Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1535
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: 22919
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Found at i:900 original size:30 final size:32
Alignment explanation
Indices: 864--929 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
854 AAGGAGGGAT
* *
864 GATAGGA-GGA-GAGACAGGAGAGATAGTAGA
1 GATAGGAGGGATGAGACAGGAGAGACAGGAGA
* *
894 GATAGGAGGGATGATAGAGGAGAGACAGGAGA
1 GATAGGAGGGATGAGACAGGAGAGACAGGAGA
926 GATA
1 GATA
930 TAGAGAGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 7 0.23
31 3 0.10
32 20 0.67
ACGTcount: A:0.42, C:0.03, G:0.44, T:0.11
Consensus pattern (32 bp):
GATAGGAGGGATGAGACAGGAGAGACAGGAGA
Found at i:914 original size:41 final size:41
Alignment explanation
Indices: 841--953 Score: 167
Period size: 41 Copynumber: 2.8 Consensus size: 41
831 GTAGCCCTCA
* *
841 AGAGAAAGAAGAGAAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAAGGAGGGATGATAGGAGGAGAGACAGG
882 AGAGATAGTAGAGATAGGAGGGATGATA-GAGGAGAGACAGG
1 AGAGATAGTAGAGA-AGGAGGGATGATAGGAGGAGAGACAGG
*
923 AGAGATA-TAGAGAGAGGAGGGATGACAGGAG
1 AGAGATAGTAGAGA-AGGAGGGATGATAGGAG
954 AGGAGAGAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
40 18 0.27
41 35 0.53
42 13 0.20
ACGTcount: A:0.43, C:0.03, G:0.45, T:0.09
Consensus pattern (41 bp):
AGAGATAGTAGAGAAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:9085 original size:42 final size:42
Alignment explanation
Indices: 9024--9142 Score: 195
Period size: 42 Copynumber: 2.8 Consensus size: 42
9014 TAGCCCTCAA
*
9024 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
9066 AGAGATAGAAGAGATAGGAGGGATGATAAGAGGAGAGACAGG
1 AGAGATAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
9108 AGAGATA-ATAGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGATAGA-AGAGAGAGGAGGGATGATAGGAGGAG
9143 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.01
42 70 0.99
ACGTcount: A:0.45, C:0.02, G:0.45, T:0.08
Consensus pattern (42 bp):
AGAGATAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:9126 original size:18 final size:18
Alignment explanation
Indices: 9099--9148 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
9089 TGATAAGAGG
*
9099 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
9117 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
9135 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
9149 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.02, G:0.46, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:15106 original size:476 final size:476
Alignment explanation
Indices: 14115--15982 Score: 2327
Period size: 476 Copynumber: 3.9 Consensus size: 476
14105 GGTTGTCATC
* * * * *
14115 AGAATGGAAACTATTACGAGAATCGATGC---TATTATTTAAGGGATGAACTTTTATTTTAAGGA
1 AGAATGGAGACTATTACGAGAATCGATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGGA
* * *
14177 AAATAGGGCAAAGAAAAGATTTCCATGCAAAAG-AAATCATCAATATCATTTATCCTAACGATGA
66 AAATAGGGCAAAGAAAAGATTTCCACGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGA
* * *
14241 GAATATGTTCATAGTGCCGAATCACAAAATGAATGAAGATTAATACTAGAATCCTTGTTTGTCTC
131 GAATGTGTTCATAGTGCCGAATCACAAAATGAAAGAAGATTAATACTAGAATCCTTGTTTGGCTC
* * * * *
14306 ATTTAAGGCACAAAGTTAGAATTTACAAAAATTGGTAGAGG--GAAAGCCTTTC-T-AGCAAAAC
196 ATTTGAGGCACGAACTTAGACTTTACAAAAATTGG-AG-GGAAAAAAGCCTTTCTTAAG--AAAC
* * * * * **
14367 CAAAGAATCAATATCGTGCATCCTTATGAGAAGAGTGCA-TTTATATTGCCTAATC-TCGAAAAG
257 CAAAGCACCAATATCGTGCATCCTAATGAGAAGACT-AAGTTTATGGTGCCTAATCGT-GAAAAG
* * * * *
14430 AAT-GGGAATTAGTATGACTATTCATATTTGTCTTATTTAAGAGGCAAAATTTGATTCTATCAAA
320 AATGGGGAA-GAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAA
** * *
14494 AATGGTGAAAAGAAAAGCCTTTCTTGCGACACCAAAGCATCAATGA-CAAGTGTCCTAATGAAGG
384 AACAGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAAT-ATCAAGTATCCTAATGAAGG
*
14558 GAATGGGTTTTAGGTTCCCAATCCTAAAA
448 GAATGTGTTTTAGGTTCCCAATCCTAAAA
* *
14587 AGAATGGAGACTGTTACGAGAATCGATCCTTGTCTTGTTTAAGGGATGAACATTGATTTT-AGGC
1 AGAATGGAGACTATTACGAGAATCGATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGG-
* * * * *
14651 AAAATATGGCATAGAAAAGATTTCTACGCAAAAGAAAATCATTAATATTATTTATCCTAATGAGG
65 AAAATAGGGCAAAGAAAAGATTTCCACGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGG
** * *
14716 AGAATGTGCTT-ATAGTGCATAATCACAAAATGAAAGAAGATAAATACTTGAATCCTTGTTTGGC
130 AGAATGTG-TTCATAGTGCCGAATCACAAAATGAAAGAAGATTAATACTAGAATCCTTGTTTGGC
* * * *
14780 TCATTTGAGGCATGAACTTACACTTTACAAAAATTGGAGGGAAAAAAGCTTTTGTTAAGAAACCA
194 TCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGAGGGAAAAAAGCCTTTCTTAAGAAACCA
* * **
14845 AAGCACCAATATCGTGCATCCTAAGGCGAAGACTAAGTTTATGGTGCCTAATCAAGAAAAGAATG
259 AAGCACCAATATCGTGCATCCTAATGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGAATG
* * * * *
14910 AGGAATAGTATGAGTATTCTTGTTTGTCTTATTTAAGAGTCGAACTTTGATTCTATCAAAAACAG
324 GGGAAGAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAACAG
* * * * *
14975 TGGAAAGAAAGGCTTTTCTAGC-AGCACCAAAGCATCAATATCAAGTATCCTAAAGAAGAGAATG
389 TGAAAAGAAAAGCTTTTCTTGCGA-CACCAAAGCATCAATATCAAGTATCCTAATGAAGGGAATG
* *
15039 TGTTTTTGGTTCCCAATCCTGAAA
453 TGTTTTAGGTTCCCAATCCTAAAA
* * * *
15063 AGAATGGAGACCATTACGAGAGTCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGA
1 AGAATGGAGACTATTACGAGAATCGATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGGA
* *
15128 AAATAGGACAAAGAAAAG-TTTGCCACGCAAAAGAAAATCATCAATATCATTTATCCTAGTGTA-
66 AAATAGGGCAAAGAAAAGATTT-CCACGCAAAAGAAAATCATCAATATCATTTATCCTAATG-AG
* * * * * * *
15191 GAGGATGTGTTCATAGTGCCTAATCACAAAATGAATA-AAGATCAATACTGGAATCCATGTCTGT
129 GAGAATGTGTTCATAGTGCCGAATCACAAAATGAA-AGAAGATTAATACTAGAATCCTTGTTTGG
* * * * ** *
15255 TTTATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGAGAAAAAAGGTTTTCTTAAGAATCC
193 CTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGAGGGAAAAAAGCCTTTCTTAAGAAACC
* * * *
15320 AAAGCACCAATATCATGTATCGTATTGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGAAT
258 AAAGCACCAATATCGTGCATCCTAATGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGAAT
* * *
15385 GGGGAAGAGTAT-ATGTATTTATGTTTGTCTTATTTAAGGGACAAACTTTGATTCTATCAAAAAT
323 GGGGAAGAGTATGA-GTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAAC
* * * *
15449 GGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATTAATGTCAAGTACCCTAATGAAGGGAAT
387 AGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATATCAAGTATCCTAATGAAGGGAAT
*
15514 GTGTTTTAGGTTCCCAATCCTCAAA
452 GTGTTTTAGGTTCCCAATCCTAAAA
* * * *
15539 AGAATGGAGACTGTTACGACAATCAATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGTA
1 AGAATGGAGACTATTACGAGAATCGATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGGA
* * * * *
15604 AAATAGGGCATAGAAAATATTTCCACGGAAAAGAAAATCATCAATATAAGTTATCCTAATGAGGA
66 AAATAGGGCAAAGAAAAGATTTCCACGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGA
* ** *
15669 GAATGTGTTTATAGCACCGAATCACAAAATGAATGAAGATTAATACTAGAATCCTTGTTTGGCTC
131 GAATGTGTTCATAGTGCCGAATCACAAAATGAAAGAAGATTAATACTAGAATCCTTGTTTGGCTC
* * * * *
15734 ATTTGAGGCACGAACATAGACATTACAAAAATTGGTGGGAAAAAAGCCTTTCTTACGAAACCAAT
196 ATTTGAGGCACGAACTTAGACTTTACAAAAATTGGAGGGAAAAAAGCCTTTCTTAAGAAACCAAA
* *
15799 GCACCAATATCGTGTATCCTATTGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGAATGGG
261 GCACCAATATCGTGCATCCTAATGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGAATGGG
* * * * **
15864 GAAGAGCATGTGTATTCATGTTTGTCTTATTTAAGAAACAAACTTTGATTTTATCAAAAACAAAG
326 GAAGAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAACAGTG
* * *
15929 GAAAGAAAAGCATTTCTTGCGACACCAAAGCATCAATATCGTA-TATCCTAATGA
391 AAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATATC-AAGTATCCTAATGA
15983 GAAGACAATG
Statistics
Matches: 1199, Mismatches: 170, Indels: 50
0.84 0.12 0.04
Matches are distributed among these distances:
472 26 0.02
474 5 0.00
475 66 0.06
476 1083 0.90
477 17 0.01
478 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (476 bp):
AGAATGGAGACTATTACGAGAATCGATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGGA
AAATAGGGCAAAGAAAAGATTTCCACGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGGA
GAATGTGTTCATAGTGCCGAATCACAAAATGAAAGAAGATTAATACTAGAATCCTTGTTTGGCTC
ATTTGAGGCACGAACTTAGACTTTACAAAAATTGGAGGGAAAAAAGCCTTTCTTAAGAAACCAAA
GCACCAATATCGTGCATCCTAATGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGAATGGG
GAAGAGTATGAGTATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCTATCAAAAACAGTG
AAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATATCAAGTATCCTAATGAAGGGAATGTGT
TTTAGGTTCCCAATCCTAAAA
Found at i:16056 original size:952 final size:949
Alignment explanation
Indices: 14146--16021 Score: 2574
Period size: 952 Copynumber: 2.0 Consensus size: 949
14136 ATCGATGCTA
* * *
14146 TTATTTAAGGGATGAACTTTTATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGA
1 TTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGACAAAGAAAAGATTTCCACGCAAAAGA
*
14211 AATCATCAATATCATTTATCCTAACGATGAGAATATGTTCATAGTGCCGAATCACAAAATGAATG
66 AATCATCAATATCATTTATCCTAACGATGAGAATATGTTCATAGTGCCGAATCACAAAATGAATA
* * * *
14276 AAGATTAATACTAGAATCCTTGTTTGTCTCATTTAAGGCACAAAGTTAGAATTTACAAAAATTGG
131 AAGATCAATACTAGAATCCATGTCTGTCTCATTTAAGGCACAAACTTAGAATTTACAAAAATTGG
** * * * *
14341 TAGAGGGAAAGCCTTTCTAGCAAAACCAAAGAATCAATATCGTGCATCCTTATGAGAAGAGTGCA
196 TAGAGAAAAAGCCTTTCTAG-AAAACCAAAGAACCAATATCATGCATCCTTATGAGAAGACTGAA
* *
14406 TTTATATTGCCTAATCTCGAAAAGAATGGGAATTAGTATGACTATTCATATTTGTCTTATTTAAG
260 TTTATAGTGCCTAATCTCGAAAAGAATGGGAATGAGTATGACTATTCATATTTGTCTTATTTAAG
14471 AGGCAAAATTTGATTCTATCAAAAATGGTGAAAAGAAAAGCCTTTCTTGCGACACCAAAGCATCA
325 AGGCAAAATTTGATTCTATCAAAAATGGTGAAAAGAAAAGCCTTTCTTGCGACACCAAAGCATCA
**
14536 ATGACAAGTGTCCTAATGAAGGGAATGGGTTTTAGGTTCCCAATCCTAAAAAGAATGGAGACTGT
390 ATGACAAGTACCCTAATGAAGGGAATGGGTTTTAGGTTCCCAATCCTAAAAAGAATGGAGACTGT
* * * * *
14601 TACGAGAATCGATCCTTGTCTTGTTTAAGGGATGAACATTGATTTTAGGCAAAATATGGCATAGA
455 TACGACAATCAATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGCAAAATAGGGCATAGA
* * * *
14666 AAAGATTTCTACGCAAAAGAAAATCATTAATATTATTTATCCTAATGAGGAGAATGTGCTTATAG
520 AAAGATTTCCACGCAAAAGAAAATCATCAATATAAGTTATCCTAATGAGGAGAATGTGCTTATAG
** * * *
14731 TGCATAATCACAAAATGAAAGAAGATAAATACTTGAATCCTTGTTTGGCTCATTTGAGGCATGAA
585 CACAGAATCACAAAATGAAAGAAGATAAATACTAGAATCCTTGTTTGGCTCATTTGAGGCACGAA
* * * *
14796 CTTACACTTTACAAAAATTGGAGGGAAAAAAGCTTTTGTTAAGAAACCAAAGCACCAATATCGTG
650 CATACACATTACAAAAATTGGAGGGAAAAAAGCCTTTCTTAAGAAACCAAAGCACCAATATCGTG
* * *
14861 CATCCTAAGGCGAAGACTAAGTTTATGGTGCCTAATCAAGAAAAGAATGAGGAATAGTATGAGTA
715 CATCCTAAGGAGAAGACTAAGTTTATGGTGCCTAATCAAGAAAAGAATGAGGAAGAGCATGAGTA
* ** * ** * *
14926 TTCTTGTTTGTCTTATTTAAGAGTCGAACTTTGATTCTATCAAAAACAGTGGAAAGAAAGGCTTT
780 TTCATGTTTGTCTTATTTAAGAAACAAACTTTGATTCTATCAAAAACAAAGGAAAGAAAAGCATT
* * *
14991 TCTAGCAGCACCAAAGCATCAATATCAAGTATCCTAAAGAAGAGAATGTGTTTTTGGTTCCCAAT
845 TCTAGCAGCACCAAAGCATCAATATCAAGTATCCTAAAGAAGACAA-GTGTTTATGGTACCCAAT
* *
15056 CCTGAAAAGAATGGAGACCATTACGAGAGTCGATGCTTGTC
909 CATGAAAAGAATGGAGACCACTACGAGAGTCGATGCTTGTC
15097 TTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGACAAAGAAAAG-TTTGCCACGCAAAAG
1 TTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGACAAAGAAAAGATTT-CCACGCAAAAG
** * * *
15161 AAAATCATCAATATCATTTATCCTAGTG-TAGAGGATGTGTTCATAGTGCCTAATCACAAAATGA
65 -AAATCATCAATATCATTTATCCTAACGAT-GAGAATATGTTCATAGTGCCGAATCACAAAATGA
* * * * * *
15225 ATAAAGATCAATACTGGAATCCATGTCTGTTTTATTTGAGGCACGAACTTAGACTTTACAAAAAT
128 ATAAAGATCAATACTAGAATCCATGTCTGTCTCATTTAAGGCACAAACTTAGAATTTACAAAAAT
** * * * *
15290 TGGT-GAGAAAAAAGGTTTTCTTA-AGAATCCAAAGCACCAATATCATGTAT-CGTATTGAGAAG
193 TGGTAGAG-AAAAAGCCTTTC-TAGA-AAACCAAAGAACCAATATCATGCATCCTTA-TGAGAAG
* * * *
15352 ACT-AAGTTTATGGTGCCTAATCGT-GAAAAGAATGGGGAA-GAGTAT-ATGTATTTATGTTTGT
254 ACTGAA-TTTATAGTGCCTAATC-TCGAAAAGAAT-GGGAATGAGTATGA-CTATTCATATTTGT
* *
15413 CTTATTTAAG-GGACAAACTTTGATTCTATCAAAAATGGTGAAAAGAAAAGCTTTTCTTGCGACA
315 CTTATTTAAGAGG-CAAAATTTGATTCTATCAAAAATGGTGAAAAGAAAAGCCTTTCTTGCGACA
* * * *
15477 CCAAAGCATTAATGTCAAGTACCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCCTCAAAAGA
379 CCAAAGCATCAATGACAAGTACCCTAATGAAGGGAATGGGTTTTAGGTTCCCAATCCTAAAAAGA
*
15542 ATGGAGACTGTTACGACAATCAATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGTAAAA
444 ATGGAGACTGTTACGACAATCAATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGCAAAA
* *
15607 TAGGGCATAGAAAATATTTCCACGGAAAAGAAAATCATCAATATAAGTTATCCTAATGAGGAGAA
509 TAGGGCATAGAAAAGATTTCCACGCAAAAGAAAATCATCAATATAAGTTATCCTAATGAGGAGAA
* * * *
15672 TGTGTTTATAGCACCGAATCACAAAATGAATGAAGATTAATACTAGAATCCTTGTTTGGCTCATT
574 TGTGCTTATAGCACAGAATCACAAAATGAAAGAAGATAAATACTAGAATCCTTGTTTGGCTCATT
* * * *
15737 TGAGGCACGAACATAGACATTACAAAAATTGGTGGGAAAAAAGCCTTTCTTACGAAACCAATGCA
639 TGAGGCACGAACATACACATTACAAAAATTGGAGGGAAAAAAGCCTTTCTTAAGAAACCAAAGCA
* ** ** *
15802 CCAATATCGTGTATCCTATTGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGAATGGGGAA
704 CCAATATCGTGCATCCTAAGGAGAAGACTAAGTTTATGGTGCCTAATCAAGAAAAGAATGAGGAA
* *
15867 GAGCATGTGTATTCATGTTTGTCTTATTTAAGAAACAAACTTTGATTTTATCAAAAACAAAGGAA
769 GAGCATGAGTATTCATGTTTGTCTTATTTAAGAAACAAACTTTGATTCTATCAAAAACAAAGGAA
* *
15932 AGAAAAGCATTTCTTGC-GACACCAAAGCATCAATATCGTA-TATCCTAATGAGAAGACAA-TGT
834 AGAAAAGCATTTCTAGCAG-CACCAAAGCATCAATATC-AAGTATCCTAA--AGAAGACAAGTGT
*
15994 TTATGGTACCTAATACAT-AAAAGAATGG
895 TTATGGTACCCAAT-CATGAAAAGAATGG
16022 GGATTACTAT
Statistics
Matches: 808, Mismatches: 100, Indels: 33
0.86 0.11 0.04
Matches are distributed among these distances:
950 3 0.00
951 70 0.09
952 716 0.89
953 11 0.01
954 8 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (949 bp):
TTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGACAAAGAAAAGATTTCCACGCAAAAGA
AATCATCAATATCATTTATCCTAACGATGAGAATATGTTCATAGTGCCGAATCACAAAATGAATA
AAGATCAATACTAGAATCCATGTCTGTCTCATTTAAGGCACAAACTTAGAATTTACAAAAATTGG
TAGAGAAAAAGCCTTTCTAGAAAACCAAAGAACCAATATCATGCATCCTTATGAGAAGACTGAAT
TTATAGTGCCTAATCTCGAAAAGAATGGGAATGAGTATGACTATTCATATTTGTCTTATTTAAGA
GGCAAAATTTGATTCTATCAAAAATGGTGAAAAGAAAAGCCTTTCTTGCGACACCAAAGCATCAA
TGACAAGTACCCTAATGAAGGGAATGGGTTTTAGGTTCCCAATCCTAAAAAGAATGGAGACTGTT
ACGACAATCAATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAGCAAAATAGGGCATAGAA
AAGATTTCCACGCAAAAGAAAATCATCAATATAAGTTATCCTAATGAGGAGAATGTGCTTATAGC
ACAGAATCACAAAATGAAAGAAGATAAATACTAGAATCCTTGTTTGGCTCATTTGAGGCACGAAC
ATACACATTACAAAAATTGGAGGGAAAAAAGCCTTTCTTAAGAAACCAAAGCACCAATATCGTGC
ATCCTAAGGAGAAGACTAAGTTTATGGTGCCTAATCAAGAAAAGAATGAGGAAGAGCATGAGTAT
TCATGTTTGTCTTATTTAAGAAACAAACTTTGATTCTATCAAAAACAAAGGAAAGAAAAGCATTT
CTAGCAGCACCAAAGCATCAATATCAAGTATCCTAAAGAAGACAAGTGTTTATGGTACCCAATCA
TGAAAAGAATGGAGACCACTACGAGAGTCGATGCTTGTC
Found at i:16164 original size:635 final size:634
Alignment explanation
Indices: 15318--16618 Score: 1814
Period size: 635 Copynumber: 2.0 Consensus size: 634
15308 TCTTAAGAAT
* * * * * *
15318 CCAAAGCACCAATATCATGTATCGTATTGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGA
1 CCAAAGCATCAATATC-TATATCCTAATGAGAAGACTAAGTTTATGGTACCTAATCATGAAAAGA
* * ** *
15383 ATGGGGAAGAGTATATGTATTTATGTTTGTCTTATTTAAGGGACAAACTTTGATTCTATCAAAAA
65 ATGGGGAAGACTATATGTATTCATGTTTGTCTTATTTAAAAGACAAACTTTGACTCTATCAAAAA
* * *
15448 TGGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATTAATGTCAAGTACCCTAATGAAGGGAA
130 TAGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAAGTACCCTAACGAAGGGAA
* *
15513 TGTGTTTTAGGTTCCCAATCCTCAAAAGAATGGAGACTGTTAC-GACAATC-AATCCTTGTCTTA
195 TGTGTTTTAGGTTCCCAATCCTCAAAAGAATAGAGAATGTTACTG-CAATCGAA-CCTTGTCTT-
* * *
15576 TTTAAGGGATGAACATTGATTTTAAGTAAAATAGGGCATAGAAAATATTTCCACGGAA-AAGAAA
257 TTTAAGGGATGAACATTGATTTTAAGGAAAATAGGGCATAGAAAAGATTTCCACGCAATAA-AAA
* *
15640 ATCATCAATATAAGTTATCCTAATGAGGAGAATGTGTTTATAGCACCGAATCACAAAATGAATGA
321 ATCATCAACATAAGTTATCCTAATGAGGAGAATGTGCTTATAGCACCGAATCACAAAATGAATGA
*
15705 AGATTAATACTAGAATCC-TTGTTTGGCTCATTTGAGGCACGAACATAGACATTACAAAAATTGG
386 AGATTAATACTAGAATCCTTTGTTTGGCTCATTTGAGGCACGAACATAGACATTACAAAAATTAG
* * * *
15769 TGGGAAAAAAGCCTTTCTTACGAAACCAATGCACCAATATCGTGTATCCT-ATTGAGAAGACTAA
451 TGGAAAAAAAGCCTTTCTTAAGAAACCAAAGCACCAATATCGTGGATCCTAATT-AGAAGACTAA
*
15833 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGCATGTGTATTCATGTTTGTCTTATTTAA
515 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGCATATGTATTCATGTTTGTCTTATTTAA
**
15898 GAAACAAACTTTGATTTTATCA-AAAACAAAGGAAAGAAAAGCATTTCTTGCGACA
580 GAAACAAACTTTGATTCGA-CAGAAAACAAAGGAAAGAAAAGCATTTCTTGCGACA
15953 CCAAAGCATCAATATCGTATATCCTAATGAGAAGAC-AATGTTTATGGTACCTAATACAT-AAAA
1 CCAAAGCATCAATATC-TATATCCTAATGAGAAGACTAA-GTTTATGGTACCTAAT-CATGAAAA
**
16016 GAATGGGGATTACTATTAT-TATTCATGTTTGTCTTATTTAAAAGACAAACTTTGAC-CTTATCA
63 GAATGGGGAAGACTA-TATGTATTCATGTTTGTCTTATTTAAAAGACAAACTTTGACTC-TATCA
* *
16079 AAAATAGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATA-TATCCTAACGAA
126 AAAATAGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCA-AGTACCCTAACGAA
* * * *
16143 GGGAATGTGTTTTAGGTTCCCAATCCTGAAAAGAATAGAGAATGTTACTGGAATCGAAGCTTGTG
190 GGGAATGTGTTTTAGGTTCCCAATCCTCAAAAGAATAGAGAATGTTACTGCAATCGAACCTTGTC
* * * * *
16208 TTTTTATGGGATGTACTTTGATTTTAAGGAAAATAGGGCATGGAAAAGATTTCCATGCAATAAAA
255 TTTTTAAGGGATGAACATTGATTTTAAGGAAAATAGGGCATAGAAAAGATTTCCACGCAATAAAA
* * * ** *
16273 AATCATCAACATCATTTATCCTAATGAGGAGAATGTGCTTGTAGTGCCGAATGACAAAATGAATG
320 AATCATCAACATAAGTTATCCTAATGAGGAGAATGTGCTTATAGCACCGAATCACAAAATGAATG
* **
16338 AAGATTAATACTAGAATCCTTTGTTTGGCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTA
385 AAGATTAATACTAGAATCCTTTGTTTGGCTCATTTGAGGCACGAACATAGACATTACAAAAATTA
* * * *
16403 GTGGAAAAAAAGCTTTTCTTAAGAAACTAAAGCACCAATATCGTGGATCCTAATTAGTAGACTAT
450 GTGGAAAAAAAGCCTTTCTTAAGAAACCAAAGCACCAATATCGTGGATCCTAATTAGAAGACTAA
*
16468 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGCTTATGTATTCATGTTTGTCTTATTTAA
515 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGCATATGTATTCATGTTTGTCTTATTTAA
* **** * *
16533 GAGACAAACTTTGATTCGACAGAAAATGGTGGAAAGAAAAGCTTTTCTTGCGTCA
580 GAAACAAACTTTGATTCGACAGAAAACAAAGGAAAGAAAAGCATTTCTTGCGACA
* *
16588 CCAAAGCATCAATGTCAAGTATCCTAATGAG
1 CCAAAGCATCAATATCTA-TATCCTAATGAG
16619 GGGAATGTGT
Statistics
Matches: 588, Mismatches: 66, Indels: 24
0.87 0.10 0.04
Matches are distributed among these distances:
634 134 0.23
635 442 0.75
636 12 0.02
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (634 bp):
CCAAAGCATCAATATCTATATCCTAATGAGAAGACTAAGTTTATGGTACCTAATCATGAAAAGAA
TGGGGAAGACTATATGTATTCATGTTTGTCTTATTTAAAAGACAAACTTTGACTCTATCAAAAAT
AGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCAAGTACCCTAACGAAGGGAAT
GTGTTTTAGGTTCCCAATCCTCAAAAGAATAGAGAATGTTACTGCAATCGAACCTTGTCTTTTTA
AGGGATGAACATTGATTTTAAGGAAAATAGGGCATAGAAAAGATTTCCACGCAATAAAAAATCAT
CAACATAAGTTATCCTAATGAGGAGAATGTGCTTATAGCACCGAATCACAAAATGAATGAAGATT
AATACTAGAATCCTTTGTTTGGCTCATTTGAGGCACGAACATAGACATTACAAAAATTAGTGGAA
AAAAAGCCTTTCTTAAGAAACCAAAGCACCAATATCGTGGATCCTAATTAGAAGACTAAGTTTAT
GGTGCCTAATCGTGAAAAGAATGGGGAAGAGCATATGTATTCATGTTTGTCTTATTTAAGAAACA
AACTTTGATTCGACAGAAAACAAAGGAAAGAAAAGCATTTCTTGCGACA
Found at i:16400 original size:952 final size:949
Alignment explanation
Indices: 14176--16422 Score: 2176
Period size: 952 Copynumber: 2.4 Consensus size: 949
14166 TATTTTAAGG
* * * * * *
14176 AAAATAGGGCAAAGAAAAGATTT-CCATGCAAAA-GAAATCATCAATATCATTTATCCTAACGAT
1 AAAATAGGACAAAGAAAAG-TTTGCCACGCAAAACAAAAGCATCAATATCATATATCCTAACGAA
* * * * * * ** * *
14239 GAGAATATGTTCATAGTGCCGAATCACAAAATGAATGAAGATTAATACTAGAATCCTTGTTTGTC
65 GAGGATGTGTTCATAGTGCCCAATCACAAAATGAATAAAGATCAATACTGGAATCCAAGTCTGTT
* * * * * * ** **
14304 TCATTTAAGGCACAAAGTTAGAATTTACAAAAATTGGT-AGAGGGAAAGCCTTTCT--AGCAA-A
130 TTATTTGAGGCACGAACTTAGACTTTACAAAAATAGGTGAGA-AAAAAGGATTTCTCAAG-AATA
* * * * * * * * * *
14365 ACCAAAGAATCAATATCGTGCATCCTTATGAGAAGAGT--GCATTTATATTGCCTAATC-TCGAA
193 A--AAAGCACCAACATCATGTATCCTAATGAGAAGAATAAGC--TTATAGTGCCGAATCGAC-AA
* * * * * * *
14427 AAGAATGGGA-ATTAGTATGACTATTCATATTTGTCTTATTTAAGAGGCA-AAA-TTTGATTCTA
253 AAGAATGGAAGAGTA-TATGA--ATTTATGTTTGGCTCATTT-A-AGGCACAAACTTAGATTCTA
* **
14489 TCAAAAATGGTGAAAAGAAAAGCCTTTCTTGCGACACCAAAGCATCAATGACAAGTGTCCTAATG
313 TCAAAAATGGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGACAAGTACCCTAATG
* *
14554 AAGGGAATGGGTTTTAGGTTCCCAATCCTAAAAAGAATGGAGACTGTTACGAGAATCGATCCTTG
378 AAGGGAATGGGTTTTAGGTTCCCAATCCTAAAAAGAATGGAGACTGTTACGACAATCAATCCTTG
* * * *
14619 TCTTGTTTAAGGGATGAACATTGATTTTAGGCAAAATATGGCATAGAAAAGATTTCTACGCAAAA
443 TCTTATTTAAGGGATGAACATTGATTTTAAGCAAAATAGGGCATAGAAAAGATTTCCACGCAAAA
* * * ** *
14684 GAAAATCATTAATATTATTTATCCTAATGAGGAGAATGTGCTTATAGTGCATAATCACAAAATGA
508 GAAAATCATCAATATAAGTTATCCTAATGAGGAGAATGTGCTTATAGCACAGAATCACAAAATGA
* * * *
14749 AAGAAGATAAATACTTGAATCCTTGTTTGGCTCATTTGAGGCATGAACTTACACTTTACAAAAAT
573 AAGAAGATAAATACTAGAATCCTTGTTTGGCTCATTTGAGGCACGAACATACACATTACAAAAAT
* * *
14814 TGGAGGGAAAAAAGCTTTTGTTAAGAAACCAAAGCACCAATATCGTGCATCCTAAGGCGAAGACT
638 TGGAGGGAAAAAAGCCTTTCTTAAGAAACCAAAGCACCAATATCGTGCATCCTAAGGAGAAGACT
* * *
14879 AAGTTTATGGTGCCTAATCAAGAAAAGAATGAGGAATAGTATGAGTATTCTTGTTTGTCTTATTT
703 AAGTTTATGGTGCCTAATCAAGAAAAGAATGAGGAAGAGCATGAGTATTCATGTTTGTCTTATTT
** * ** * *
14944 AAGAGTCGAACTTTGATTCTATCAAAAACAGTGGAAAGAAAGGCTTTTCTAGCAGCACCAAAGCA
768 AAGAAACAAACTTTGATTCTATCAAAAACAAAGGAAAGAAAAGCATTTCTAGCAGCACCAAAGCA
* * * *
15009 TCAATATCAAGTATCCTAAAGAAGAGAATGTGTTTTTGGTTCCCAATCCTGAAAAGAATGGAGAC
833 TCAATATCAAGTATCCTAAAGAAGACAA-GTGTTTATGGTACCCAATCATGAAAAGAATGGAGAC
* ** ** ** **
15074 CATTACGAGAGTCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGG
897 CACTACGAGAGTCGATGCTTGTCTTATTTAAAAGACAAACTTTGACCTTAACA
* * * ** *
15127 AAAATAGGACAAAGAAAAGTTTGCCACGCAAAAGAAAATCATCAATATCATTTATCCTAGTGTAG
1 AAAATAGGACAAAGAAAAGTTTGCCACGCAAAACAAAAGCATCAATATCATATATCCTAACGAAG
* *
15192 AGGATGTGTTCATAGTGCCTAATCACAAAATGAATAAAGATCAATACTGGAATCCATGTCTGTTT
66 AGGATGTGTTCATAGTGCCCAATCACAAAATGAATAAAGATCAATACTGGAATCCAAGTCTGTTT
* * * **
15257 TATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGAGAAAAAAGGTTTTCTTAAGAATCCAA
131 TATTTGAGGCACGAACTTAGACTTTACAAAAATAGGTGAGAAAAAAGGATTTCTCAAGAATAAAA
* * * * * * * **
15322 AGCACCAATATCATGTATCGTATTGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGAATGG
196 AGCACCAACATCATGTATCCTAATGAGAAGAATAAGCTTATAGTGCCGAATCGACAAAAGAAT--
* * * * *
15387 GGAAGAGTATATGTATTTATGTTTGTCTTATTTAAGGGACAAACTTTGATTCTATCAAAAATGGT
259 GGAAGAGTATATGAATTTATGTTTGGCTCATTTAAGGCACAAACTTAGATTCTATCAAAAATGGT
* * *
15452 GAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATTAATGTCAAGTACCCTAATGAAGGGAATGTG
324 GAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGACAAGTACCCTAATGAAGGGAATGGG
*
15517 TTTTAGGTTCCCAATCCTCAAAAGAATGGAGACTGTTACGACAATCAATCCTTGTCTTATTTAAG
389 TTTTAGGTTCCCAATCCTAAAAAGAATGGAGACTGTTACGACAATCAATCCTTGTCTTATTTAAG
* * *
15582 GGATGAACATTGATTTTAAGTAAAATAGGGCATAGAAAATATTTCCACGGAAAAGAAAATCATCA
454 GGATGAACATTGATTTTAAGCAAAATAGGGCATAGAAAAGATTTCCACGCAAAAGAAAATCATCA
* * * *
15647 ATATAAGTTATCCTAATGAGGAGAATGTGTTTATAGCACCGAATCACAAAATGAATGAAGATTAA
519 ATATAAGTTATCCTAATGAGGAGAATGTGCTTATAGCACAGAATCACAAAATGAAAGAAGATAAA
* *
15712 TACTAGAATCCTTGTTTGGCTCATTTGAGGCACGAACATAGACATTACAAAAATTGGTGGGAAAA
584 TACTAGAATCCTTGTTTGGCTCATTTGAGGCACGAACATACACATTACAAAAATTGGAGGGAAAA
* * * **
15777 AAGCCTTTCTTACGAAACCAATGCACCAATATCGTGTATCCTATTGAGAAGACTAAGTTTATGGT
649 AAGCCTTTCTTAAGAAACCAAAGCACCAATATCGTGCATCCTAAGGAGAAGACTAAGTTTATGGT
** * *
15842 GCCTAATCGTGAAAAGAATGGGGAAGAGCATGTGTATTCATGTTTGTCTTATTTAAGAAACAAAC
714 GCCTAATCAAGAAAAGAATGAGGAAGAGCATGAGTATTCATGTTTGTCTTATTTAAGAAACAAAC
* * *
15907 TTTGATTTTATCAAAAACAAAGGAAAGAAAAGCATTTCTTGC-GACACCAAAGCATCAATATCGT
779 TTTGATTCTATCAAAAACAAAGGAAAGAAAAGCATTTCTAGCAG-CACCAAAGCATCAATATC-A
* * ** **
15971 A-TATCCTAATGAGAAGACAA-TGTTTATGGTACCTAATACAT-AAAAGAATGGGGATTACTATT
842 AGTATCCTAA--AGAAGACAAGTGTTTATGGTACCCAAT-CATGAAAAGAATGGAGACCACTACG
* * * *
16033 ATTATTC-ATGTTTGTCTTATTTAAAAGACAAACTTTGACCTTATCA
904 A-GAGTCGATGCTTGTCTTATTTAAAAGACAAACTTTGACCTTAACA
* * ** * * * *
16079 AAAATAGTG-GAAAGAAAAGCTTT-TCTTGCGACACCAAAGCATCAATGTCATATATCCTAACGA
1 AAAATAG-GACAAAGAAAAG-TTTGCCACGCAAAACAAAAGCATCAATATCATATATCCTAACGA
* * * ** *
16142 AG-GGAATGTGTT-TTAGGTTCCCAATC-CTGAAAA-GAATAGAGAAT-GTTACTGGAATCGAAG
64 AGAGG-ATGTGTTCATA-GTGCCCAATCAC--AAAATGAATAAAG-ATCAATACTGGAATCCAAG
* * * * *
16202 -CTTGTGTTT-TTATG-GG-ATGTACTTTGATTTTA-AGGAAAATAGG-GCATG-GAAAA-GATT
124 TC-TGT-TTTATT-TGAGGCACGAACTTAGACTTTACA--AAAATAGGTG-A-GAAAAAAGGATT
* * * * * ** *
16259 TC-CATGCAATAAAAAATCATCAACATCATTTATCCTAATGAGGAGAATGTGCTTGTAGTGCCGA
182 TCTCAAG-AAT-AAAAAGCACCAACATCATGTATCCTAATGAGAAGAATAAGCTTATAGTGCCGA
* * *
16323 AT-GACAAAATGAAT-GAAGATTAATACTAGAATCCTT-TGTTTGGCTCATTTGAGGCACGAACT
245 ATCGACAAAA-GAATGGAAGAGT-ATA-T-GAAT--TTATGTTTGGCTCATTTAAGGCACAAACT
* * *
16385 TAGATTTTA-CAAAAATTAGTGGAAA-AAAAGCTTTTCTT
304 TAGATTCTATCAAAAA-TGGTGAAAAGAAAAGCTTTTCTT
16423 AAGAAACTAA
Statistics
Matches: 1068, Mismatches: 185, Indels: 85
0.80 0.14 0.06
Matches are distributed among these distances:
949 6 0.01
950 13 0.01
951 65 0.06
952 898 0.84
953 63 0.06
954 20 0.02
955 3 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (949 bp):
AAAATAGGACAAAGAAAAGTTTGCCACGCAAAACAAAAGCATCAATATCATATATCCTAACGAAG
AGGATGTGTTCATAGTGCCCAATCACAAAATGAATAAAGATCAATACTGGAATCCAAGTCTGTTT
TATTTGAGGCACGAACTTAGACTTTACAAAAATAGGTGAGAAAAAAGGATTTCTCAAGAATAAAA
AGCACCAACATCATGTATCCTAATGAGAAGAATAAGCTTATAGTGCCGAATCGACAAAAGAATGG
AAGAGTATATGAATTTATGTTTGGCTCATTTAAGGCACAAACTTAGATTCTATCAAAAATGGTGA
AAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGACAAGTACCCTAATGAAGGGAATGGGTT
TTAGGTTCCCAATCCTAAAAAGAATGGAGACTGTTACGACAATCAATCCTTGTCTTATTTAAGGG
ATGAACATTGATTTTAAGCAAAATAGGGCATAGAAAAGATTTCCACGCAAAAGAAAATCATCAAT
ATAAGTTATCCTAATGAGGAGAATGTGCTTATAGCACAGAATCACAAAATGAAAGAAGATAAATA
CTAGAATCCTTGTTTGGCTCATTTGAGGCACGAACATACACATTACAAAAATTGGAGGGAAAAAA
GCCTTTCTTAAGAAACCAAAGCACCAATATCGTGCATCCTAAGGAGAAGACTAAGTTTATGGTGC
CTAATCAAGAAAAGAATGAGGAAGAGCATGAGTATTCATGTTTGTCTTATTTAAGAAACAAACTT
TGATTCTATCAAAAACAAAGGAAAGAAAAGCATTTCTAGCAGCACCAAAGCATCAATATCAAGTA
TCCTAAAGAAGACAAGTGTTTATGGTACCCAATCATGAAAAGAATGGAGACCACTACGAGAGTCG
ATGCTTGTCTTATTTAAAAGACAAACTTTGACCTTAACA
Found at i:16494 original size:952 final size:939
Alignment explanation
Indices: 14584--17445 Score: 2179
Period size: 952 Copynumber: 3.0 Consensus size: 939
14574 CCCAATCCTA
* * *
14584 AAAAGAATGGAGACTGTTACGAGAATCGATCCTTGTCTTGTTTAAGGGATGAACATTGATTTTAG
1 AAAAGAATGGAGACTGTTACGACAATC-ATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAA
* * * * * *
14649 GCAAAATATGGCATAGAAAAGATTTCTACGCAAAAGAAAATCATTAATATTATTTATCCTAATGA
65 G-AAAATAGGGCATAGAAAAGATTTCCACGGAAAAGAAAATCATCAATATAAGTTATCCTAATGA
* * ** * * *
14714 GGAGAATGTGCTTATAGTGCATAATCACAAAATGAAAGAAGATAAATACTTGAATCCTTGTTTGG
129 GGAGAATGTGTTTATAGTACCCAATCACAAAATGAATGAAGATTAATACTAGAATCCTTGTTTGG
* * * *
14779 CTCATTTGAGGCATGAACTTACACTTTACAAAAATTGGAGGGAAAAAAGCTTTTGTTAAGAAACC
194 CTCATTTGAGGCATGAACTTAGACATTACAAAAATTGG-GGGAAAAAAGCATTT-TTACGAAACC
* * * * *
14844 AAAGCACCAATATCGTGCATCCTAAGGCGAAGACTAAGTTTATGGTGCCTAATCAAGAAAAGAAT
257 AATGCACCAATATCGTGTATCCTAATGAGAAGACTAAGTTTATGGTGCCTAATC-TGAAAAGAAT
* * * ** *
14909 GAGGAATAGTATGAGTATTCTTGTTTGTCTTATTTAAGAGTCGAACTTTGATTCTATCAAAAACA
321 G-GGAAGAGAATGTGTATTCTTGTTTGTCTTATTTAAGAAACGAACTTTGATTTTATCAAAAACA
** * * * * *
14974 GTGGAAAGAAAGGCTTTTCTAGC-AGCACCAAAGCATCAATATC-AAGTATCCTAA--AGAAGAG
385 AAGGAAAGAAAAGCATTTCTTGCGA-CACCAAAGCATCAATATCGTA-TATCCTAATGAGAAGAC
* * * * * * * ** * *
15035 AATGTGTTTTTGGTTCCCAATCCTGAAAAGAATGGAGACCATTACGAGAGTCGATGCTTGTCTTA
448 AA--TGTTTATGGTACCTAATCATGAAAAGAATGGGGAACACTATTAGATTC-ATGATTGTCTTA
** ** * * * ** * * **
15100 TTTAAGGGATGAACTTTGATTT-TAAGGAAAATAG-GACAAAGAAAAG-TTTGCCACGCAAAAGA
510 TTTAAAAGACAAACTTTGATTTATCA--AAAATAGTG-GAAAGAAAAGCTTT-TCTTGCGACACC
* * * ** * * * *
15162 AAATCATCAATATCATTTATCCTAGTGTAGAGG-ATGTGTTCATA-GTGCCTAATCAC--AAAAT
571 AAAGCATCAATGTCATATATCCTAACGAAG-GGAATGTGTT-TTAGGTTCCCAATC-CTGAAAA-
* * * * * * *
15223 GAATAAAG-ATCAATACTGGAATCCATGTCTGTTTTATT-TGAGGCACGAACTTAGACTTTACA-
632 GAATAGAGAAT-ATTACTGGAATCGATGT-TGTTTT-TTATG-GG-ATGTACTTTGATTTTA-AG
* * * * * ** * * * * * *
15285 -AAAATTGGTG-AGAAAAAAGGTTTTCTTAAGAAT-CCAAAGCACCAATATCATGTATCGTATTG
691 GAAAATAGG-GCAG-GAAAA-GATTTC-CATGAATAAAAAATCATCAACATCATTTATCCTAATG
* * ** * * * ** * *
15347 AGAAGACTAAGTTTATGGTGCCTAATCGTGAAAA-GAATGGGGAAGAGT-ATA-T-GTAT--TTA
752 AGGAGAATGTGCTTATAGTGCCGAAT-GACAAAATGAAT---GAAGATTAATACTAGAATCCTT-
* * * * * * * *
15406 TGTTTGTCTTATTTAAGGGACAAACTTTGATTCTATCAAAAA-TGGTGAAAAGAAAAGCTTTTCT
812 TGTTTGGCTCATTTGAGGCACGAACTTAGATTTTA-CAAAAATTGGTGGAAA-AAAAGCTTTTCT
** * ** * ** * * * * * * *
15470 TGCGACACCAAAGCATTAATGTCAAGTACCCTAATGAAGGGAATGTGTTT-TAGGTTCCCAATCC
875 TAAGAAACCAAAGCACCAATATCGTGTATCCTAAT-AAGAGACTATGTTTAT-GGTGCCTAATCA
*
15534 TC
938 TG
15536 AAAAGAATGGAGACTGTTACGACAATCAATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAA
1 AAAAGAATGGAGACTGTTACGACAATC-ATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAA
*
15601 GTAAAATAGGGCATAGAAAATATTTCCACGGAAAAGAAAATCATCAATATAAGTTATCCTAATGA
65 G-AAAATAGGGCATAGAAAAGATTTCCACGGAAAAGAAAATCATCAATATAAGTTATCCTAATGA
* *
15666 GGAGAATGTGTTTATAGCACCGAATCACAAAATGAATGAAGATTAATACTAGAATCCTTGTTTGG
129 GGAGAATGTGTTTATAGTACCCAATCACAAAATGAATGAAGATTAATACTAGAATCCTTGTTTGG
* * *
15731 CTCATTTGAGGCACGAACATAGACATTACAAAAATTGGTGGGAAAAAAGCCTTTCTTACGAAACC
194 CTCATTTGAGGCATGAACTTAGACATTACAAAAATTGG-GGGAAAAAAGCATTT-TTACGAAACC
*
15796 AATGCACCAATATCGTGTATCCTATTGAGAAGACTAAGTTTATGGTGCCTAATCGTGAAAAGAAT
257 AATGCACCAATATCGTGTATCCTAATGAGAAGACTAAGTTTATGGTGCCTAATC-TGAAAAGAAT
* * *
15861 GGGGAAGAGCATGTGTATTCATGTTTGTCTTATTTAAGAAACAAACTTTGATTTTATCAAAAACA
321 -GGGAAGAGAATGTGTATTCTTGTTTGTCTTATTTAAGAAACGAACTTTGATTTTATCAAAAACA
15926 AAGGAAAGAAAAGCATTTCTTGCGACACCAAAGCATCAATATCGTATATCCTAATGAGAAGACAA
385 AAGGAAAGAAAAGCATTTCTTGCGACACCAAAGCATCAATATCGTATATCCTAATGAGAAGACAA
** * *
15991 TGTTTATGGTACCTAATACAT-AAAAGAATGGGGATTACTATTATTATTCATGTTTGTCTTATTT
450 TGTTTATGGTACCTAAT-CATGAAAAGAATGGGGAACACTATTA-GATTCATGATTGTCTTATTT
*
16055 AAAAGACAAACTTTGACCTTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCA
513 AAAAGACAAACTTTGA-TTTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCA
16120 TCAATGTCATATATCCTAACGAAGGGAATGTGTTTTAGGTTCCCAATCCTGAAAAGAATAGAGAA
577 TCAATGTCATATATCCTAACGAAGGGAATGTGTTTTAGGTTCCCAATCCTGAAAAGAATAGAGAA
* *
16185 TGTTACTGGAATCGAAGCTTGTGTTTTTATGGGATGTACTTTGATTTTAAGGAAAATAGGGCATG
642 TATTACTGGAATCGATG-TTGT-TTTTTATGGGATGTACTTTGATTTTAAGGAAAATAGGGCA-G
*
16250 GAAAAGATTTCCATGCAATAAAAAATCATCAACATCATTTATCCTAATGAGGAGAATGTGCTTGT
704 GAAAAGATTTCCATG-AATAAAAAATCATCAACATCATTTATCCTAATGAGGAGAATGTGCTTAT
16315 AGTGCCGAATGACAAAATGAATGAAGATTAATACTAGAATCCTTTGTTTGGCTCATTTGAGGCAC
768 AGTGCCGAATGACAAAATGAATGAAGATTAATACTAGAATCCTTTGTTTGGCTCATTTGAGGCAC
* *
16380 GAACTTAGATTTTACAAAAATTAGTGGAAAAAAAGCTTTTCTTAAGAAACTAAAGCACCAATATC
833 GAACTTAGATTTTACAAAAATTGGTGGAAAAAAAGCTTTTCTTAAGAAACCAAAGCACCAATATC
* * *
16445 GTGGATCCTAATTAGTAGACTATGTTTATGGTGCCTAATCGTG
898 GTGTATCCTAATAAG-AGACTATGTTTATGGTGCCTAATCATG
* ** * * * ** * ** * **
16488 AAAAGAATGGGGAAGAGCTTATG-TATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCGA
1 AAAAGAATGGAG-ACTG-TTACGACAATCATCCTTGTCTTATTTAAGGGATGAACATTGATTTTA
* * * * ** ** ** * *
16552 CAGAAAAT-GGTGGAAAGAAAAGCTTTTCTTGCG-TCACCAAAGCATCAATGTCAAG-TATCCTA
64 -AGAAAATAGG-GCATAGAAAAGATTTCCACG-GAAAAGAAAATCATCAATAT-AAGTTATCCTA
* * ** * * * * *
16614 ATGAGGGGAATGTGTTT-TAGGTTCCCAATC-CTGAAAAAAAAATGTAGACTATTACGAGAATCG
125 ATGAGGAGAATGTGTTTATA-GTACCCAATCAC---AAAATGAATGAAGATTAATACTAGAATCC
* ** *** * * * * * * *
16677 ATCCTAATCTTATTTAAGGGATGAACTTTG--ATT-CTAAGTAAAATAGGGCATAGAAAAG-ATT
186 TTGTTTGGCTCATTTGAGGCATGAACTTAGACATTAC-AA--AAATTGGGGGA-A-AAAAGCATT
* ** * * * * * ** * **
16738 TTCACGCAAAAGAAAAT-CATCAATGTCATTTATCCTAATGAGGAA-AATGTGTTTATAGTGTGT
246 TTTACG--AAA-CCAATGCACCAATATCGTGTATCCTAATGA-GAAGACTAAGTTTATGGTGCCT
* * * ** * * * * **
16801 AATCTCAAAATGAAT--GAAGATAAATACTAAAATCCTTGTTTGGCTCATTTGAGGCACGAACTT
307 AATCTGAAAA-GAATGGGAAGA-GAAT-GT-GTATTCTTGTTTGTCTTATTTAAGAAACGAACTT
** * * **** * * ** * * * *
16864 ACACTTAAT-AAAAATTGGTGGGAAA-AAAA-CCTTACTTAAGAAACCAAAGCACCAATATTGTG
368 TGATTTTATCAAAAA--CAAAGGAAAGAAAAGCATTTCTTGCGACACCAAAGCATCAATATCGTA
* * * * * *
16926 TATCCAAATGAGAAGACTAGGTTTATGGTCCCTAATCATGAAAAGAATGGGGAAGAGTATGTAGA
431 TATCCTAATGAGAAGACAATGTTTATGGTACCTAATCATGAAAAGAATGGGGAACACTAT-TAGA
* ** * *
16991 TTCATGATTGTCTTATTTAAAAGACAAACTTTGATTCTATCCAAAACGGTGGAAAAAAAAGCTTG
495 TTCATGATTGTCTTATTTAAAAGACAAACTTTGATT-TATCAAAAATAGTGGAAAGAAAAGCTTT
* * * * *
17056 TCTTGCGACCCCAAAGCATCAATGTCTTGTATCCT-ACGAAGGGAATGTGTTTTTGGCTCCCAAT
559 TCTTGCGACACCAAAGCATCAATGTCATATATCCTAACGAAGGGAATGTGTTTTAGGTTCCCAAT
* * *
17120 CCTGAAAAGAATGGAGACTATTA-TGAGAATCGATG-TGTCTTATTTAAGGGATGTACTTTGATT
624 CCTGAAAAGAATAGAGAATATTACTG-GAATCGATGTTGT-TT-TTTATGGGATGTACTTTGATT
* * * *
17183 TTAAGGAAAATAGGGCAAAGAAATGATTTTCATGTAA-AAAAAATTATCAACATCATTTATCCTA
686 TTAAGGAAAATAGGGC-AGGAAAAGATTTCCATG-AATAAAAAATCATCAACATCATTTATCCTA
* *
17247 GTGAGGAGAATGTGCTTATAGTGCCGAATCACAAAATGAATGAAGATTAATACTAGAATCC-TTG
749 ATGAGGAGAATGTGCTTATAGTGCCGAATGACAAAATGAATGAAGATTAATACTAGAATCCTTTG
* * *
17311 TTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAATTTGGT-GAGAAAAAAGCCTTTT-TTA
814 TTTGGCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTGGTGGA-AAAAAAG-CTTTTCTTA
* * *
17374 AGAAACCAAAGCACCAATATCGTGTATCCTAATGAGAAGACTAAGTTTATGGTGGCTAATCATG
877 AGAAACCAAAGCACCAATATCGTGTATCCTAATAAG-AGACTATGTTTATGGTGCCTAATCATG
17438 AAAAGAAT
1 AAAAGAAT
17446 AGGGAAGAGT
Statistics
Matches: 1552, Mismatches: 291, Indels: 136
0.78 0.15 0.07
Matches are distributed among these distances:
949 8 0.01
950 124 0.08
951 134 0.09
952 811 0.52
953 143 0.09
954 239 0.15
955 82 0.05
956 11 0.01
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (939 bp):
AAAAGAATGGAGACTGTTACGACAATCATCCTTGTCTTATTTAAGGGATGAACATTGATTTTAAG
AAAATAGGGCATAGAAAAGATTTCCACGGAAAAGAAAATCATCAATATAAGTTATCCTAATGAGG
AGAATGTGTTTATAGTACCCAATCACAAAATGAATGAAGATTAATACTAGAATCCTTGTTTGGCT
CATTTGAGGCATGAACTTAGACATTACAAAAATTGGGGGAAAAAAGCATTTTTACGAAACCAATG
CACCAATATCGTGTATCCTAATGAGAAGACTAAGTTTATGGTGCCTAATCTGAAAAGAATGGGAA
GAGAATGTGTATTCTTGTTTGTCTTATTTAAGAAACGAACTTTGATTTTATCAAAAACAAAGGAA
AGAAAAGCATTTCTTGCGACACCAAAGCATCAATATCGTATATCCTAATGAGAAGACAATGTTTA
TGGTACCTAATCATGAAAAGAATGGGGAACACTATTAGATTCATGATTGTCTTATTTAAAAGACA
AACTTTGATTTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCA
TATATCCTAACGAAGGGAATGTGTTTTAGGTTCCCAATCCTGAAAAGAATAGAGAATATTACTGG
AATCGATGTTGTTTTTTATGGGATGTACTTTGATTTTAAGGAAAATAGGGCAGGAAAAGATTTCC
ATGAATAAAAAATCATCAACATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCGAATGAC
AAAATGAATGAAGATTAATACTAGAATCCTTTGTTTGGCTCATTTGAGGCACGAACTTAGATTTT
ACAAAAATTGGTGGAAAAAAAGCTTTTCTTAAGAAACCAAAGCACCAATATCGTGTATCCTAATA
AGAGACTATGTTTATGGTGCCTAATCATG
Found at i:16630 original size:159 final size:157
Alignment explanation
Indices: 14881--17567 Score: 716
Period size: 159 Copynumber: 16.9 Consensus size: 157
14871 CGAAGACTAA
** * * *
14881 GTTTATGGTGCCTAATCAAGAAAAGAATGAGGAATAG-TATGAGTATTCTTGTTTGTCTTATTTA
1 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGTTAT--GTATTCATGTTTGTCTTATTTA
* * * ** * *
14945 AGAGTCGAACTTTGATTCTATCAAAAACAGTGGAAAGAAAGGCTTTTCTAGC-AGCACCAAAGCA
64 AGAGACAAACTTTGATTTTA-CAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGA-CACCAAAGCA
* *
15009 TCAATATCAAGTATCCTAAAGAAGAGAATGT
127 TCAATATCAAGTATCCTAATGAGGAGAATGT
* * * * * ** * * * *
15040 GTTTTTGGTTCCCAATCCTGAAAAGAATGGAGACCA-TTACGAGAGTCGATGCTTGTCTTATTTA
1 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGTTATG-TATTC-ATGTTTGTCTTATTTA
* ** ** * ** * * ** *
15104 AGGGATGAACTTTGATTTTA-AGGAAAATAGG-ACAAAGAAAAG-TTTGCCACGCAAAAGAAAAT
64 AGAGACAAACTTTGATTTTACA--AAAAT-GGTGGAAAGAAAAGCTTT-TCTTGCGACACCAAAG
** * *
15166 CATCAATATCATTTATCCTAGTGTA-GAGGATGT
125 CATCAATATCAAGTATCCTAATG-AGGAGAATGT
* * ** *** ** * * * * *
15199 GTTCATAGTGCCTAATC-ACAAAATGAATAAAGATCA-ATACTGGAATCCATGTCTGTTTTATTT
1 GTTTATGGTGCCTAATCGTGAAAA-GAATGGGGAAGAGTTA-T-GTATTCATGTTTGTCTTATTT
* * * * * **
15262 GAG-GCACGAACTTAGACTTTACAAAAATTGGT-GAGAA-AAAAGGTTTTCTTAAGA-ATCCAAA
63 AAGAG-ACAAACTTTGATTTTACAAAAA-TGGTGGA-AAGAAAAGCTTTTCTTGCGACA-CCAAA
* * * * * * **
15323 GCACCAATATCATGTATCGTATTGAGAAGACTAA
124 GCATCAATATCAAGTATCCTAATGAGGAGAATGT
*
15357 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGTATATGTATTTATGTTTGTCTTATTTAA
1 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGT-TATGTATTCATGTTTGTCTTATTTAA
* * * *
15422 GGGACAAACTTTGATTCTATCAAAAATGGTGAAAAGAAAAGCTTTTCTTGCGACACCAAAGCATT
65 GAGACAAACTTTGATTTTA-CAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
* *
15487 AATGTCAAGTACCCTAATGAAGG-GAATGT
129 AATATCAAGTATCCTAATG-AGGAGAATGT
* * * * * ** * * * **
15516 GTTT-TAGGTTCCCAATCCTCAAAAGAATGGAG-ACTGTTACGACAATCAATCCTTGTCTTATTT
1 GTTTAT-GGTGCCTAATCGTGAAAAGAATGGGGAAGAGTTATG-TATTC-ATGTTTGTCTTATTT
* ** * * * ** * ** * **
15579 AAGGGATGAACATTGATTTTA-AGTAAAATAGG-GCATAGAAAATATTTCCACG-GAAAAGAAAA
63 AAGAGACAAACTTTGATTTTACA--AAAAT-GGTGGAAAGAAAAGCTTTTCTTGCG-ACACCAAA
*
15641 TCATCAATAT-AAGTTATCCTAATGAGGAGAATGT
124 GCATCAATATCAAG-TATCCTAATGAGGAGAATGT
* ** * ** * * * * * *
15675 GTTTATAGCACCGAATC-ACAAAATGAAT---GAAGATTAATACTAGAATCCTTGTTTGGCTCAT
1 GTTTATGGTGCCTAATCGTGAAAA-GAATGGGGAAGAGT--TA-T-GTATTCATGTTTGTCTTAT
* * * * ** * * * * *
15736 TTGAG-GCACGAACATAGACATTACAAAAATTGGTGGGAA-AAAAGCCTTTCTTACGAAACCAAT
61 TTAAGAG-ACAAACTTTGATTTTACAAAAA-TGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAA
* ** * * * **
15799 GCACCAATATCGTGTATCCTATTGAGAAGACTAA
124 GCATCAATATCAAGTATCCTAATGAGGAGAATGT
* *
15833 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGCATGTGTATTCATGTTTGTCTTATTTAA
1 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAG-TTATGTATTCATGTTTGTCTTATTTAA
* **** *
15898 GAAACAAACTTTGATTTTATCAAAAACAAAGGAAAGAAAAGCATTTCTTGCGACACCAAAGCATC
65 GAGACAAACTTTGATTTTA-CAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
* * *
15963 AATATCGTA-TATCCTAATGAGAAGACA-AT
129 AATATC-AAGTATCCTAATGAGGAGA-ATGT
* * *
15992 GTTTATGGTACCTAATACAT-AAAAGAATGGGGATTACTA-TTAT-TATTCATGTTTGTCTTATT
1 GTTTATGGTGCCTAAT-CGTGAAAAGAATGGGGA--A-GAGTTATGTATTCATGTTTGTCTTATT
* ** *
16054 TAAAAGACAAACTTTGACCTTATCAAAAATAGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGC
62 TAAGAGACAAACTTTGATTTTA-CAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGC
* *
16119 ATCAATGTCATA-TATCCTAACGAAGG-GAATGT
126 ATCAATATCA-AGTATCCTAATG-AGGAGAATGT
* * * * * * * * * * *
16151 GTTT-TAGGTTCCCAATCCTGAAAAGAATAGAGAA-TGTTACTGGAATCGAAGCTTGTGTT-TTT
1 GTTTAT-GGTGCCTAATCGTGAAAAGAATGGGGAAGAGTTA-TGTATTC-ATGTTTGTCTTATTT
* * *** * ** * * * * * ** *
16213 ATGGGATGTACTTTGATTTTA-AGGAAAATAGG-GCATGGAAAAGATTTCCATGCAATAAAAAAT
63 AAGAGACAAACTTTGATTTTACA--AAAAT-GGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAG
* **
16276 CATCAACATCATTTATCCTAATGAGGAGAATGT
125 CATCAATATCAAGTATCCTAATGAGGAGAATGT
* * * * ** * * * * * *
16309 GCTTGTAGTGCCGAAT-GACAAAATGAAT---GAAGATTAATACTAGAATCCTTTGTTTGGCTCA
1 GTTTATGGTGCCTAATCGTGAAAA-GAATGGGGAAGAGT--TA-T-GTATTC-ATGTTTGTCTTA
* * * * ** * *
16370 TTTGAG-GCACGAACTTAGATTTTACAAAAATTAGTGGAAA-AAAAGCTTTTCTTAAGAAACTAA
60 TTTAAGAG-ACAAACTTTGATTTTACAAAAA-TGGTGGAAAGAAAAGCTTTTCTTGCGACACCAA
* ** * * * * *
16433 AGCACCAATATCGTGGATCCTAATTAGTAGACTAT
123 AGCATCAATATCAAGTATCCTAATGAGGAGAATGT
16468 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGCTTATGTATTCATGTTTGTCTTATTTAA
1 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAG-TTATGTATTCATGTTTGTCTTATTTAA
** *
16533 GAGACAAACTTTGATTCGACAGAAAATGGTGGAAAGAAAAGCTTTTCTTGCGTCACCAAAGCATC
65 GAGACAAACTTTGATTTTACA-AAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
* *
16598 AATGTCAAGTATCCTAATGAGGGGAATGT
129 AATATCAAGTATCCTAATGAGGAGAATGT
* * * * ** ** * * * ** **
16627 GTTT-TAGGTTCCCAATCCTGAAAAAAAAATGTAGACTA-TTACGAGAATCGATCCTAATCTTAT
1 GTTTAT-GGTGCCTAATCGTG--AAAAGAATGGGGAAGAGTTATG-TATTC-ATGTTTGTCTTAT
* ** * * * * ** * * **
16690 TTAAGGGATGAACTTTGATTCTA-AGTAAAATAGG-GCATAGAAAAGATTTTCACGCAAAAGAAA
61 TTAAGAGACAAACTTTGATTTTACA--AAAAT-GGTGGAAAGAAAAGCTTTTCTTGCGACACCAA
* * ** *
16753 ATCATCAATGTCATTTATCCTAATGAGGAAAATGT
123 AGCATCAATATCAAGTATCCTAATGAGGAGAATGT
* ** * ** * ** * * * *
16788 GTTTATAGTGTGTAATC-TCAAAATGAATGAAGATA-A-ATACTAAAATCCTTGTTTGGCTCATT
1 GTTTATGGTGCCTAATCGTGAAAA-GAATGGGGA-AGAGTTA-T-GTATTCATGTTTGTCTTATT
* * ** * * * * * ** *
16850 TGAG-GCACGAACTTACACTTAATAAAAATTGGTGGGAAA-AAAA-CCTTACTTAAGAAACCAAA
62 TAAGAG-ACAAACTTTGATTTTACAAAAA-TGGT-GGAAAGAAAAGCTTTTCTTGCGACACCAAA
* *** * * *
16912 GCACCAATATTGTGTATCCAAATGAGAAGACTAG-
124 GCATCAATATCAAGTATCCTAATGAGGAGAAT-GT
* * *
16946 GTTTATGGTCCCTAATCATGAAAAGAATGGGGAAGAG-TATGTAGATTCATGATTGTCTTATTTA
1 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGTTATGT--ATTCATGTTTGTCTTATTTA
* * * * * * *
17010 AAAGACAAACTTTGATTCTATCCAAAACGGTGGAAAAAAAAGCTTGTCTTGCGACCCCAAAGCAT
64 AGAGACAAACTTTGATTTTA-CAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCAT
* ** *
17075 CAATGTCTTGTATCCT-ACGAAGG-GAATGT
128 CAATATCAAGTATCCTAATG-AGGAGAATGT
* * * * ** * *
17104 GTTTTTGGCT-CCCAATCCTGAAAAGAATGGAGACTA-TTATGAGAATCGATG--TGTCTTATTT
1 GTTTATGG-TGCCTAATCGTGAAAAGAATGGGGAAGAGTTATG-TATTC-ATGTTTGTCTTATTT
* *** * * * * * * ** *
17165 AAGGGATGTACTTTGATTTTA-AGGAAAATAGG-GCAAAGAAATGATTTTCATG-TAAAAAAAAT
63 AAGAGACAAACTTTGATTTTACA--AAAAT-GGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAG
* * ** *
17227 TATCAACATCATTTATCCTAGTGAGGAGAATGT
125 CATCAATATCAAGTATCCTAATGAGGAGAATGT
* * * ** * * * * * *
17260 GCTTATAGTGCCGAATC-ACAAAATGAAT---GAAGATTAATACTAGAATCCTTGTTTGGCTCAT
1 GTTTATGGTGCCTAATCGTGAAAA-GAATGGGGAAGAGT--TA-T-GTATTCATGTTTGTCTTAT
* * * * ** *
17321 TT--GAGGCATGAACTTAGACTTTACAAAATTTGGT-GAGAA-AAAAGCCTTTT-TTAAGAAACC
61 TTAAGAGACA--AACTTTGATTTTACAAAA-ATGGTGGA-AAGAAAAG-CTTTTCTTGCGACACC
* ** * * **
17381 AAAGCACCAATATCGTGTATCCTAATGAGAAGACTAA
121 AAAGCATCAATATCAAGTATCCTAATGAGGAGAATGT
* * * * *
17418 GTTTATGGTGGCTAATCATGAAAAGAATAGGGAAGAGTATGTGTATTCATGTTTGTCTTACTTAA
1 GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGT-TATGTATTCATGTTTGTCTTATTTAA
* * *
17483 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATC
65 GAGACAAACTTTGATTTTA-CAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
**
17548 AATATCGTGTATCCTAATGA
129 AATATCAAGTATCCTAATGA
17568 TGACAACCAT
Statistics
Matches: 1784, Mismatches: 581, Indels: 326
0.66 0.22 0.12
Matches are distributed among these distances:
153 3 0.00
154 1 0.00
155 29 0.02
156 77 0.04
157 46 0.03
158 589 0.33
159 841 0.47
160 68 0.04
161 120 0.07
162 9 0.01
163 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (157 bp):
GTTTATGGTGCCTAATCGTGAAAAGAATGGGGAAGAGTTATGTATTCATGTTTGTCTTATTTAAG
AGACAAACTTTGATTTTACAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAA
TATCAAGTATCCTAATGAGGAGAATGT
Found at i:17410 original size:472 final size:471
Alignment explanation
Indices: 15952--17564 Score: 2173
Period size: 472 Copynumber: 3.4 Consensus size: 471
15942 TTCTTGCGAC
* * * *
15952 ACCAAAGCATCAATATCGTATATCCTAATGAGAAGACAATGTTTATGGTACCTAATACAT-AAAA
1 ACCAAAGCACCAATATCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAAT-CATGAAAA
** * * * *
16016 GAATGGGGATTACTATTATTATTCATGTTTGTCTTATTTAAAAGACAAACTTTGA-CCTTATCAA
65 GAATGGGGAAGAGTA-TGTGATTCATGTTTGTCTTATTTAAAAGACAAACTTTGATTC-TATCAA
** *
16080 AAATAGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATATATCCTAACGAAGG
128 AAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAACGAAGG
* * * * *
16145 GAATGTGTTTTAGGTTCCCAATCCTGAAAAGAATAGAGAATGTTACTG-GAATCGAAGCTTGTGT
193 GAATGTGTTTTAGGTTCCCAATCCTGAAAAGAATGGAGACTATTA-TGAGAATCGATG--TGTCT
* * *
16209 T-TTTATGGGATGTACTTTGATTTTAAGGAAAATAGGGCATGGAAAAGATTTCCATGCAATAAAA
255 TATTTAAGGGATGTACTTTGATTTTAAGGAAAATAGGGCATAGAAAAGATTTTCATGCAA-AAAA
* *
16273 AATCATCAACATCATTTATCCTAATGAGGAGAATGTGCTTGTAGTGCCGAATGACAAAATGAATG
319 AATCATCAACATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCGAATCACAAAATGAATG
* *
16338 AAGATTAATACTAGAATCCTTTGTTTGGCTCATTTGAGGCACGAACTTAGATTTTACAAAAATTA
384 AAGATTAATACTAGAATCC-TTGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTG
16403 GTGGAAAAAAAG-CTTTTCTTAAGAA
448 GTGG-AAAAAAGCCTTTT-TTAAGAA
* * * * *
16428 ACTAAAGCACCAATATCGTGGATCCTAATTAGTAGACTATGTTTATGGTGCCTAATCGTGAAAAG
1 ACCAAAGCACCAATATCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCATGAAAAG
* *
16493 AATGGGGAAGAGCTTATGT-ATTCATGTTTGTCTTATTTAAGAGACAAACTTTGATTCGA-CAGA
66 AATGGGGAAGAG--TATGTGATTCATGTTTGTCTTATTTAAAAGACAAACTTTGATTCTATCA-A
* * * * *
16556 AAATGGTGGAAAGAAAAGCTTTTCTTGCGTCACCAAAGCATCAATGTCAAGTATCCTAATGAGGG
128 AAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAACGAAGG
* * * * *
16621 GAATGTGTTTTAGGTTCCCAATCCTGAAAAAAAAATGTAGACTATTACGAGAATCGATCCTAATC
193 GAATGTGTTTTAGGTTCCCAATCCTG--AAAAGAATGGAGACTATTATGAGAATCGAT-GT-GTC
* * * *
16686 TTATTTAAGGGATGAACTTTGATTCTAAGTAAAATAGGGCATAGAAAAGATTTTCACGCAAAAGA
254 TTATTTAAGGGATGTACTTTGATTTTAAGGAAAATAGGGCATAGAAAAGATTTTCATGCAAAA-A
** * * * *
16751 AAATCATCAATGTCATTTATCCTAATGAGGAAAATGTGTTTATAGTG-TGTAATCTCAAAATGAA
318 AAATCATCAACATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCG-AATCACAAAATGAA
* * * * *
16815 TGAAGATAAATACTAAAATCCTTGTTTGGCTCATTTGAGGCACGAACTTACACTTAATAAAAATT
382 TGAAGATTAATACTAGAATCCTTGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT
* **
16880 GGTGGGAAAAAAACCTTACTTAAGAA
447 GGT-GGAAAAAAGCCTTTTTTAAGAA
* * * *
16906 ACCAAAGCACCAATATTGTGTATCCAAATGAGAAGACTAGGTTTATGGTCCCTAATCATGAAAAG
1 ACCAAAGCACCAATATCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCATGAAAAG
* *
16971 AATGGGGAAGAGTATGTAGATTCATGATTGTCTTATTTAAAAGACAAACTTTGATTCTATCCAAA
66 AATGGGGAAGAGTATGT-GATTCATGTTTGTCTTATTTAAAAGACAAACTTTGATTCTATCAAAA
* * * *
17036 ACGGTGGAAAAAAAAGCTTGTCTTGCGACCCCAAAGCATCAATGTCTTGTATCCT-ACGAAGGGA
130 ACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAACGAAGGGA
* *
17100 ATGTGTTTTTGGCTCCCAATCCTGAAAAGAATGGAGACTATTATGAGAATCGATGTGTCTTATTT
195 ATGTGTTTTAGGTTCCCAATCCTGAAAAGAATGGAGACTATTATGAGAATCGATGTGTCTTATTT
* * * *
17165 AAGGGATGTACTTTGATTTTAAGGAAAATAGGGCAAAGAAATGATTTTCATGTAAAAAAAATTAT
260 AAGGGATGTACTTTGATTTTAAGGAAAATAGGGCATAGAAAAGATTTTCATGCAAAAAAAATCAT
*
17230 CAACATCATTTATCCTAGTGAGGAGAATGTGCTTATAGTGCCGAATCACAAAATGAATGAAGATT
325 CAACATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCGAATCACAAAATGAATGAAGATT
* *
17295 AATACTAGAATCCTTGTTTGGCTCATTTGAGGCATGAACTTAGACTTTACAAAATTTGGTGAGAA
390 AATACTAGAATCCTTGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTG-GAA
17360 AAAAGCCTTTTTTAAGAA
454 AAAAGCCTTTTTTAAGAA
* *
17378 ACCAAAGCACCAATATCGTGTATCCTAATGAGAAGACTAAGTTTATGGTGGCTAATCATGAAAAG
1 ACCAAAGCACCAATATCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCATGAAAAG
* * *
17443 AATAGGGAAGAGTATGTGTATTCATGTTTGTCTTACTTAAGAGACAAACTTTGATTCTATCAAAA
66 AATGGGGAAGAGTATGTG-ATTCATGTTTGTCTTATTTAAAAGACAAACTTTGATTCTATCAAAA
* * *
17508 ACGGTGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATATCGTGTATCCTAA
130 ACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAA
17565 TGATGACAAC
Statistics
Matches: 988, Mismatches: 127, Indels: 47
0.85 0.11 0.04
Matches are distributed among these distances:
471 2 0.00
472 301 0.30
473 60 0.06
474 1 0.00
475 31 0.03
476 188 0.19
477 34 0.03
478 240 0.24
479 131 0.13
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (471 bp):
ACCAAAGCACCAATATCGTGTATCCTAATGAGAAGACTATGTTTATGGTGCCTAATCATGAAAAG
AATGGGGAAGAGTATGTGATTCATGTTTGTCTTATTTAAAAGACAAACTTTGATTCTATCAAAAA
CGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAACGAAGGGAA
TGTGTTTTAGGTTCCCAATCCTGAAAAGAATGGAGACTATTATGAGAATCGATGTGTCTTATTTA
AGGGATGTACTTTGATTTTAAGGAAAATAGGGCATAGAAAAGATTTTCATGCAAAAAAAATCATC
AACATCATTTATCCTAATGAGGAGAATGTGCTTATAGTGCCGAATCACAAAATGAATGAAGATTA
ATACTAGAATCCTTGTTTGGCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGTGGAAAA
AAGCCTTTTTTAAGAA
Done.