Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009058.1 Hibiscus syriacus cultivar Beakdansim tig00112473_pilon, 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: 45629
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:550 original size:3 final size:3
Alignment explanation
Indices: 542--661 Score: 144
Period size: 3 Copynumber: 41.7 Consensus size: 3
532 TTATTTATTA
*
542 AAT AAT AAT -AT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* **
586 ACT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT GCT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
633 AA- ACT -AT AAT AAT -AT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
662 ATGGATAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
2 10 0.10
3 87 0.87
4 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:604 original size:42 final size:43
Alignment explanation
Indices: 541--661 Score: 160
Period size: 42 Copynumber: 2.9 Consensus size: 43
531 ATTATTTATT
*
541 AAATAATAAT-ATAATAATAATAT-ATAATATTAATAATAATA
1 AAATAATAATAATAATAATAATATAATAATAATAATAATAATA
* **
582 AAATACTAATAATAATAATAATATAATAATAATAATAATGCTA
1 AAATAATAATAATAATAATAATATAATAATAATAATAATAATA
*
625 ATAATAATAA-ACT-ATAATAATATAATAATAATAATAA
1 A-AATAATAATAATAATAATAATATAATAATAATAATAA
662 ATGGATAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
41 9 0.13
42 37 0.52
43 18 0.25
44 7 0.10
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (43 bp):
AAATAATAATAATAATAATAATATAATAATAATAATAATAATA
Found at i:650 original size:53 final size:53
Alignment explanation
Indices: 542--661 Score: 174
Period size: 53 Copynumber: 2.3 Consensus size: 53
532 TTATTTATTA
* *
542 AATAATAATATAATAATAATATATAATATTAATAATAATAAAATACTAATAAT
1 AATAATAATATAATAATAATATATAATACTAATAATAATAAAATAATAATAAT
* *
595 AATAATAATATAATAATAATA-ATAATGCTAATAATAATAAACT-ATAATAAT
1 AATAATAATATAATAATAATATATAATACTAATAATAATAAAATAATAATAAT
646 -ATAATAATAATAATAA
1 AATAATAAT-ATAATAA
662 ATGGATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
50 8 0.13
51 14 0.23
52 19 0.31
53 21 0.34
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (53 bp):
AATAATAATATAATAATAATATATAATACTAATAATAATAAAATAATAATAAT
Found at i:1176 original size:20 final size:21
Alignment explanation
Indices: 1135--1176 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1125 GATTCAGAGG
* *
1135 TTTTATAAATATTTAATTTAT
1 TTTTATAAATATTAAATATAT
1156 TTTTATAAAT-TTAAATATAT
1 TTTTATAAATATTAAATATAT
1176 T
1 T
1177 ATTTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATAAATATTAAATATAT
Found at i:12406 original size:2 final size:2
Alignment explanation
Indices: 12399--12426 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12389 AATATTTTAA
12399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12427 GAGCTTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12780 original size:40 final size:41
Alignment explanation
Indices: 12731--12815 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 41
12721 GTTCAAAAAT
12731 AATACATTAAAACA-G-ATTTATAATAATGACACGCAATAAA
1 AATACATTAAAA-ATGAATTTATAATAATGACACGCAATAAA
*
12771 AATACATTAAAAATTGAATTTATAATAATGAGACGCAATAAA
1 AATACATTAAAAA-TGAATTTATAATAATGACACGCAATAAA
12813 AAT
1 AAT
12816 TATTATAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 1 0.02
40 12 0.29
41 1 0.02
42 27 0.66
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.27
Consensus pattern (41 bp):
AATACATTAAAAATGAATTTATAATAATGACACGCAATAAA
Found at i:13327 original size:52 final size:52
Alignment explanation
Indices: 13237--13336 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
13227 TTAATTTGTA
* * *
13237 TCTTCTTCATCATCGTCGAGAGGAAGAACCGCAGGTTGTCTATTAGTCGTTT
1 TCTTCTTCATCATCATCGAGAGGAAGAACCGCAAGTTGTCCATTAGTCGTTT
* * * * *
13289 TCTTCTTCTTCTTCATCGGGAGGAGGAATCGCAAGTTGTCCATTAGTC
1 TCTTCTTCATCATCATCGAGAGGAAGAACCGCAAGTTGTCCATTAGTC
13337 CTCACCTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 40 1.00
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (52 bp):
TCTTCTTCATCATCATCGAGAGGAAGAACCGCAAGTTGTCCATTAGTCGTTT
Found at i:13946 original size:11 final size:11
Alignment explanation
Indices: 13926--13957 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13916 GAGGAGGAAC
*
13926 CATAAGTTGTT
1 CATAAATTGTT
13937 CATAAATTGTT
1 CATAAATTGTT
13948 CATAAATTGT
1 CATAAATTGT
13958 GTTCTTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (11 bp):
CATAAATTGTT
Found at i:14431 original size:330 final size:328
Alignment explanation
Indices: 13271--16684 Score: 1085
Period size: 345 Copynumber: 10.1 Consensus size: 328
13261 AGAACCGCAG
* * * * * * *
13271 GTTGTCTATTAG-TCGTTTTCTTCTTCTTCTTCATCGGGAGGAGGAATCGCAAGTTGTCCATT-A
1 GTTGTCCATTAGAT-GTCTTCTTCTTCATCGTCGTTGGGAGGA-GAATCGCAGGTTGTCCATTAA
* * * * * * * *
13334 GTCCTCACCTTATAGAATCATAAAATTTTGGTTACAAT-GAGAACACTTCCTCCTTCAAGAACAA
64 CT-GTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACACATCCTCTTTCAAGAACAA
* * * * * * * * * *
13398 GAACCTGAGACATTTGCGACAAGGTAAACGACTAATGGATAAACCAT--GATTCCTCCTCCCACG
128 GAATCTGAAACGTATGCGATAAGGT-GACAACTAATGG--ACACCATACGGTTCCTCCTCCCACA
* * * * * * *
13461 ACGATATAGTCATAGTTGTCATCTGTTGGAAAATACGTCGCATTGTTCAAGTATGAGTTAACAAT
190 ACGATATAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTTCAAGTATGAGTCAACAAT
* * * * * *
13526 TAAAAAAATTAAAAAAAAAAT-C-TATGTGC--CTTCTTCTTC-TT-CT-TCGT--TTGAAGGAG
255 TAAAAAAATTAAAAAAAAAATGCTTTTCTTCTTCTTCTTCTTCGTTGTTGTCGTCGCTGGAGGAG
**
13582 GAATTGCAA
320 GAATCACAA
*
13591 GTTGTCCATTAACCGTAT-TCTTATTCTTCATCGTCGTAT-GGAGGAGAAATCGCAGGTTGTCCA
1 GTTGTCCATT-A--G-ATGTCTTCTTCTTCATCGTCGT-TGGGAGGAG-AATCGCAGGTTGTCCA
* *
13654 TTAACTGTCACCTTGTATATTCATCAAATTTTGGTTACCATA-AGGAACACATCCTCTTTCAAAA
60 TTAACTGTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGA-GAACACATCCTCTTTCAAGA
* * * * * * *
13718 ACAAGAATCTTAAAC-TAATGAGATAAGGTGACAATTAATGGATACCATACGGTTCATCCACTCA
124 ACAAGAATCTGAAACGT-ATGCGATAAGGTGACAACTAATGGACACCATACGGTTCCTCCTCCCA
* * * * * * * ** *
13782 TATCGATGTAATCATAGTAGTCCTCTGTTGGAAAATACATCGTATTA-TTTAAGTATGAGTCAA-
188 CAACGATATAGTCATAGTAGTCATCTATTAGAAAATACATCACA-TAGTTCAAGTATGAGTCAAC
* * *
13845 TATTAAAAAAATTAAAAGATTGAGAAAAATGTCTTTTACTTCTTCTTCTTCTTTGTTGTTGTCGG
252 AATTAAAAAAATT-AAA-A---A-AAAAATG-CTTTT-CTTCTTCTTCTTCTTCGTTGTTGTCGT
* *
13910 CGTCTGGAGGAGGAACCATAA
309 CG-CTGGAGGAGGAATCACAA
* * * * * * *
13931 GTTGTTCA-TAAATTGTTCATAAATTGTGTTCTTCTTCCTCGATGTTG-GGAG----G-AGGTTG
1 GTTGTCCATTAGA-TG-TC------T-TCTTCTTCATCGTCGTTG-GGAGGAGAATCGCAGGTTG
* * * * * * * * *
13989 TCCATTAACTGTTACTTTGTCGATTCATCAAACTTTGGTTATCATAAAGAAGACCTCCTCTTTTA
56 TCCATTAACTGTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACACATCCTCTTTCA
* *
14054 AGAACAAGAAT-TCGAAATGTATGCGATAAGGTGACAAATAATGGACACCATACGGTTCCTCCTC
121 AGAACAAGAATCT-GAAACGTATGCGATAAGGTGACAACTAATGGACACCATACGGTTCCTCCTC
* * *
14118 CCACAATGATGTAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTCCAAGTATGAGTCA
185 CCACAACGATATAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTTCAAGTATGAGTCA
* *
14183 ACAATT-AAAAAATTAAAAAAAATATGCTTCTTTTTCTTCTTCTTCTTCGTTGTTGTCGTCGCCT
250 ACAATTAAAAAAATTAAAAAAAAAATGCTT-TTCTTCTTCTTCTTCTTCGTTGTTGTCGTCG-CT
14247 GGAGGAGGAATCACACA
313 GGAGGAGGAATCACA-A
*
14264 -TTGTCCATTAGATGTCTTCTTCTTCATCGTCGTTGGGAGGAAGAATCGCAGGTTGTCCATT-AG
1 GTTGTCCATTAGATGTCTTCTTCTTCATCGTCGTTGGGAGG-AGAATCGCAGGTTGTCCATTAAC
* *
14327 TCGTCACCTTGTCGATTCATCAAATTTTAGTTACCATAGAGAACATC-TCCTCTTTCAAGAACAA
65 T-GTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACA-CATCCTCTTTCAAGAACAA
* * * * * *
14391 TAATCAGAAACGTCA-GTGATAAGGTGA-AGACTAATGGACACCAAATGGTTCCTCATCCCACAA
128 GAATCTGAAACGT-ATGCGATAAGGTGACA-ACTAATGGACACCATACGGTTCCTCCTCCCACAA
* * * * * * *
14454 CAATATAGTCATAATAGTCCT-TAATTAGGAAATACATCGA-ATTGTTCAAGCATGAGTTAACAA
191 CGATATAGTCATAGTAGTCATCT-ATTAGAAAATACATC-ACATAGTTCAAGTATGAGTCAACAA
* * * *
14517 TTAAAAAGTTAAAAAAATAAGAAAAAATATAT-CTTTTTTTCCTCTTCTTCTTCGTTGTCGTCGT
254 TT----A---AAAAAATTAA-AAAAAA-A-ATGCTTTTCTTCTTCTTCTTCTTCGTTGTTGTCGT
* *
14581 --CTGGAGGAAGAATCATAA
309 CGCTGGAGGAGGAATCACAA
* * * * * *
14599 GTTGTCCATTTGTTGTCTTCTTCTTCTTCTACTTCATCGTCGATCGTGAGGAGGAACCGCAAGTT
1 GTTGTCCATTAGATG------TCTTC-T-T-CTTCATCGTCG-TTGGGAGGA-GAATCGCAGGTT
* * * *** * * * * *
14664 CTTCATT-AGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTT
55 GTCCATTAACT-GTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACACATCCTCTTT
* * * * * * * * ** * * *
14728 CAAGAATAAGAACCTGAAAC-TACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTC
119 CAAGAACAAGAATCTGAAACGTA-TGCGATAAGGTGACAACTAATGGACACCATACGGTTCCTCC
* * * * * ** * * *
14792 TCCCACAACGAT-GAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGT
183 TCCCACAACGATATAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTTCAAGTATGAGT
* ** * * * *
14856 TAACAATTAAAAAGTTAAAAAATAAGAAAAAATATCTTTTTTTCCTCTTCTTCTTCGTTGTCGTC
248 CAACAATTAAAAA---AATTAA-AA-AAAAAAT-GCTTTTCTTCTTCTTCTTCTTCGTTGTTGTC
* *
14921 GT--CTGGAGGAAGAATCATAA
307 GTCGCTGGAGGAGGAATCACAA
* * * * * *
14941 GTTGTCCATTTGTTGTCTTCTTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTT
1 GTTGTCCATTAGATG---------TCTTCTTCTTCATCGTCG-TTGGGAGGA-GAATCGCAGGTT
* * * *** * * * * *
15006 CTTCATT-AGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTT
55 GTCCATTAACT-GTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACACATCCTCTTT
* * * * * * * ** * * *
15070 CAAGAACAAGAACCTGAAAC-TACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTC
119 CAAGAACAAGAATCTGAAACGTA-TGCGATAAGGTGACAACTAATGGACACCATACGGTTCCTCC
* * * * * ** * * *
15134 TCCCACAACGAT-GAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGT
183 TCCCACAACGATATAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTTCAAGTATGAGT
* * *** * *
15198 TAACAATT-AAAAAGTTAAAAAAATAAGAAAATATATATCTTTTTTTCCTCTTCTTC-TTCGTTG
248 CAACAATTAAAAAAATTAAAAAAA-AA-ATGCT-T-T-TC--TTCTTCTTCTTCTTCGTT-GTTG
* *
15261 TCGTCGTCTGGAGGAAGAATCATAA
305 TCGTCG-CTGGAGGAGGAATCACAA
* * * * * **
15286 GTTGTCCATCTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAA-CATCAATT
1 GTTGTCCA--T-TAG----A-T-GTCTTCTTCTTCATCGTCG-TTGGGAGGA-GAATC-GCAGGT
* * * *** * * * * *
15350 TCTTCATT-AGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTT
54 TGTCCATTAACT-GTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACACATCCTCTT
* * * * * * * ** * * *
15414 TCAAGAACAAGAACCTGAAAC-TACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTT
118 TCAAGAACAAGAATCTGAAACGTA-TGCGATAAGGTGACAACTAATGGACACCATACGGTTCCTC
* * * * * ** * * *
15478 CTCCCACAACGAT-GAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAG
182 CTCCCACAACGATATAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTTCAAGTATGAG
* * * *
15542 TTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATAT-CTTTTTTTCCTCTTCTTCTTCGTTG
247 TCAACAATT----A---AAAAAATTAA-AAAAAA-A-ATGCTTTTCTTCTTCTTCTTCTTCGTTG
* * *
15606 TCGTCGT--CTGGAGGAAGAATCATAA
302 TTGTCGTCGCTGGAGGAGGAATCACAA
* * * * * *
15631 GTTGTCCATTTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTT
1 GTTGTCCA--T-TAG----A-T-GTCTTCTTCTTCATCGTCG-TTGGGAGGA-GAATCGCAGGTT
* * * *** * * * * *
15696 CTTCATT-AGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTT
55 GTCCATTAACT-GTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACACATCCTCTTT
* * * * * * ** * * *
15760 CAAGAACAAGAACCTGAAAC-TACTACGACAAGGTGACAA-TAATGAACAACTTGTGATTCTTTC
119 CAAGAACAAGAATCTGAAACGTA-TGCGATAAGGTGACAACTAATGGACACCATACGGTTCCTCC
* * * * * * * *
15823 TCCCACAACGAT-GA-TCATAGTAGTCCTCTGTTA-AAAACACACCGCATTGTTCAAGCATGAGT
183 TCCCACAACGATATAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTTCAAGTATGAGT
* ** * * * *
15885 TAACAATTAAAAAGTTAAAAAATAAGAAAAAATATCTTTTTTTCCTCTTCTTCTTCGTTGTCGTC
248 CAACAATTAAAAA---AATTAA-AA-AAAAAAT-GCTTTTCTTCTTCTTCTTCTTCGTTGTTGTC
* *
15950 GT--CTGGAGGAAGAATCATAA
307 GTCGCTGGAGGAGGAATCACAA
* * * * * *
15970 GTTGTCCATCTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTT
1 GTTGTCCA--T-TAG----A-T-GTCTTCTTCTTCATCGTCG-TTGGGAGGA-GAATCGCAGGTT
* * * *** * * * * * *
16035 CTTCATT-AGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTATTT
55 GTCCATTAACT-GTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACACATCCTCTTT
* * * * * * * ** * * *
16099 CAAGAACAAGAACCTGAAAC-TACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTC
119 CAAGAACAAGAATCTGAAACGTA-TGCGATAAGGTGACAACTAATGGACACCATACGGTTCCTCC
* * * * * ** * * *
16163 TCCCACAACGAT-GAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGT
183 TCCCACAACGATATAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTTCAAGTATGAGT
* * * * *
16227 TAACAATTAAAAGTTAAAAAAATAAGAAAAAATATAT-CTTTTTTTCCTCTTCTTCTTCGTTGTC
248 CAACAATT---A---AAAAAATTAA-AAAAAA-A-ATGCTTTTCTTCTTCTTCTTCTTCGTTGTT
* *
16291 GTCGT--CTGGAGGAAGAATCATAA
304 GTCGTCGCTGGAGGAGGAATCACAA
* * * * * *
16314 GTTGTCCATCTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTT
1 GTTGTCCA--T-TAG----A-T-GTCTTCTTCTTCATCGTCG-TTGGGAGGA-GAATCGCAGGTT
* * * *** * * * * * *
16379 CTTCATT-AGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCACAGGGAGCACCTCTTCTTT
55 GTCCATTAACT-GTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACACATCCTCTTT
* * * * * * * ** * * *
16443 CAAGAACAAGAACCTGAAAC-TACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTC
119 CAAGAACAAGAATCTGAAACGTA-TGCGATAAGGTGACAACTAATGGACACCATACGGTTCCTCC
* * * * * ** * * *
16507 TCCCACAACGAT-GAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGT
183 TCCCACAACGATATAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTTCAAGTATGAGT
* * * *
16571 TAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATAT-CTTTTTTTCCTCTTCTTCTTCGTTGT
248 CAACAATT----A---AAAAAATTAA-AAAAAA-A-ATGCTTTTCTTCTTCTTCTTCTTCGTTGT
* * *
16635 CGTCGT--CTGGAGGAAGAATCATAA
303 TGTCGTCGCTGGAGGAGGAATCACAA
* *
16659 GTTGTCCATTTGTTGTCTTCTTCTTC
1 GTTGTCCATTAGATGTCTTCTTCTTC
16685 TTCTTCTTCA
Statistics
Matches: 2713, Mismatches: 226, Indels: 294
0.84 0.07 0.09
Matches are distributed among these distances:
320 9 0.00
321 7 0.00
322 13 0.00
323 141 0.05
324 58 0.02
325 4 0.00
327 1 0.00
328 6 0.00
329 5 0.00
330 166 0.06
331 7 0.00
332 54 0.02
333 12 0.00
334 10 0.00
335 8 0.00
336 43 0.02
337 12 0.00
338 36 0.01
339 426 0.16
340 69 0.03
341 36 0.01
342 401 0.15
343 22 0.01
344 361 0.13
345 629 0.23
346 126 0.05
347 2 0.00
348 26 0.01
349 2 0.00
350 1 0.00
351 1 0.00
352 1 0.00
353 11 0.00
354 7 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (328 bp):
GTTGTCCATTAGATGTCTTCTTCTTCATCGTCGTTGGGAGGAGAATCGCAGGTTGTCCATTAACT
GTCACCTTGTAGATTCATCAAATTTTGGTTACCATAGAGAACACATCCTCTTTCAAGAACAAGAA
TCTGAAACGTATGCGATAAGGTGACAACTAATGGACACCATACGGTTCCTCCTCCCACAACGATA
TAGTCATAGTAGTCATCTATTAGAAAATACATCACATAGTTCAAGTATGAGTCAACAATTAAAAA
AATTAAAAAAAAAATGCTTTTCTTCTTCTTCTTCTTCGTTGTTGTCGTCGCTGGAGGAGGAATCA
CAA
Found at i:14949 original size:342 final size:345
Alignment explanation
Indices: 14494--16927 Score: 4645
Period size: 345 Copynumber: 7.1 Consensus size: 345
14484 AATACATCGA
14494 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
*
14559 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTCTTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTATTCTT
*
14624 CTTCTACTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
*
14689 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAATAAGAACCTGAAACTACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
14754 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
14819 TCTGTTAAAAAACACGCCGC
326 TCTGTTAAAAAACACGCCGC
14839 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTT-AAAAAATAAG-AAAAA-ATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
*
14901 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTCTTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTATTCTT
14966 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
15031 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
15096 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
15161 TCTGTTAAAAAACACGCCGC
326 TCTGTTAAAAAACACGCCGC
*
15181 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAATATATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
*
15246 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTATTCTT
** *
15311 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACATCAATTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
15376 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
15441 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
15506 TCTGTTAAAAAACACGCCGC
326 TCTGTTAAAAAACACGCCGC
15526 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
15591 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTATTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTATTCTT
15656 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
15721 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
15786 GACAAGGTGAC-AATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGA-TCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
*
15849 TCTGTT-AAAAACACACCGC
326 TCTGTTAAAAAACACGCCGC
15868 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTT-AAAAAATAAG-AAAAA-ATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
*
15930 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTATTCTT
15995 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
*
16060 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTATTTCAAGAACAAGAACCTGAAACTACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
16125 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
16190 TCTGTTAAAAAACACGCCGC
326 TCTGTTAAAAAACACGCCGC
16210 ATTGTTCAAGCATGAGTTAACAATT-AAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
*
16274 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTATTCTT
16339 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
*
16404 TCATGAAATTTTGGTTACCACAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
16469 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
16534 TCTGTTAAAAAACACGCCGC
326 TCTGTTAAAAAACACGCCGC
16554 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
*
16619 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTCTTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTATTCTT
16684 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
*
16749 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACAACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
16814 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
16879 TCTGTTAAAAAACACGCCGC
326 TCTGTTAAAAAACACGCCGC
*
16899 ATTGTTCAAGCATCAGTTAACAATTAAAA
1 ATTGTTCAAGCATGAGTTAACAATTAAAA
16928 CAACAATAAA
Statistics
Matches: 2055, Mismatches: 24, Indels: 20
0.98 0.01 0.01
Matches are distributed among these distances:
339 218 0.11
340 45 0.02
341 35 0.02
342 417 0.20
343 38 0.02
344 371 0.18
345 931 0.45
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (345 bp):
ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTATTCTT
CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
TCTGTTAAAAAACACGCCGC
Found at i:15212 original size:687 final size:690
Alignment explanation
Indices: 14494--16927 Score: 4645
Period size: 687 Copynumber: 3.5 Consensus size: 690
14484 AATACATCGA
14494 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
* *
14559 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTCTTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
*
14624 CTTCTACTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
*
14689 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAATAAGAACCTGAAACTACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
14754 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
14819 TCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGTTAACAATTAAAAAGTT-AAAAAATAAG-
326 TCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGA
14882 AAAAA-ATATCTTTTTTTCCTCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGT
391 AAAAATATATCTTTTTTTCCTCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGT
*
14946 CCATTTGTTGTCTTCTTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCA
456 CCATTTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCA
15011 TTAGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAA
521 TTAGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAA
15076 CAAGAACCTGAAACTACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACA
586 CAAGAACCTGAAACTACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACA
15141 ACGATGAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGC
651 ACGATGAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGC
*
15181 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAATATATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
15246 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
** *
15311 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACATCAATTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
15376 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
15441 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
15506 TCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGA
326 TCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGA
15571 AAAAATATATCTTTTTTTCCTCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGT
391 AAAAATATATCTTTTTTTCCTCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGT
15636 CCATTTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCA
456 CCATTTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCA
15701 TTAGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAA
521 TTAGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAA
15766 CAAGAACCTGAAACTACTACGACAAGGTGAC-AATAATGAACAACTTGTGATTCTTTCTCCCACA
586 CAAGAACCTGAAACTACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACA
*
15830 ACGATGA-TCATAGTAGTCCTCTGTT-AAAAACACACCGC
651 ACGATGAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGC
15868 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTT-AAAAAATAAG-AAAAA-ATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
15930 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
15995 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
*
16060 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTATTTCAAGAACAAGAACCTGAAACTACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
16125 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
16190 TCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGTTAACAATT-AAAAGTTAAAAAAATAAGA
326 TCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGA
16254 AAAAATATATCTTTTTTTCCTCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGT
391 AAAAATATATCTTTTTTTCCTCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGT
*
16319 CCATCTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCA
456 CCATTTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCA
*
16384 TTAGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCACAGGGAGCACCTCTTCTTTCAAGAA
521 TTAGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAA
16449 CAAGAACCTGAAACTACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACA
586 CAAGAACCTGAAACTACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACA
16514 ACGATGAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGC
651 ACGATGAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGC
16554 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
1 ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
* *
16619 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATTTGTTGTCTTCTTCTT
66 TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
16684 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
131 CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
*
16749 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACAACTAC
196 TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
16814 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
261 GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
*
16879 TCTGTTAAAAAACACGCCGCATTGTTCAAGCATCAGTTAACAATTAAAA
326 TCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGTTAACAATTAAAA
16928 CAACAATAAA
Statistics
Matches: 1714, Mismatches: 23, Indels: 17
0.98 0.01 0.01
Matches are distributed among these distances:
683 243 0.14
684 355 0.21
685 22 0.01
686 55 0.03
687 425 0.25
688 33 0.02
689 359 0.21
690 222 0.13
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (690 bp):
ATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGAAAAAATATATCTTTTTTTCC
TCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGTCCATCTGTTGTCTTATTCTT
CTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCATTAGTCGTCACCTTGTCTTT
TCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAACAAGAACCTGAAACTACTAC
GACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACAACGATGAGTCATAGTAGTCC
TCTGTTAAAAAACACGCCGCATTGTTCAAGCATGAGTTAACAATTAAAAAGTTAAAAAAATAAGA
AAAAATATATCTTTTTTTCCTCTTCTTCTTCGTTGTCGTCGTCTGGAGGAAGAATCATAAGTTGT
CCATTTGTTGTCTTATTCTTCTTCTTCTTCATCGTCGATCGTGAGGAGGAACCGCAAGTTCTTCA
TTAGTCGTCACCTTGTCTTTTCATGAAATTTTGGTTACCATAGGGAGCACCTCTTCTTTCAAGAA
CAAGAACCTGAAACTACTACGACAAGGTGACAAATAATGAACAACTTGTGATTCTTTCTCCCACA
ACGATGAGTCATAGTAGTCCTCTGTTAAAAAACACGCCGC
Found at i:17397 original size:13 final size:13
Alignment explanation
Indices: 17379--17404 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17369 TGGGGAAGTG
17379 CTCTCGAAGAAAT
1 CTCTCGAAGAAAT
17392 CTCTCGAAGAAAT
1 CTCTCGAAGAAAT
17405 GATAAAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
CTCTCGAAGAAAT
Found at i:17518 original size:6 final size:6
Alignment explanation
Indices: 17507--17537 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
17497 AAATCATCGA
17507 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
17538 CTAAATACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:18372 original size:23 final size:23
Alignment explanation
Indices: 18355--18399 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
18345 AAGACAGAGA
*
18355 TAAACGTGTCATAAAGACAAAAG
1 TAAACGTGTCACAAAGACAAAAG
*
18378 TAAATGTGTCACAAAGACAAAA
1 TAAACGTGTCACAAAGACAAAA
18400 ATTTTCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.18
Consensus pattern (23 bp):
TAAACGTGTCACAAAGACAAAAG
Found at i:21515 original size:37 final size:36
Alignment explanation
Indices: 21440--21515 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
21430 TTTTTATATT
*
21440 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
21476 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
21513 TTT
1 TTT
21516 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:22962 original size:20 final size:20
Alignment explanation
Indices: 22939--22990 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
22929 AACGCGATCC
22939 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
22959 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
22979 CCAAAATCGCAA
1 CCAGAATCGCAA
22991 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:23007 original size:21 final size:20
Alignment explanation
Indices: 22980--23079 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
22970 AATCAGTTTC
22980 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
23001 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
23022 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
23042 CCAAAATCGCAACGCGAATATG
1 -CAAAATCGCAACGCG-ATTTT
*
23064 AAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
23080 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 7
0.71 0.20 0.08
Matches are distributed among these distances:
20 2 0.03
21 54 0.92
22 3 0.05
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:23080 original size:21 final size:20
Alignment explanation
Indices: 23044--23098 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
23034 GCGATTTTCC
* *
23044 AAAATCGCAACGCGAATATGA
1 AAAATCGCAACGCGAACA-CA
23065 AAAATCGCAACGCGAACACA
1 AAAATCGCAACGCGAACACA
*
23085 TAAATCGCAACGCG
1 AAAATCGCAACGCG
23099 TATCCGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACGCGAACACA
Found at i:23091 original size:20 final size:20
Alignment explanation
Indices: 23066--23239 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
23056 CGAATATGAA
* *
23066 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
23086 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
23106 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
23126 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
23146 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
23166 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
23186 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
23206 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
23227 AAATCGCAACGCG
1 AAATCGCAACGCG
23240 ATATTTAAAG
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 113 0.86
21 17 0.13
22 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:23136 original size:60 final size:60
Alignment explanation
Indices: 23066--23239 Score: 249
Period size: 60 Copynumber: 2.9 Consensus size: 60
23056 CGAATATGAA
* *
23066 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
* *** * *
23126 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
**
23186 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCG
23240 ATATTTAAAG
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 66 0.68
61 31 0.32
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:23660 original size:33 final size:33
Alignment explanation
Indices: 23621--23691 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
23611 TTCACTTAGA
*
23621 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
23654 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
23687 TTTCA
1 TTTCA
23692 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:23831 original size:14 final size:14
Alignment explanation
Indices: 23812--23866 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
23802 AGAATGACTG
23812 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
23826 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
23845 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
23859 TCGCAACG
1 TCGCAACG
23867 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:23879 original size:33 final size:33
Alignment explanation
Indices: 23812--23882 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
23802 AGAATGACTG
***
23812 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
23845 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
23878 TCGCA
1 TCGCA
23883 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:23900 original size:19 final size:19
Alignment explanation
Indices: 23878--23975 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
23868 GAAACCAAAA
*
23878 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
23897 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
23911 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
23930 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
23944 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
23963 TCGCGTTGCGATT
1 TCGCGTTGCGATT
23976 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:23919 original size:14 final size:14
Alignment explanation
Indices: 23900--23989 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
23890 TTTCATTTCG
23900 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
23914 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
23933 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
23947 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
23964 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
23980 CGTTGCGATT
1 CGTTGCGATT
23990 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:23925 original size:33 final size:33
Alignment explanation
Indices: 23883--23997 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
23873 CAAAATCGCA
23883 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
23916 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
23949 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
23982 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
23998 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:25933 original size:185 final size:186
Alignment explanation
Indices: 25704--26176 Score: 930
Period size: 185 Copynumber: 2.5 Consensus size: 186
25694 TAGATTGCTT
25704 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
25769 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
25834 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCGTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCGTTGTTTTGTCTTTTGGTTGAA
25889 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
25954 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
26019 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCGTTGTTTTGTCTTTTGGTTGAA
26075 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
26140 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
26177 ATCCATTCAA
Statistics
Matches: 286, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
185 155 0.54
186 131 0.46
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCGTTGTTTTGTCTTTTGGTTGAA
Found at i:26018 original size:93 final size:93
Alignment explanation
Indices: 25704--26176 Score: 930
Period size: 93 Copynumber: 5.1 Consensus size: 93
25694 TAGATTGCTT
25704 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
25769 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
25797 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
25861 TTTGTCGTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
25889 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
25954 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
25982 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
26047 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
26075 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
26140 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
26168 AGTAAATTT
1 AGTAAATTT
26177 ATCCATTCAA
Statistics
Matches: 377, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 91 0.24
93 286 0.76
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:26260 original size:19 final size:19
Alignment explanation
Indices: 26220--26348 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
26210 TAGTTTACTT
* *
26220 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
26240 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
26259 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
26278 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
26292 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
26311 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
26325 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
26344 TCGCA
1 TCGCA
26349 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:26299 original size:33 final size:32
Alignment explanation
Indices: 26256--26348 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
26246 CGCGAAACCA
**
26256 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
26288 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
26321 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
26349 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:26346 original size:52 final size:52
Alignment explanation
Indices: 26220--26348 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
26210 TAGTTTACTT
**
26220 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
26272 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
26325 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
26349 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:26366 original size:19 final size:19
Alignment explanation
Indices: 26344--26478 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
26334 GAAACCAAAA
*
26344 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26363 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
26379 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
26396 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
26412 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
26429 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
26448 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
26468 TCGTGTTGCGA
1 TCGCGTTGCGA
26479 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:26385 original size:14 final size:14
Alignment explanation
Indices: 26366--26422 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
26356 TTTCATTTCG
26366 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
26380 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
26397 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
26413 CGTTGCGATT
1 CGTTGCGATT
26423 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:26391 original size:33 final size:33
Alignment explanation
Indices: 26349--26441 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
26339 CAAAATCGCA
*
26349 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
26382 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
26415 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
26442 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:28398 original size:14 final size:14
Alignment explanation
Indices: 28379--28414 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
28369 ATTGTTTAAT
28379 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
28393 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
28407 TGATTTGT
1 TGATTTGT
28415 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:28537 original size:19 final size:19
Alignment explanation
Indices: 28521--28622 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
28511 AAAAATGACT
28521 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
28540 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
28559 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
28573 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
28592 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
28612 ATCGCAATGCG
1 ATCGCAATGCG
28623 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:28671 original size:33 final size:33
Alignment explanation
Indices: 28629--28956 Score: 217
Period size: 33 Copynumber: 9.5 Consensus size: 33
28619 TGCGTTTATA
28629 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
28662 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
28698 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
28733 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTA
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
28771 ATTTCGCATTGCGATTATGTCGGTT-CGATTTTC
1 ATTTCGCATTGCGATTATCTC-GTTGCGATTTTC
*
28804 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
28844 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
28875 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* * *
28908 ATTTCGCGTTGCGATTTTCAT-GTTGGGATTTTC
1 ATTTCGCATTGCGATTATC-TCGTTGCGATTTTC
*
28941 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
28957 GTATTTTCCG
Statistics
Matches: 251, Mismatches: 20, Indels: 48
0.79 0.06 0.15
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 126 0.50
34 3 0.01
35 19 0.08
36 20 0.08
37 4 0.02
38 53 0.21
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:28675 original size:19 final size:19
Alignment explanation
Indices: 28651--28956 Score: 356
Period size: 19 Copynumber: 17.4 Consensus size: 19
28641 GATTATCTCG
28651 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28670 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28689 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
28703 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28722 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
28741 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
28760 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
28779 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
28794 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28812 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
28831 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
28845 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
28864 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
28883 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
28897 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
28916 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
28930 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
28949 TTGCGATT
1 TTGCGATT
28957 GTATTTTCCG
Statistics
Matches: 249, Mismatches: 13, Indels: 50
0.80 0.04 0.16
Matches are distributed among these distances:
14 32 0.13
15 2 0.01
16 31 0.12
17 31 0.12
18 2 0.01
19 151 0.61
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:28726 original size:71 final size:71
Alignment explanation
Indices: 28651--28890 Score: 355
Period size: 71 Copynumber: 3.4 Consensus size: 71
28641 GATTATCTCG
28651 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
28716 TTCGCA
66 TTCGCA
* *
28722 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
* *
28785 TT-ATGTCG-G
61 TTCATTTCGCA
*
28794 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
28858 TTCGCA
66 TTCGCA
28864 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
28891 CTCTCGTTGC
Statistics
Matches: 150, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
66 6 0.04
68 6 0.04
69 7 0.05
70 2 0.01
71 107 0.71
72 2 0.01
73 7 0.05
74 7 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:28956 original size:52 final size:52
Alignment explanation
Indices: 28651--28928 Score: 327
Period size: 52 Copynumber: 5.2 Consensus size: 52
28641 GATTATCTCG
*
28651 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC---TCGCGTTGCGATTTTCATTTCGCA
* *
28703 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC---TCGCGTTGCGATTTTCATTTCGCA
* *
28760 TTGCGATTTTAATTTCGCATTGCGATTAT-GTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCG-C-GTTGCGATTTTCATTTCGCA
*
28812 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCA
* *
28864 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCA
28916 TTGCGATTTTCAT
1 TTGCGATTTTCAT
28929 GTTGGGATTT
Statistics
Matches: 209, Mismatches: 8, Indels: 18
0.89 0.03 0.08
Matches are distributed among these distances:
51 4 0.02
52 169 0.81
53 2 0.01
54 3 0.01
55 7 0.03
57 24 0.11
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCA
Found at i:31276 original size:12 final size:12
Alignment explanation
Indices: 31259--31283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31249 TCTTCGGGGA
31259 CTTTTTCTTCTT
1 CTTTTTCTTCTT
31271 CTTTTTCTTCTT
1 CTTTTTCTTCTT
31283 C
1 C
31284 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:31492 original size:24 final size:24
Alignment explanation
Indices: 31458--31504 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31448 CTGAAACATC
31458 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
31482 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
31505 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:32203 original size:20 final size:20
Alignment explanation
Indices: 32188--32543 Score: 354
Period size: 20 Copynumber: 17.8 Consensus size: 20
32178 GTGATTTATA
32188 GATTCTCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* *
32208 GATTATCGTTGCGATTTACA
1 GATTCTCGTTGCGATTTACG
32228 GATTCTCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
*
32248 GATTATCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* *
32268 GATACGCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
*
32288 GATTATCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* *
32308 GATACGCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* * *
32328 GATACGCATTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* *
32348 GATACGCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* * *
32368 GATACACGTTGCGGTTTACG
1 GATTCTCGTTGCGATTTACG
* *
32388 GATACGCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* * *
32408 GATACGCGTTGCGATATACG
1 GATTCTCGTTGCGATTTACG
* * * *
32428 GATACGCATTGCGATTTACC
1 GATTCTCGTTGCGATTTACG
* * *
32448 CATACGCGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* *
32468 GATACACGTTGCGATTTACG
1 GATTCTCGTTGCGATTTACG
* * *
32488 GATACGCGTTGCGATTTATG
1 GATTCTCGTTGCGATTTACG
* * *
32508 TG-TTCGCGTTGCGATTTTCA
1 -GATTCTCGTTGCGATTTACG
* *
32528 TATTCGCGTTGCGATT
1 GATTCTCGTTGCGATT
32544 ATGGAAAATC
Statistics
Matches: 298, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 297 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (20 bp):
GATTCTCGTTGCGATTTACG
Found at i:32224 original size:40 final size:40
Alignment explanation
Indices: 32194--32543 Score: 456
Period size: 40 Copynumber: 8.8 Consensus size: 40
32184 TATAGATTCT
* * * *
32194 CGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCT
1 CGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACG
*
32234 CGTTGCGATTTACGGATTA-TCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACG
*
32274 CGTTGCGATTTACGGATTA-TCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACG
*
32314 CGTTGCGATTTACGGATACGCATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
* *
32354 CGTTGCGATTTACGGATACACGTTGCGGTTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
*
32394 CGTTGCGATTTACGGATACGCGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
* ** *
32434 CATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
* *
32474 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACG-GATACG
* ** *
32514 CGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACGGATACGCGTTGCGATT
32544 ATGGAAAATC
Statistics
Matches: 282, Mismatches: 26, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
39 2 0.01
40 279 0.99
41 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
Found at i:32278 original size:60 final size:60
Alignment explanation
Indices: 32194--32543 Score: 456
Period size: 60 Copynumber: 5.8 Consensus size: 60
32184 TATAGATTCT
* * * * *
32194 CGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTCGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGA-TACG
*
32254 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATTA-TCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACG
* *
32314 CGTTGCGATTTACGGATACGCATTGCGATTTACGGATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
* *
32374 CGTTGCGGTTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
* ** *
32434 CATTGCGATTTACCCATACGCGTTGCGATTTACGGATACACGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
* * * ** *
32494 CGTTGCGATTTATGTG-TTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACG-GATACGCGTTGCGATTTACGGATACGCGTTGCGATT
32544 ATGGAAAATC
Statistics
Matches: 258, Mismatches: 27, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
59 6 0.02
60 251 0.97
61 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
Found at i:32778 original size:7 final size:7
Alignment explanation
Indices: 32766--32791 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32756 AAAACCTTGT
32766 TCTCCCC
1 TCTCCCC
32773 TCTCCCC
1 TCTCCCC
32780 TCTCCCC
1 TCTCCCC
32787 TCTCC
1 TCTCC
32792 TTTTCCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (7 bp):
TCTCCCC
Found at i:37606 original size:20 final size:20
Alignment explanation
Indices: 37581--37656 Score: 125
Period size: 20 Copynumber: 3.7 Consensus size: 20
37571 TCTGGGCAAG
37581 GGGAATCGGTACCCATTCAA
1 GGGAATCGGTACCCATTCAA
37601 GGGAATCGGTACCCATTCAA
1 GGGAATCGGTACCCATTCAA
37621 GGGAATCGGTACCCATTCAA
1 GGGAATCGGTACCCATTCAA
*
37641 TGGGGAATCGATACCC
1 --GGGAATCGGTACCC
37657 CTCAAGCGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 40 0.75
22 13 0.25
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (20 bp):
GGGAATCGGTACCCATTCAA
Found at i:37733 original size:22 final size:22
Alignment explanation
Indices: 37690--37733 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37680 AATCTCATAG
*
37690 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
* *
37712 GGGAATCGATTCCCCTAAAGGA
1 GGGAACCGATTCCCCCAAAGGA
37734 AAAATGTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.27, T:0.14
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:39175 original size:103 final size:103
Alignment explanation
Indices: 38994--39208 Score: 376
Period size: 103 Copynumber: 2.1 Consensus size: 103
38984 GAGGGTCTAC
38994 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTTG
1 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTTG
* *
39059 ATCCTTGGCATATGTATATGATTCTTAAGGAATGATAT
66 ATCCCTAGCATATGTATATGATTCTTAAGGAATGATAT
*
39097 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
1 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTTG
* *
39162 ATCCCTAGTATATGTATATGATTCTTAATGAATGATAT
66 ATCCCTAGCATATGTATATGATTCTTAAGGAATGATAT
*
39200 GTGTTCCTT
1 GTGGTCCTT
39209 ATGGACATTA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTTG
ATCCCTAGCATATGTATATGATTCTTAAGGAATGATAT
Found at i:39260 original size:23 final size:23
Alignment explanation
Indices: 39224--39315 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
39214 CATTATTATA
*
39224 TGGCACTACGGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* *
39247 CGGCACTCCAGTGCAATTCTACG
1 TGGCACTCCGGTGCAATTCTACG
* *
39270 TGGCACTCCGGTGTAATTCTATG
1 TGGCACTCCGGTGCAATTCTACG
* *
39293 TGGCACTTCGGTGCAATTATACG
1 TGGCACTCCGGTGCAATTCTACG
39316 AGCTGTGGTG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
TGGCACTCCGGTGCAATTCTACG
Found at i:39363 original size:16 final size:17
Alignment explanation
Indices: 39344--39375 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39334 GTGCACAACC
39344 TCTATAG-TCTCACATA
1 TCTATAGTTCTCACATA
39360 TCTATAGTTCTCACAT
1 TCTATAGTTCTCACAT
39376 GTGTACATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (17 bp):
TCTATAGTTCTCACATA
Found at i:39662 original size:16 final size:16
Alignment explanation
Indices: 39643--39677 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
39633 TGTATGTGAT
39643 ATATG-TATGATGTGTG
1 ATATGATAT-ATGTGTG
39659 ATATGATATATGTGTG
1 ATATGATATATGTGTG
39675 ATA
1 ATA
39678 GGGGCTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (16 bp):
ATATGATATATGTGTG
Found at i:43471 original size:28 final size:28
Alignment explanation
Indices: 43431--43530 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
43421 TATTTTAATA
*
43431 TTTAAATTTAAACAAATTATAACATCTT
1 TTTAAATATAAACAAATTATAACATCTT
* *** * *
43459 TTTAAATATAAACAAAACTATTTTA-ATA
1 TTTAAATATAAAC-AAATTATAACATCTT
* *
43487 TTTAAATTTAATCAAATTATAACATCTT
1 TTTAAATATAAACAAATTATAACATCTT
43515 TTTATAATATTAAACA
1 TTTA-AATA-TAAACA
43531 TGAGAGTTTT
Statistics
Matches: 51, Mismatches: 17, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
27 7 0.14
28 29 0.57
29 10 0.20
30 5 0.10
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTAAATATAAACAAATTATAACATCTT
Found at i:43487 original size:56 final size:58
Alignment explanation
Indices: 43419--43530 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 58
43409 TCTGCCTTCG
43419 ACTATTTTAATATTTAAATTTAAACAAATTATAACATCTTTTTA-AATA-TAAACAAA
1 ACTATTTTAATATTTAAATTTAAACAAATTATAACATCTTTTTATAATATTAAACAAA
*
43475 ACTATTTTAATATTTAAATTTAATCAAATTATAACATCTTTTTATAATATTAAACA
1 ACTATTTTAATATTTAAATTTAAACAAATTATAACATCTTTTTATAATATTAAACA
43531 TGAGAGTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
56 43 0.81
57 4 0.08
58 6 0.11
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (58 bp):
ACTATTTTAATATTTAAATTTAAACAAATTATAACATCTTTTTATAATATTAAACAAA
Found at i:43634 original size:73 final size:77
Alignment explanation
Indices: 43471--43646 Score: 234
Period size: 73 Copynumber: 2.3 Consensus size: 77
43461 TAAATATAAA
* * *
43471 CAAAACTATTTTAATATTTAAATTTAATCAAATTATAACATCTTTTTATAATATTAAACATGAGA
1 CAAAACTATTTTAATATCTAAATTTAAACAAATTATAACA-CTATTTATAATATTAAACATGAGA
** *
43536 GTTTTACTCCAAT
65 ACTTTACTCCAAC
*
43549 CAAAACTCTTTTAATATCTAAATTTAAACAAATTAT-A-A-TATTTA-AATATTAAACATGAGAA
1 CAAAACTATTTTAATATCTAAATTTAAACAAATTATAACACTATTTATAATATTAAACATGAGAA
*
43610 CTTTACTTCAAC
66 CTTTACTCCAAC
*
43622 CAAAACTTTTTTAATATCTAAATTT
1 CAAAACTATTTTAATATCTAAATTT
43647 TTTAAATAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
73 49 0.55
74 5 0.06
76 1 0.01
77 1 0.01
78 33 0.37
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (77 bp):
CAAAACTATTTTAATATCTAAATTTAAACAAATTATAACACTATTTATAATATTAAACATGAGAA
CTTTACTCCAAC
Done.