTTTCTAATATCATTTTTTCA-TTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAG
191 TTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAG
*
6459 ATTGAGATGCTTGAAAAAACAAATCC
256 ATTGAGATGCTCGAAAAAACAAATCC
6485 CTTTATTCTT
Statistics
Matches: 1088, Mismatches: 139, Indels: 44
0.86 0.11 0.03
Matches are distributed among these distances:
319 102 0.09
320 84 0.08
321 228 0.21
322 226 0.21
323 214 0.20
324 66 0.06
325 107 0.10
326 61 0.06
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (321 bp):
ATATTTCAAGGAGTCTTTGCGCCAAAAATCATGCAAAATTGAGCCGGGGCTCTGGAACGCGTTTT
TAGCAAAAAAACGTGATGGTTATACACGATTTTGGCTAAAAACTGACCCGAAAAGTTTTTTCTCA
ATTTTTTGCCACAACACTCAGAAAAAATATATAATTCAATGCCAAAGAGATTGACAGACTTTTCA
CGCTTCTAATATCGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTGA
GATGCTCGAAAAAACAAATCCTTATATCCAATATGGCTGAGATTTGCTTCGATGAATATAG
Found at i:15316 original size:326 final size:324
Alignment explanation
Indices: 14389--15589 Score: 1261
Period size: 326 Copynumber: 3.6 Consensus size: 324
14379 ATAATTTTTT
* * *
14389 AATTAGAAATTAATTCGGAAAAAGGTAAGAAAAGCGATATTAGAAGCGTGAGAAGTCCTTTAGTC
1 AATTAGAAATTAATTCGG-AAAA---AAGAAAA-CAATATTAGAAGCGTGAGAAGTCCTTCAAT-
* ** * * * * *
14454 TTTTTTGGCATTGAGTTATATATTTTTTATTAGTATTGTGGCCCAAAATTTAGGAGAAATTTCTC
60 ATTTTTGGTGTTGAGTTATATATTTTTTATGAGTA-CGTGGCCAAAAATTGA-GAGAAATTT-TT
*
14519 GGGTCAATTTTTGTAAAATTTTAGCTGAAATCGTGTACTAACCATCACGATTTTTGACTAAAAAA
122 GGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACGATTTTTGACTAAAAAA
* * * *
14584 GCGTTTCGGAACCCCGGTTCTGTTTTGCATGATTTTTTTGCGCCAAGTCTCATTAAAATATCTAA
187 GCGTTTCGGAGCCCCGGTTCTGTTTTGCA-CAATTTTTTGCGCCAAGTCTCATTGAAATATCTAA
* *
14649 ATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTTACGAGCATATGAATAAT
251 ATCCATCTAACCAAATCTTACCCACATTAGATTTAAGGATTTGTTTTTACGAGCATATGAAT-CT
14714 GTTTCGATTC
315 GTTTCGATTC
* *
14724 AATTAGAAATTAATTCGGAAAAAATAGGCAAAACGATATTAGAAGTGTGA-ATA-TCCTTTCAAT
1 AATTAGAAATTAATTCGG-AAAAA-A-G-AAAACAATATTAGAAGCGTGAGA-AGTCC-TTCAAT
* *
14787 ATTTTTGGTGTTGAATTATATA-TTTTTATGAGTATCGTAGCCAAAAATTGAGAGAAATTCTTTC
60 ATTTTTGGTGTTGAGTTATATATTTTTTATGAGTA-CGTGGCCAAAAATTGAGAGAAATT-TTT-
* * * * *
14851 GGGTCAATTTTTTCAAAATTTTAGCTGCAATCGTGTACAAACTATCACGGTTTTTGACTAAAAAA
122 GGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACGATTTTTGACTAAAAAA
* ** ** ** * * *
14916 GCGTTTTGTG-GCCCCGACTCAATTTTGCATGATTTTTGGCGCCAAGACTCATTGAAATATCTAT
187 GCGTTTCG-GAGCCCCGGTTCTGTTTTGCACAATTTTTTGCGCCAAGTCTCATTGAAATATCTAA
** * * * * * *
14980 ATTTATCTAACGAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGTATCTCAATCTG
251 ATCCATCTAACCAAATCTTACCCACATTAGATTTAAGGATTTGTTTTTACGAGCATATGAATCT-
*
15045 GTTTCGATTT
315 GTTTCGATTC
*
15055 AATTAGAAATTAATTCGG-AAAAA-AAAACAATATTAGAAGCGTGAGAAGACCTTCAATATTTTT
1 AATTAGAAATTAATTCGGAAAAAAGAAAACAATATTAGAAGCGTGAGAAGTCCTTCAATATTTTT
* * *
15118 GGTGTTGAGTTATATATTTTTTATGAATACGGTGGCCGAAAATTGAGCAGAAATGTTTTGTGTCA
66 GGTGTTGAGTTATATATTTTTTATGAGTAC-GTGGCCAAAAATTGAG-AGAAAT-TTTTGGGTCA
* * * * * *
15183 ATTTTTGCAAAATTTTAGCCGAAATCGTATACTAACCATCACGATTTTTAACTAAAAACGCGCTC
128 ATTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACGATTTTTGACTAAAAAAGCGTTT
15248 CGGAGCCCCGGTTCTGTTTTGCACAATTTTTTGCGCCAAGTCTCATTGAAATATCTAAATCCATC
193 CGGAGCCCCGGTTCTGTTTTGCACAATTTTTTGCGCCAAGTCTCATTGAAATATCTAAATCCATC
*
15313 TAACCAAATCTTACCCACATTATATTTAAGGATTTGTTTTTACGAGCATATGAATCATGTTTCGA
258 TAACCAAATCTTACCCACATTAGATTTAAGGATTTGTTTTTACGAGCATATGAATC-TGTTTCGA
15378 TTC
322 TTC
* * * * *
15381 AATTAGGAATGAATTCGGAAAAAAAAAAAATAAAGGCAAAAACGATATTAGAAGTGT-A-AATAT
1 AATTAGAAATTAATTCGG---------AAA-AAA-G--AAAACAATATTAGAAGCGTGAGAA-GT
* *
15444 CCTTTCAATTTTTTTTGGTGTTGAATTATATA-TTTTTATGAGTATCGTGGCCAAAAATTGAG-G
52 CC-TTCAA-TATTTTTGGTGTTGAGTTATATATTTTTTATGAGTA-CGTGGCCAAAAATTGAGAG
* * ** * *
15507 AATATTCTTTTGAGTCAATTTTTTCAAAATTTTAGCTGAAAGAGTGTACTAACTATCACGGTTTT
114 AA-A-T-TTTTGGGTCAATTTTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACGATTTT
* * *
15572 TGGCCAAAAACGCGTTTC
176 TGACTAAAAAAGCGTTTC
15590 ATGGCCCCGG
Statistics
Matches: 722, Mismatches: 106, Indels: 70
0.80 0.12 0.08
Matches are distributed among these distances:
325 49 0.07
326 212 0.29
327 10 0.01
328 2 0.00
329 4 0.01
330 1 0.00
331 117 0.16
332 106 0.15
333 24 0.03
334 22 0.03
335 27 0.04
336 2 0.00
337 3 0.00
339 5 0.01
340 4 0.01
341 112 0.16
342 22 0.03
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (324 bp):
AATTAGAAATTAATTCGGAAAAAAGAAAACAATATTAGAAGCGTGAGAAGTCCTTCAATATTTTT
GGTGTTGAGTTATATATTTTTTATGAGTACGTGGCCAAAAATTGAGAGAAATTTTTGGGTCAATT
TTTGCAAAATTTTAGCTGAAATCGTGTACTAACCATCACGATTTTTGACTAAAAAAGCGTTTCGG
AGCCCCGGTTCTGTTTTGCACAATTTTTTGCGCCAAGTCTCATTGAAATATCTAAATCCATCTAA
CCAAATCTTACCCACATTAGATTTAAGGATTTGTTTTTACGAGCATATGAATCTGTTTCGATTC
Found at i:16269 original size:332 final size:331
Alignment explanation
Indices: 15644--17774 Score: 1999
Period size: 332 Copynumber: 6.4 Consensus size: 331
15634 TGAAATATCT
* ** * * * **
15644 ATATTAGAAGC-GTGAGA-AGCCCTTCAATCTTTTTGACGTTGAGTTATATGTTTATTATGAAAA
1 ATATTAGAA-CTGTGA-ATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTA
* ** * * * * * *
15707 TTGTGGCCGGAAATTGAGGAGAAATGTTTCGAGTCCATTTTTGCAAAATTTTAGCCGAAATCATG
64 TCGTGGCCAAAAATTGAGGA-AAATCTTTCGGGTCAATTTTTTCAAAATTTTAGCTGAAATCGTG
** * * * ** * * ** *
15772 TACTAACCATCACCAG-TTTTGACTAAAAACGCAATTCGGGGTCCCGATTCTGTTTTGCATGATT
128 TACTAAATATCA-CGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGCATGATT
* * * * *
15836 TTTGGTGCCAAGTCTCATTAAAATATCTATATCTATCTAACCAAA-CATCACCCACATTGGATTT
192 TTTGGCGCCAAGACTCATTGAAATATCTATATCTATCTAACGAAATC-TCACCCACATTAGATTT
* * * * *
15900 AAGGATTTGTTTTTACAAGCATCTAAATCATGTTTCGATTCAATTAGGAATTAATACGGGAAAAA
256 AAGGATTTGTTTTTACGAGCATCTCAATCATGTTTCGATTCAATTAGAAATTAATTCGAGAAAAA
*
15965 CAGGAAAAACG
321 TAGGAAAAACG
*
15976 ATATTAGAACTGTGAATAGCCTTTCAATCTTTTTGGTGTGGAATTATATA-TTTTTATGAGTATC
1 ATATTAGAACTGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATC
* *
16040 GTGGCCAAAAATTGAGGAAATTTCTTTTGGGTCAATTTTTTCAAAATTTTAGCTGAAAATCGTGT
66 GTGGCCAAAAATTGAGGAAA-ATCTTTCGGGTCAATTTTTTCAAAATTTTAGCTG-AAATCGTGT
*
16105 AGTAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGCATGATTTT
129 ACTAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGCATGATTTT
* * * * * * *
16170 TTGTGTCAAGACTCATTGAAATATCTATATTTATATAACGAAATCTCAGCCACATTAGATATAAG
194 TGGCGCCAAGACTCATTGAAATATCTATATCTATCTAACGAAATCTCACCCACATTAGATTTAAG
16235 GATTTGTTTTTACG-GACATCTCAATC-TGGTTTCGA-TCTAATTAGAAATTAATTC-AGAAAAA
259 GATTTGTTTTTACGAG-CATCTCAATCAT-GTTTCGATTC-AATTAGAAATTAATTCGAGAAAAA
**
16296 TA-GAAAAAAA
321 TAGGAAAAACG
* * * *
16306 ATATTAGAAGC-GTGAGA-AGCCCTTCAATTTTTTTGGCGTTGAGTTATATATTTTTTATGTA-T
1 ATATTAGAA-CTGTGA-ATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATG-AGT
* * *** * * * *
16368 ATGGTGTCTGGAAATTGAGGAGAAATGTTTCGTGTCAATTTTTACAAAATTTTAGCCGAAATCGT
63 ATCGTGGCCAAAAATTGAGGA-AAATCTTTCGGGTCAATTTTTTCAAAATTTTAGCTGAAATCGT
* ** * * ** * * * * * *
16433 ATACT-AATCATCACAATTTTTGACTAAAAACGCAATTCGGGGTCCCGACTCTGTTTGGCATGAG
127 GTACTAAAT-ATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGCATGAT
* * * *
16497 TTTTGGCGCCAAGTCTCATTAAAACATCTATATCCATCTAATC-AAATCTCACCCACATT-GAAT
191 TTTTGGCGCCAAGACTCATTGAAATATCTATATCTATCTAA-CGAAATCTCACCCACATTAG-AT
* * *
16560 TTAAAGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTCAATTATG-AATTCATTCG-GAA
254 TTAAGGATTTGTTTTTACGAGCATCTCAATCATGTTTCGATTCAATTA-GAAATTAATTCGAG-A
*
16623 AAAATAGAAAAAACG
317 AAAATAGGAAAAACG
* *
16638 ATATTAGAAGTGTGAATAGCCTTTCAATTTTTTTGGTGTTGAATTATATATTTTTTATGAGTATC
1 ATATTAGAACTGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATC
* * * * *
16703 GTCGCCAAAAATTGCGGAAAATTCTTTCAGGTCAATTTTTTTAAAATTTTAGCTGAAATCGTGCA
66 GTGGCCAAAAATTGAGGAAAA-TCTTTCGGGTCAATTTTTTCAAAATTTTAGCTGAAATCGTGTA
* *
16768 CGT--TTATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGATTTGCATGATTTT
130 C-TAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGCATGATTTT
* * * *
16831 TGGCGCCAAGACTCATTGAAATATCTCTATTTATCTAACGAAATCTCAGCCACATTAGATATAAG
194 TGGCGCCAAGACTCATTGAAATATCTATATCTATCTAACGAAATCTCACCCACATTAGATTTAAG
* ** * *
16896 GATTTGTTTTTACGGGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATT-TAGAAAAATAG
259 GATTTGTTTTTACGAGCATCTCAATCATGTTTCGATTCAATTAGAAATTAATTCGAGAAAAATAG
*
16960 GAAAAAAAAAACA
324 G-----AAAAACG
* * * *
16973 ATATTAGAAGC-GTGAGA-AGCCCTTCAATCTTTTTGGTGTTGAGTTGTATATTTTTTATGAATA
1 ATATTAGAA-CTGTGA-ATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTA
* ** * * * * *
17036 TGGTGGCCGGAAATTGAGGAGAAATGTTTCGTGTCCATTTTTGCAAAATTTTAGCCGAAATCGTG
64 TCGTGGCCAAAAATTGAGGA-AAATCTTTCGGGTCAATTTTTTCAAAATTTTAGCTGAAATCGTG
** * * ** * * * *
17101 TACTAACCATCACAG-TTTTGGACTAAAAACGCAATTCGGGGTCCCGACTCTGTTTTGCATGATT
128 TACTAAATATCACGGTTTTTGG-CCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGCATGATT
* * * *
17165 TTTGGCGCCAA-ATCTCATTGAAATATATCTATCCATCTAACCAAATCTCACCCACATT-GAATT
192 TTTGGCGCCAAGA-CTCATTGAAATATCTATATCTATCTAACGAAATCTCACCCACATTAG-ATT
* *
17228 TAAGGATTTGTTTTTTACGAGCATCTGAATCATGTTTCGATTCAATTA-AGAATTAATTCGAAAA
255 TAAGGATTTG-TTTTTACGAGCATCTCAATCATGTTTCGATTCAATTAGA-AATTAATTCG-AGA
17292 AAAATAGGAAAAACG
317 AAAATAGGAAAAACG
* *
17307 ATATTAGAAGTGTGAATAGGCTTTCAATCTTTTTGGTGTTGAATTATATA-TTTTTATGAGTATC
1 ATATTAGAACTGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATC
* * * *
17371 ATGACC-AAAATTGAGGAAAAAGCTTTGGGGTCTAATTTTTTTTTCAAAATTTTAGCTGAAATCG
66 GTGGCCAAAAATTGAGG-AAAATCTTTCGGGTC-AA---TTTTTTCAAAATTTTAGCTGAAATCG
** * * * * *
17435 TGTACTAACGATCACGATTTTTGGTCAAAAACGCGTTTTGTGGCCTCAGCTCAGTTTTGCATGAT
126 TGTACTAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGCATGAT
** * * * *
17500 TTTTGGCTTCAAGACTCATTGATATATCTATATTTATTTAACGAAATCTCAACCACATTAGATTT
191 TTTTGGCGCCAAGACTCATTGAAATATCTATATCTATCTAACGAAATCTCACCCACATTAGATTT
** * *
17565 AAGGATTTGTTTTTACG-GACATCTCAATCCGGATTCGATTTAATTAGAAATTAATTC-AGAAAA
256 AAGGATTTGTTTTTACGAG-CATCTCAATCATGTTTCGATTCAATTAGAAATTAATTCGAG-AAA
* *
17628 AATAGAAAAAAAAAACA
319 AATAG----GAAAAACG
* * * * * *
17645 ATATTAGAAGC-GT-AAGAAGCCCTTCAAT-TTTGTTGGCGTTCAATTATATATTTATTATGAAT
1 ATATTAGAA-CTGTGAA-TAGCCTTTCAATCTTT-TTGGTGTTGAATTATATATTTTTTATGAGT
* ** * * * * * * *
17707 ATGGTGGCCGGAAGTTGAGGAGAAATGTTTCGTGTCAATTTTTGCCAAATTTTAGCCGAAATCAT
63 ATCGTGGCCAAAAATTGAGGA-AAATCTTTCGGGTCAATTTTTTCAAAATTTTAGCTGAAATCGT
17772 GTA
127 GTA
17775 GCTCCAAAAT
Statistics
Matches: 1463, Mismatches: 263, Indels: 142
0.78 0.14 0.08
Matches are distributed among these distances:
329 4 0.00
330 208 0.14
331 284 0.19
332 325 0.22
333 22 0.02
334 58 0.04
335 158 0.11
336 263 0.18
337 53 0.04
338 42 0.03
339 28 0.02
340 18 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (331 bp):
ATATTAGAACTGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATC
GTGGCCAAAAATTGAGGAAAATCTTTCGGGTCAATTTTTTCAAAATTTTAGCTGAAATCGTGTAC
TAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGCATGATTTTTG
GCGCCAAGACTCATTGAAATATCTATATCTATCTAACGAAATCTCACCCACATTAGATTTAAGGA
TTTGTTTTTACGAGCATCTCAATCATGTTTCGATTCAATTAGAAATTAATTCGAGAAAAATAGGA
AAAACG
Found at i:17705 original size:672 final size:665
Alignment explanation
Indices: 15644--17774 Score: 3226
Period size: 662 Copynumber: 3.2 Consensus size: 665
15634 TGAAATATCT
* * * *
15644 ATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGACGTTGAGTTATATGTTTATTATGAAAATT
1 ATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTATATATTTATTATGAATATG
* *
15709 GTGGCCGGAAATTGAGGAGAAATGTTTCGAGTCCATTTTTGCAAAATTTTAGCCGAAATCATGTA
66 GTGGCCGGAAATTGAGGAGAAATGTTTCGTGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTA
*
15774 CTAACCATCACCAGTTTTGACTAAAAACGCAATTCGGGGTCCCGATTCTGTTTTGCATGATTTTT
131 CTAACCATCA-CAGTTTTGACTAAAAACGCAATTCGGGGTCCCGACTCTGTTTTGCATGATTTTT
* * *
15839 GGTGCCAAGTCTCATTAAAATATCTATATCTATCTAACCAAA-CATCACCCACATTGGATTTAAG
195 GGCGCCAAGTCTCATTAAAATATCTATATCCATCTAACCAAATC-TCACCCACATTGAATTTAAG
* * * * * *
15903 GATTTGTTTTTACAAGCATCTAAATCATGTTTCGATTCAATTAGGAATTAATACGGGAAAAACAG
259 GATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTCAATTAAGAATTAATTCGGAAAAAATAG
* *
15968 GAAAAACGATATTAGAACTGTGAATAGCCTTTCAATCTTTTTGGTGTGGAATTATATATTTTTAT
324 GAAAAACGATATTAGAAGTGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTAT
* *
16033 GAGTATCGTGGCCAAAAATTGAGGAAATTTCTTTTGGGTCAA-TTTTTTCAAAATTTTAGCTGAA
389 GAGTATCGT-GCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTTTCAAAATTTTAGCTG-A
*
16097 AATCGTGTAGTAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGC
452 AATCGTGTACTAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGC
*
16162 ATGATTTTTTG-TGTCAAGACTCATTGAAATATCTATATTTATATAACGAAATCTCAGCCACATT
517 ATGATTTTTGGCT-TCAAGACTCATTGAAATATCTATATTTATATAACGAAATCTCAGCCACATT
* *
16226 AGATATAAGGATTTGTTTTTACGGACATCTCAATCTGGTTTCGATCTAATTAGAAATTAATTCAG
581 AGATATAAGGATTTGTTTTTACGGACATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCAG
16291 AAAAATAG----AAAAAA-A
646 AAAAATAGAAAAAAAAAACA
* * *
16306 ATATTAGAAGCGTGAGAAGCCCTTCAATTTTTTTGGCGTTGAGTTATATATTTTTTATGTATATG
1 ATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTATATATTTATTATGAATATG
* * * * *
16371 GTGTCTGGAAATTGAGGAGAAATGTTTCGTGTCAATTTTTACAAAATTTTAGCCGAAATCGTATA
66 GTGGCCGGAAATTGAGGAGAAATGTTTCGTGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTA
* * * *
16436 CTAATCATCACAATTTTTGACTAAAAACGCAATTCGGGGTCCCGACTCTGTTTGGCATGAGTTTT
131 CTAACCATCAC-AGTTTTGACTAAAAACGCAATTCGGGGTCCCGACTCTGTTTTGCATGATTTTT
* * *
16501 GGCGCCAAGTCTCATTAAAACATCTATATCCATCTAATCAAATCTCACCCACATTGAATTTAAAG
195 GGCGCCAAGTCTCATTAAAATATCTATATCCATCTAACCAAATCTCACCCACATTGAATTTAAGG
* * *
16566 ATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTCAATTATGAATTCATTCGGAAAAAATAGA
260 ATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTCAATTAAGAATTAATTCGGAAAAAATAGG
*
16631 AAAAACGATATTAGAAGTGTGAATAGCCTTTCAATTTTTTTGGTGTTGAATTATATATTTTTTAT
325 AAAAACGATATTAGAAGTGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATA-TTTTTAT
* *
16696 GAGTATCGTCGCCAAAAATTGCGGAAAATTCTTTCAGGTCAATTTTTTT-AAAATTTTAGCTGAA
389 GAGTATCGT-GCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTTTCAAAATTTTAGCTGAA
* * *
16760 ATCGTGCACGT--TTATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGATTTGC
453 ATCGTGTAC-TAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGC
** * *
16823 ATGATTTTTGGCGCCAAGACTCATTGAAATATCTCTATTTATCTAACGAAATCTCAGCCACATTA
517 ATGATTTTTGGCTTCAAGACTCATTGAAATATCTATATTTATATAACGAAATCTCAGCCACATTA
* *
16888 GATATAAGGATTTGTTTTTACGGGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTTAGA
582 GATATAAGGATTTGTTTTTACGGACATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCAGA
16953 AAAATAGGAAAAAAAAAACA
647 AAAATA-GAAAAAAAAAACA
* * *
16973 ATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGTGTTGAGTTGTATATTTTTTATGAATATG
1 ATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTATATATTTATTATGAATATG
* *
17038 GTGGCCGGAAATTGAGGAGAAATGTTTCGTGTCCATTTTTGCAAAATTTTAGCCGAAATCGTGTA
66 GTGGCCGGAAATTGAGGAGAAATGTTTCGTGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTA
17103 CTAACCATCACAGTTTTGGACTAAAAACGCAATTCGGGGTCCCGACTCTGTTTTGCATGATTTTT
131 CTAACCATCACAGTTTT-GACTAAAAACGCAATTCGGGGTCCCGACTCTGTTTTGCATGATTTTT
* * * *
17168 GGCGCCAAATCTCATTGAAATATATCTATCCATCTAACCAAATCTCACCCACATTGAATTTAAGG
195 GGCGCCAAGTCTCATTAAAATATCTATATCCATCTAACCAAATCTCACCCACATTGAATTTAAGG
*
17233 ATTTGTTTTTTACGAGCATCTGAATCATGTTTCGATTCAATTAAGAATTAATTCGAAAAAAAATA
260 ATTTG-TTTTTACGAGCATCTGAATCATGTTTCGATTCAATTAAGAATTAATTCG-GAAAAAATA
*
17298 GGAAAAACGATATTAGAAGTGTGAATAGGCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTA
323 GGAAAAACGATATTAGAAGTGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTA
* ** *
17363 TGAGTATCATGACC-AAAATTGAGGAAAAAGCTTTGGGGTCTAATTTTTTTTTCAAAATTTTAGC
388 TGAGTATCGTG-CCAAAAATTGAGGAAAATTCTTTCGGGTC-AA--TTTTTTTCAAAATTTTAGC
** * * * * *
17427 TGAAATCGTGTACTAACGATCACGATTTTTGGTCAAAAACGCGTTTTGTGGCCTCAGCTCAGTTT
449 TGAAATCGTGTACTAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTT
* * *
17492 TGCATGATTTTTGGCTTCAAGACTCATTGATATATCTATATTTATTTAACGAAATCTCAACCACA
514 TGCATGATTTTTGGCTTCAAGACTCATTGAAATATCTATATTTATATAACGAAATCTCAGCCACA
* *
17557 TTAGATTTAAGGATTTGTTTTTACGGACATCTCAATCCGGATTCGATTTAATTAGAAATTAATTC
579 TTAGATATAAGGATTTGTTTTTACGGACATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTC
17622 AGAAAAAATAGAAAAAAAAAACA
644 AG-AAAAATAGAAAAAAAAAACA
* * *
17645 ATATTAGAAGCGTAAGAAGCCCTTCAAT-TTTGTTGGCGTTCAATTATATATTTATTATGAATAT
1 ATATTAGAAGCGTGAGAAGCCCTTCAATCTTT-TTGGCGTTGAGTTATATATTTATTATGAATAT
* *
17709 GGTGGCCGGAAGTTGAGGAGAAATGTTTCGTGTCAATTTTTGCCAAATTTTAGCCGAAATCATGT
65 GGTGGCCGGAAATTGAGGAGAAATGTTTCGTGTCAATTTTTGCAAAATTTTAGCCGAAATCATGT
17774 A
130 A
17775 GCTCCAAAAT
Statistics
Matches: 1330, Mismatches: 115, Indels: 38
0.90 0.08 0.03
Matches are distributed among these distances:
661 177 0.13
662 352 0.26
663 59 0.04
664 6 0.00
666 11 0.01
667 262 0.20
668 66 0.05
669 64 0.05
670 8 0.01
671 26 0.02
672 292 0.22
673 7 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (665 bp):
ATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTATATATTTATTATGAATATG
GTGGCCGGAAATTGAGGAGAAATGTTTCGTGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTA
CTAACCATCACAGTTTTGACTAAAAACGCAATTCGGGGTCCCGACTCTGTTTTGCATGATTTTTG
GCGCCAAGTCTCATTAAAATATCTATATCCATCTAACCAAATCTCACCCACATTGAATTTAAGGA
TTTGTTTTTACGAGCATCTGAATCATGTTTCGATTCAATTAAGAATTAATTCGGAAAAAATAGGA
AAAACGATATTAGAAGTGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTATGA
GTATCGTGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTTTCAAAATTTTAGCTGAAATC
GTGTACTAAATATCACGGTTTTTGGCCAAAAACGCGTTTCGTGGCCCCGGCTCAGTTTTGCATGA
TTTTTGGCTTCAAGACTCATTGAAATATCTATATTTATATAACGAAATCTCAGCCACATTAGATA
TAAGGATTTGTTTTTACGGACATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCAGAAAAA
TAGAAAAAAAAAACA
Found at i:19111 original size:279 final size:279
Alignment explanation
Indices: 18563--19094 Score: 687
Period size: 279 Copynumber: 1.9 Consensus size: 279
18553 ATCCATATTT
* * * * *
18563 ATCTAACGAAATCTCAGCCACATTAGATATAATGATTTGTTTTTACGGGCATCTCAATCCAGTTT
1 ATCTAACCAAATCTCAACCACATTAGATATAAGGATTTGTTTTTACGAGCATCTAAATCCAGTTT
*
18628 CGATTTAATTAGAAATTAATTCAGAAAAATAGAAAACAAAAAAAACAATATTAGAAGCGTGAGAA
66 CGATTAAATTAGAAATTAATTCAGAAAAATAG------AAAAAAACAATATTAGAAGCGTGAGAA
* * *
18693 GCCCTTCAATCTTTTTGGCGTTGAGTTATATATTTTTTATGAATATGGTGGCCAAAAATTGAGGA
125 GCCCTTCAATCTTTTTGGAGTTGAATTATATATTTTTTATGAATATCGTGGCCAAAAATTGAGGA
* * * * *
18758 GAAATGTTTCGTGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAGCCATCACCATTTTT
190 GAAATATTTCGGGTCAATTTTTGCAAAATTGTAGCCGAAATCATGTACCAACCATCACCATTTTT
18823 GACTAAAAACACAATATCTATATCC
255 GACTAAAAACACAATATCTATATCC
* *
18848 ATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT-CATGTT
1 ATCTAACCAAATCTCAACCACATTAGATATAAGGATTTGTTTTTACGAGCATCTAAATCCA-GTT
* * * * *
18912 TCGATTAAATTAGGAATTAATTCGGAAAATATAG-GAAAAACGATATTAGAA-CTGTGA-ATATC
65 TCGATTAAATTAGAAATTAATTCAGAAAA-ATAGAAAAAAACAATATTAGAAGC-GTGAGA-AGC
* *
18974 CTTTCAATCTTTTTGGAGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGA-A
127 CCTTCAATCTTTTTGGAGTTGAATTATATATTTTTTATGAATATCGTGGCCAAAAATTGAGGAGA
* * * *
19038 AATTATTTCGGGTCAATTTTTTCAAAATTGTAGCTGAAATCGTGTACCAACTATCAC
192 AA-TATTTCGGGTCAATTTTTGCAAAATTGTAGCCGAAATCATGTACCAACCATCAC
19095 GGTTTTTGGT
Statistics
Matches: 215, Mismatches: 27, Indels: 16
0.83 0.10 0.06
Matches are distributed among these distances:
278 5 0.02
279 124 0.58
284 2 0.01
285 80 0.37
286 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (279 bp):
ATCTAACCAAATCTCAACCACATTAGATATAAGGATTTGTTTTTACGAGCATCTAAATCCAGTTT
CGATTAAATTAGAAATTAATTCAGAAAAATAGAAAAAAACAATATTAGAAGCGTGAGAAGCCCTT
CAATCTTTTTGGAGTTGAATTATATATTTTTTATGAATATCGTGGCCAAAAATTGAGGAGAAATA
TTTCGGGTCAATTTTTGCAAAATTGTAGCCGAAATCATGTACCAACCATCACCATTTTTGACTAA
AAACACAATATCTATATCC
Found at i:19443 original size:332 final size:330
Alignment explanation
Indices: 18835--19704 Score: 1099
Period size: 332 Copynumber: 2.6 Consensus size: 330
18825 CTAAAAACAC
18835 AATATCTATATCCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCAT
1 AATATCTATATCCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCAT
* *
18900 CTAAATCATGTTTCGATTAAATTAGGAATTAATTCGGAAAATATAGGAAAAACGATATTAGAA-C
66 CTAAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAA-ATAGGAAAAACGATATTAGAAGC
* *
18964 TGTGAATATCCTTTCAATCTTTTTGG-AGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAA
130 -GTGAA-AGCCTTTCAATCTTTTTGGCA-TTGAATTATATATTTTTTATGAATATCGTGGCCAAA
* * *
19028 AATTGAGGAAAATTATTTCGGGTCAATTTTTTCAAAATTGTAGCTGAAATCGTGTACCAACTATC
192 AATTGAGGAAAATTATTTCGGGTCAATTTTTGCAAAATTGTAGCCGAAACCGTGTACCAACTATC
* ** * * * * *
19093 ACGGTTTTTGGTTAAAAACGCGTTTCGTGGCCCCTACTCTATTTTGCATGATTTTTTGCGCCAAA
257 ACAGTTTTTGACTAAAAACGCGATTCGGGGCCCCGACTCTATTTTGCATGATTTTTGGCACCAAA
19158 ACTCATTGA
322 ACTCATTGA
** ** * *
19167 AATATCTATATTTATCTAATGAAATCTCAACCACATTAGATTTAAGGATTAT-TTTTTACGGGCA
1 AATATCTATATCCATCTAACCAAATCTCAACCACATTGGATTTAAGGATT-TGTTTTTACGAGCA
* * **
19231 TCTCAATC-TGGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAGAAAAAAAAATTATTAGAA
65 TCTAAATCAT-GTTTCGATTTAATTAGAAATTAATTCGGAAAAATAGGAAAAACGA-TATTAGAA
* * * * * **
19295 GCGTGAGAAGCCCTTCAATCATTTTGGCATTGATTTATATATTTTTTATGAATATGGTTGCCGGA
128 GCGTGA-AAGCCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAATATCGTGGCCAAA
* * * * * * *
19360 AATTGAGGAGAAA-TGTTTCGTGTCAATTTTTGGAAATTTTTTGCCGAAACCGTGTACTAA-TCA
192 AATTGAGGA-AAATTATTTCGGGTCAATTTTTGCAAAATTGTAGCCGAAACCGTGTACCAACT-A
* * *
19423 TCACAGTTTTTGACTAAAAACGCGATTCGGGGTCCCGGCTCTGTTTTGCATGATTTTTGGCACCA
255 TCACAGTTTTTGACTAAAAACGCGATTCGGGGCCCCGACTCTATTTTGCATGATTTTTGGCACCA
**
19488 AGTCTCATTGA
320 AAACTCATTGA
*
19499 AATATTTATATCCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCAT
1 AATATCTATATCCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCAT
*
19564 CTAAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATAGGAAAACCGATATTAGAAGC
66 CTAAATCATGTTTCGATTTAATTAGAAATTAATTCGG-AAAAATAGGAAAAACGATATTAGAAGC
* * * * * *
19629 GTGAAAAGTCTTTCAAT-TTTTTGGCGTTGAATTACATATTTTTTATGAGTATCATGGCAAAAAA
130 GTG-AAAGCCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAATATCGTGGC-CAAAA
19693 ATT-AGGAAAATT
193 ATTGAGGAAAATT
19705 CTTTTTGGTA
Statistics
Matches: 455, Mismatches: 69, Indels: 29
0.82 0.12 0.05
Matches are distributed among these distances:
330 3 0.01
331 51 0.11
332 379 0.83
333 22 0.05
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (330 bp):
AATATCTATATCCATCTAACCAAATCTCAACCACATTGGATTTAAGGATTTGTTTTTACGAGCAT
CTAAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAAATAGGAAAAACGATATTAGAAGCG
TGAAAGCCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAATATCGTGGCCAAAAATT
GAGGAAAATTATTTCGGGTCAATTTTTGCAAAATTGTAGCCGAAACCGTGTACCAACTATCACAG
TTTTTGACTAAAAACGCGATTCGGGGCCCCGACTCTATTTTGCATGATTTTTGGCACCAAAACTC
ATTGA
Found at i:23087 original size:26 final size:27
Alignment explanation
Indices: 23026--23090 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
23016 AAGTTCAGGC
*
23026 AAAGCATAAATTGATTAATAATCAGAT
1 AAAGCATAAATTGATAAATAATCAGAT
23053 AAAGCATAAATTGATAAATAATCA-AT
1 AAAGCATAAATTGATAAATAATCAGAT
23079 AAAGCATAAATT
1 AAAGCATAAATT
23091 AAAGAATAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 14 0.38
27 23 0.62
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAGCATAAATTGATAAATAATCAGAT
Found at i:23098 original size:26 final size:26
Alignment explanation
Indices: 23026--23098 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
23016 AAGTTCAGGC
**
23026 AAAGCATAAATTGATTAATAATCAGAT
1 AAAGCATAAATT-AAAAATAATCAGAT
*
23053 AAAGCATAAATTGATAAATAATCA-AT
1 AAAGCATAAATT-AAAAATAATCAGAT
23079 AAAGCATAAATTAAAGAATA
1 AAAGCATAAATTAAA-AATA
23099 GGGTGCCATG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 2 0.05
26 18 0.42
27 23 0.53
ACGTcount: A:0.58, C:0.07, G:0.10, T:0.26
Consensus pattern (26 bp):
AAAGCATAAATTAAAAATAATCAGAT
Found at i:48697 original size:9 final size:9
Alignment explanation
Indices: 48683--48717 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
48673 CTAAGAGTAA
48683 AACATTCAT
1 AACATTCAT
48692 AACATTCAT
1 AACATTCAT
48701 AACATTCAT
1 AACATTCAT
48710 AACATTCA
1 AACATTCA
48718 CACTCTCGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (9 bp):
AACATTCAT
Found at i:50832 original size:55 final size:54
Alignment explanation
Indices: 50772--50881 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 54
50762 GAACTGGTGG
*
50772 TGATGAATTATGATTTTATTTA-CTAGTATTTTCAAAAATGTAAATTTTACTTTTA
1 TGATGAATTATGA--TTATTTAGATAGTATTTTCAAAAATGTAAATTTTACTTTTA
50827 TGATGAATTATGATTATTTAGTATAGTATTTTCAAAAATGTAAATTTTACTTTTA
1 TGATGAATTATGATTATTTAG-ATAGTATTTTCAAAAATGTAAATTTTACTTTTA
50882 ACCCAAACTG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
53 7 0.13
55 45 0.87
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (54 bp):
TGATGAATTATGATTATTTAGATAGTATTTTCAAAAATGTAAATTTTACTTTTA
Found at i:52087 original size:105 final size:104
Alignment explanation
Indices: 51906--52148 Score: 336
Period size: 105 Copynumber: 2.4 Consensus size: 104
51896 AATTTTTCTA
*
51906 ACCCTTAAAATAAAATTTTAATTTTAATTT-GGGCTAAACTTAGTGAATTAATTATATATTTTAT
1 ACCCTTAAAATAAAA-TATAATTTTAATTTGGGGCTAAACTTAGTGAATTAATTATATATTTTAT
* * *
51970 TTCTAAAACCCTATAACAAT-ATTTTTAGTTATGGAATTT
65 TTCTAAAACCCTATAACAATAATTATTAATTATGAAATTT
* * *
52009 ACCCTTAAAATGAAAATATAATTTTAATTTGGGGCTAAACTTAGTGAAATTAGTTTTGTATTTTA
1 ACCCTTAAAAT-AAAATATAATTTTAATTTGGGGCTAAACTTAGTG-AATTAATTATATATTTTA
*
52074 TTTCTAAAACCCTATAACAATAAATTATTAATTTTGAAATTT
64 TTTCTAAAACCCTATAACAAT-AATTATTAATTATGAAATTT
52116 ACCCTTAAAATAAAA-A-AA--TTAATTTGGGGCTAA
1 ACCCTTAAAATAAAATATAATTTTAATTTGGGGCTAA
Statistics
Matches: 127, Mismatches: 8, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
102 15 0.12
103 24 0.19
104 21 0.17
105 37 0.29
106 4 0.03
107 26 0.20
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (104 bp):
ACCCTTAAAATAAAATATAATTTTAATTTGGGGCTAAACTTAGTGAATTAATTATATATTTTATT
TCTAAAACCCTATAACAATAATTATTAATTATGAAATTT
Done.