Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold55
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: 4293517
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.26
Warning! 910309 characters in sequence are not A, C, G, or T
File 5 of 21
Found at i:608047 original size:15 final size:15
Alignment explanation
Indices: 608027--608057 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
608017 TAAAAATGTC
*
608027 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
608042 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
608057 C
1 C
608058 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:612722 original size:13 final size:13
Alignment explanation
Indices: 612704--612729 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
612694 TACACCAAGT
612704 ATGTATCGATACA
1 ATGTATCGATACA
612717 ATGTATCGATACA
1 ATGTATCGATACA
612730 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:612723 original size:32 final size:33
Alignment explanation
Indices: 612686--612749 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
612676 TAGCCAAACT
* **
612686 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
612718 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
612750 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:615258 original size:165 final size:165
Alignment explanation
Indices: 614847--615873 Score: 1049
Period size: 166 Copynumber: 6.2 Consensus size: 165
614837 ATTTTAATTC
* * * *
614847 AAGAAAAAT-CCCCTCAAAAAATTTACGAAGTAAAAAATTTCGTATTTCG-AAAAAAGGAAATTT
1 AAGAAAAATCCCCCTGAAAAAATTTACGGAGTAAAAAACTCCGTATTTCGAAAAAAAGGAAATTT
* ** *
614910 GAAGGAAAAAATTTGAAATTCATGGAAATGAATGAATTTTT-AAAAACTGAATTAATATG----A
66 CAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAAA-TGAATTAATATGAAATA
614970 AAT-A-AATATTTGATAAATTTTAAAAATAAAAAACG
130 AATAATAATATTTGATAAATTTTAAAAATAAAAAA-G
* *** * *
615005 AAGAACAATCCCCCTCGAAAAAATTTATAAAGTAGAAAACTCCGTATTTTGAAAAAAAAGGAGAA
1 AAGAAAAATCCCCCT-GAAAAAATTTACGGAGTAAAAAACTCCGTATTTCG-AAAAAAAGGA-AA
* * * *
615070 -TTCAAGGAAAAAAATAAAAATTTATGGAAATAAATGAATTTTTGAAAACTGAATTAATATGAAA
63 TTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAAATGAATTAATATGAAA
* * * *
615134 TAAAAAATAATATTTTATGAATTTTAAAAATAACAAA-
128 TAAATAATAATATTTGATAAATTTTAAAAATAAAAAAG
* * * **
615171 AAGAAAAATCCCCCTGAAAGAATTTTCGGAGTAGAAAACTCCGTATTTCGAAAAAAAGGGGATTT
1 AAGAAAAATCCCCCTGAAAAAATTTACGGAGTAAAAAACTCCGTATTTCGAAAAAAAGGAAATTT
* * *
615236 TAAGGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTTTTAAAAAT-AATTAATATAAAA
66 CAA-GGAAAAAATTCAAAATTTATGGAAATGAATGAA--TTTTTGAAAAATGAATTAATATGAAA
*
615300 TAAATAATAATATTTGATGAATTTTAAAAATCAAAAAAG
128 TAAATAATAATATTTGATAAATTTTAAAAAT-AAAAAAG
* * * *
615339 AAGAAAAATACCCCC--AAAAGAATTTACCGACTAGAAAACTCCGTATTTCG-GAAAAAGGAAAT
1 AAGAAAAAT-CCCCCTGAAAA-AATTTACGGAGTAAAAAACTCCGTATTTCGAAAAAAAGGAAAT
* *
615401 TTCAAGAAAAAAATTCAAAATTTCTGGAAATGAATGAATTTTT-AAAAATTGAATTAATATGAAA
64 TTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAAA-TGAATTAATATGAAA
615465 TAAATAATAATATTTGATAAATTTTAAAAAT-AAAAAG
128 TAAATAATAATATTTGATAAATTTTAAAAATAAAAAAG
* * * * * * * *
615502 CAAGTAAAATCCCCCCGAAAGAATTTATGGAGTAAAAAATTTCATATTTCGAAAAAAAGGAGATT
1 -AAGAAAAATCCCCCTGAAAAAATTTACGGAGTAAAAAACTCCGTATTTCGAAAAAAAGGAAATT
* * * *
615567 TCAGGGAAAAAATTCAAAATTCACGGAAATGAATGAATTTTTGAAAAATAAATTAATATGAAATA
65 TCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATA
* * *
615632 GATAATAATATTTAATAAATTTTAAAAAGAAAAAAG
130 AATAATAATATTTGATAAATTTTAAAAATAAAAAAG
* * * ** * **
615668 TAAGAAAAAT-GCCCTCGAAAAAAATTACAGAGTAAAAAACTCAATACTTAAAAAAAAAGGAAAT
1 -AAGAAAAATCCCCCT-GAAAAAATTTACGGAGTAAAAAACTCCGTATTTCGAAAAAAAGGAAAT
* * * *
615732 GTCAAGGAAAAAATTGAAAATTTCAT-GAATATGAAT-ATATTTTT-AGAAAATGATTTAATGTG
64 TTCAAGGAAAAAATTCAAAATTT-ATGGAA-ATGAATGA-ATTTTTGA-AAAATGAATTAATATG
** * *
615794 ACTTAAATAATAATATTTTATAAA-TTTAAAAATTAAAAACCG
125 AAATAAATAATAATATTTGATAAATTTTAAAAA-TAAAAA-AG
* * *
615836 -AGAAAAAGCCTCCTAAAAAAATTTACGGAG-AAGAAAAC
1 AAGAAAAATCCCCCTGAAAAAATTTACGGAGTAA-AAAAC
615874 CTCGTAATTT
Statistics
Matches: 727, Mismatches: 105, Indels: 66
0.81 0.12 0.07
Matches are distributed among these distances:
158 8 0.01
159 5 0.01
160 28 0.04
162 58 0.08
163 23 0.03
164 50 0.07
165 199 0.27
166 202 0.28
167 86 0.12
168 63 0.09
169 5 0.01
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (165 bp):
AAGAAAAATCCCCCTGAAAAAATTTACGGAGTAAAAAACTCCGTATTTCGAAAAAAAGGAAATTT
CAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAA
ATAATAATATTTGATAAATTTTAAAAATAAAAAAG
Found at i:615456 original size:331 final size:325
Alignment explanation
Indices: 614846--615865 Score: 1093
Period size: 331 Copynumber: 3.1 Consensus size: 325
614836 AATTTTAATT
* * * * *
614846 CAAGAAAAAT-CCCCTCAAAAAATTTACGAAGTAAAAAATTTCGTATTTCG-AAAAAAGGAAATT
1 CAAGAAAAATCCCCCTGAAAGAATTTTCGGAGTAAAAAATTTCGTATTTCGAAAAAAAGGAGATT
* ** * *
614909 TGAA-GGAAAAAATTTGAAATTCATGGAAATGAATGAA-TTTTTAAAAACTGAATTAATAT---G
66 TTAAGGGAAAAAATTCAAAATTCATGGAAATGAATGAATTTTTTAAAAA-TAAATTAATATAAAT
* *
614969 AAAT-A-AATATTTGATAAATTTTAAAAATAAAAAACGAAGAACAATCCCCCTCGAAAAAATTTA
130 AAATAATAATATTTGATAAATTTTAAAAATAAAAAA-GAAGAAAAATACCCC-C-AAAAAATTTA
* * * *
615032 TAAAGTAGAAAACTCCGTATTTTGAAAAAAAAGGAGAA-TTCAAGGAAAAAAA-TAAAAATTTAT
192 CAGAGTAGAAAACTCCGTA-TTT-AGAAAAAAGGA-AATTTCAA-GAAAAAAATTAAAAATTTCT
* * *
615095 GGAAATAAATGAATTTTTGAAAACTGAATTAATATGAAATAAAAAATAATATTTTATGAATTTTA
253 GGAAATGAATGAATTTTT-AAAAATGAATTAATATGAAATAAATAATAATATTTTAT-AATTTTA
615160 AAAATAACAAA
316 AAAATAA-AAA
* * * *
615171 -AAGAAAAATCCCCCTGAAAGAATTTTCGGAGTAGAAAACTCCGTATTTCGAAAAAAAGGGGATT
1 CAAGAAAAATCCCCCTGAAAGAATTTTCGGAGTAAAAAATTTCGTATTTCGAAAAAAAGGAGATT
*
615235 TTAAGGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTTTTAAAAAT-AATTAATATAAA
66 TTAAGGGAAAAAATTCAAAATTCATGGAAATGAATGAA--TTTTTTAAAAATAAATTAATAT-AA
*
615299 ATAAATAATAATATTTGATGAATTTTAAAAATCAAAAAAGAAGAAAAATACCCCCAAAAGAATTT
128 ATAAATAATAATATTTGATAAATTTTAAAAAT-AAAAAAGAAGAAAAATACCCCCAAAA-AATTT
* * * * *
615364 ACCGACTAGAAAACTCCGTATTTCGGAAAAAGGAAATTTCAAGAAAAAAATTCAAAATTTCTGGA
191 ACAGAGTAGAAAACTCCGTATTTAGAAAAAAGGAAATTTCAAGAAAAAAATTAAAAATTTCTGGA
*
615429 AATGAATGAATTTTTAAAAATTGAATTAATATGAAATAAATAATAATATTTGATAAATTTTAAAA
256 AATGAATGAATTTTTAAAAA-TGAATTAATATGAAATAAATAATAATATTTTAT-AATTTTAAAA
615494 ATAAAAA
319 ATAAAAA
* * *
615501 GCAAGTAAAATCCCCCCGAAAGAATTTAT-GGAGTAAAAAATTTCATATTTCGAAAAAAAGGAGA
1 -CAAGAAAAATCCCCCTGAAAGAATTT-TCGGAGTAAAAAATTTCGTATTTCGAAAAAAAGGAGA
* * *
615565 -TTTCAGGGAAAAAATTCAAAATTCACGGAAATGAATGAATTTTTGAAAAATAAATTAATATGAA
64 TTTTAAGGGAAAAAATTCAAAATTCATGGAAATGAATGAATTTTTTAAAAATAAATTAATAT-AA
* * * * * *
615629 ATAGATAATAATATTTAATAAATTTTAAAAAGAAAAAAGTAAGAAAAATGCCCTCGAAAAAAATT
128 ATAAATAATAATATTTGATAAATTTTAAAAATAAAAAAG-AAGAAAAATACCC-CCAAAAAATTT
* ** * * * * *
615694 ACAGAGTAAAAAACTCAATACTTAAAAAAAAAGGAAATGTCAAGGAAAAAATTGAAAATTTCAT-
191 ACAGAGTAGAAAACTCCGTA-TTTAGAAAAAAGGAAATTTCAAGAAAAAAATTAAAAATTTC-TG
* * ** *
615758 GAATATGAAT-ATATTTTTAGAAAATGATTTAATGTGACTTAAATAATAATATTTTATAAATTTA
254 GAA-ATGAATGA-ATTTTTA-AAAATGAATTAATATGAAATAAATAATAATATTTTATAATTTTA
615822 AAAATTAAAAA
316 AAAA-TAAAAA
* * * * * *
615833 CCGAGAAAAAGCCTCCTAAAAAAATTTACGGAG
1 -CAAGAAAAATCCCCCTGAAAGAATTTTCGGAG
615866 AAGAAAACCT
Statistics
Matches: 588, Mismatches: 77, Indels: 53
0.82 0.11 0.07
Matches are distributed among these distances:
324 9 0.02
325 33 0.06
326 14 0.02
327 30 0.05
328 9 0.02
329 19 0.03
330 97 0.16
331 173 0.29
332 135 0.23
333 28 0.05
334 35 0.06
335 6 0.01
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (325 bp):
CAAGAAAAATCCCCCTGAAAGAATTTTCGGAGTAAAAAATTTCGTATTTCGAAAAAAAGGAGATT
TTAAGGGAAAAAATTCAAAATTCATGGAAATGAATGAATTTTTTAAAAATAAATTAATATAAATA
AATAATAATATTTGATAAATTTTAAAAATAAAAAAGAAGAAAAATACCCCCAAAAAATTTACAGA
GTAGAAAACTCCGTATTTAGAAAAAAGGAAATTTCAAGAAAAAAATTAAAAATTTCTGGAAATGA
ATGAATTTTTAAAAATGAATTAATATGAAATAAATAATAATATTTTATAATTTTAAAAATAAAAA
Found at i:617147 original size:13 final size:13
Alignment explanation
Indices: 617128--617158 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
617118 ACAATTCATC
617128 ATGTATCGATACA
1 ATGTATCGATACA
*
617141 TTGTATCGATACA
1 ATGTATCGATACA
617154 ATGTA
1 ATGTA
617159 CCATGTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:617152 original size:33 final size:33
Alignment explanation
Indices: 617109--617173 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
617099 TTTGAAGCAA
* *
617109 TGTATTGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
617142 TGTATCGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
617174 AATAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:617227 original size:19 final size:19
Alignment explanation
Indices: 617203--617257 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
617193 CTGCCAGTTT
**
617203 CATGTATCGATA-AATTGTC
1 CATGTATCGATACAA-TGAA
617222 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
617241 CATGTATCGATACAATG
1 CATGTATCGATACAATG
617258 TATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 31 0.94
20 2 0.06
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:617260 original size:13 final size:13
Alignment explanation
Indices: 617242--617268 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
617232 TACAATGAAC
617242 ATGTATCGATACA
1 ATGTATCGATACA
617255 ATGTATCGATACA
1 ATGTATCGATACA
617268 A
1 A
617269 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:622364 original size:13 final size:13
Alignment explanation
Indices: 622346--622371 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
622336 CAATTTTTTG
622346 TGTATCGATACAT
1 TGTATCGATACAT
622359 TGTATCGATACAT
1 TGTATCGATACAT
622372 ACTTGATGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:624816 original size:21 final size:22
Alignment explanation
Indices: 624761--624822 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
624751 CTGGTTTTGA
624761 TGAAAAACGAAGTAATTTGAAG
1 TGAAAAACGAAGTAATTTGAAG
624783 TGAAAAACGAAGTAATTTGAAG
1 TGAAAAACGAAGTAATTTGAAG
*
624805 TGAAAAAC-AAGTATTTTG
1 TGAAAAACGAAGTAATTTG
624823 CAAAAGATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 9 0.23
22 30 0.77
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (22 bp):
TGAAAAACGAAGTAATTTGAAG
Found at i:627055 original size:15 final size:15
Alignment explanation
Indices: 627035--627065 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
627025 ATTTCGTTTG
*
627035 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
627050 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
627065 G
1 G
627066 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:630849 original size:13 final size:13
Alignment explanation
Indices: 630831--630856 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
630821 CAATTTTTTG
630831 TGTATCGATACAT
1 TGTATCGATACAT
630844 TGTATCGATACAT
1 TGTATCGATACAT
630857 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:630871 original size:32 final size:33
Alignment explanation
Indices: 630811--630874 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
630801 TACAAGCCAA
** *
630811 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
630844 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
630875 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:631480 original size:84 final size:84
Alignment explanation
Indices: 631311--631615 Score: 346
Period size: 84 Copynumber: 3.6 Consensus size: 84
631301 TAAGGGTAAT
* * *
631311 GGGTTTACCTG-GGACTAAGCCGATAGGTAAACAATGGATGAAAGGTTGACCGGAGACTGAGATG
1 GGGTTTACC-GAGGACTAAGCCGACAGGTAAACAATGGATG-AAGGTTGACTGGAGACTGAGCTG
631375 ACAGGTCACCAAGGAGAGAAG
64 ACAGGTCACCAAGGAGAGAAG
* * * * * * *
631396 GGGTTTATCGGGGATTAAGCTGACAGGTAAACAATGGATGAGGGTTAACTGGAGATTGAGCTGAC
1 GGGTTTACCGAGGACTAAGCCGACAGGTAAACAATGGATGAAGGTTGACTGGAGACTGAGCTGAC
631461 AGGTCACCAAGGAGAGAAG
66 AGGTCACCAAGGAGAGAAG
** * * * * * *
631480 GTTTTTACCGAGGATTGAGTCGACAGATAAACAAGGGATGAAGGTTGA-TCAGAGACTGAGCTGA
1 GGGTTTACCGAGGACTAAGCCGACAGGTAAACAATGGATGAAGGTTGACT-GGAGACTGAGCTGA
* *
631544 CAAGTCACCAAAGAGAGAAG
65 CAGGTCACCAAGGAGAGAAG
* *
631564 GGGTTTACCGAGGACTAAGCCGATAGGTAAATAAATGG-TGAAAGGTTGACTG
1 GGGTTTACCGAGGACTAAGCCGACAGGTAAA-CAATGGATG-AAGGTTGACTG
631616 AAAGCTTATT
Statistics
Matches: 181, Mismatches: 34, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
83 1 0.01
84 133 0.73
85 46 0.25
86 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.19
Consensus pattern (84 bp):
GGGTTTACCGAGGACTAAGCCGACAGGTAAACAATGGATGAAGGTTGACTGGAGACTGAGCTGAC
AGGTCACCAAGGAGAGAAG
Found at i:632381 original size:13 final size:13
Alignment explanation
Indices: 632363--632389 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
632353 CAATTTTTTG
632363 TGTATCGATACAT
1 TGTATCGATACAT
632376 TGTATCGATACAT
1 TGTATCGATACAT
632389 T
1 T
632390 CTTGCTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:632404 original size:32 final size:33
Alignment explanation
Indices: 632343--632406 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
632333 TACAAGCCAA
*
632343 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTTCTTGTGTATCGATACAT
632376 TGTATCGATAC-A-TTCTTGCTGTATCGATACA
1 TGTATCGATACAATTTCTTG-TGTATCGATACA
632407 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 13 0.45
33 11 0.38
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATTTCTTGTGTATCGATACAT
Found at i:632453 original size:21 final size:21
Alignment explanation
Indices: 632427--632502 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
632417 CTGCCAAGAA
632427 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
632448 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
632468 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
632489 ATGTATCGATACAT
1 ATGTATCGATACAT
632503 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:632472 original size:20 final size:20
Alignment explanation
Indices: 632447--632520 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
632437 ACATCTTTTT
632447 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
632467 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
632488 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
632508 CATGTATCGATAC
1 CATGTATCGATAC
632521 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:632484 original size:41 final size:41
Alignment explanation
Indices: 632427--632520 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
632417 CTGCCAAGAA
632427 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
632468 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
632509 ATGTATCGATAC
1 ATGTATCGATAC
632521 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:632931 original size:85 final size:84
Alignment explanation
Indices: 632833--633387 Score: 435
Period size: 85 Copynumber: 6.6 Consensus size: 84
632823 CTAAGCTAAT
*
632833 AAGTCACAAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGATAGGTAAACGATAGATGAAGGGT
1 AAGTCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGATAGGTAAACGATAGATGAA-GGT
632898 TGACCAGAGACTAAGTTGAC
65 TGACCAGAGACTAAGTTGAC
* * * *
632918 AAGTCACCAAGGAGAGGAA-GGATTTACCGAGGACTGAGTCGATAGGTAAATGA-ATGATGAAAG
1 AAGTCACCAAGGAGA-GAAGGGGTTTACCGGGGACTGAGCCGATAGGTAAACGATA-GATG-AAG
* * * *
632981 GTTGACCTGGGACTAAGTCGAT
63 GTTGACCAGAGACTAAGTTGAC
* * ** * * * *
633003 AGGTCACCAAGGAGAAAAGGGGTTTACTAGGGACTGAGCTGACATGTAAACGATAAATGAAGGAT
1 AAGTCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGATAGGTAAACGATAGATGAAGG-T
* * *
633068 TGGCCAGAGACTGAGCTGAC
65 TGACCAGAGACTAAGTTGAC
* * * * * * *
633088 TAGTCA-CAAGGAGAGAAGAGGTTTATCAGGGACTAAGCTGATAGGTAAACGATGGATGAAGGTT
1 AAGTCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGATAGGTAAACGATAGATGAAGGTT
*** *
633152 -AATTGAAGACTAAGTTGAT
66 GACCAG-AGACTAAGTTGAC
* * * * * * * * *
633171 AGGTCACCATAAGG-GATAAAGGGTTTACCGAGGACTAAGCCGACATGT-AACTAGTGGATGAAG
1 AAGTCACC--AAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGATAGGTAAACGA-TAGATGAAG
** * * *
633234 GTTGACTGGTGCCTAAGCTGAC
63 GTTGACCAGAGACTAAGTTGAC
* * * * * * *
633256 AAGTCACCAAGAAGAGAAAGGGTTTAGCGGGGATTGAGCCAATAGGTAAA-TAAATGATGAAAGG
1 AAGTCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGATAGGTAAACGATA-GATG-AAGG
*
633320 TTGA-CAGGGGACTAAGTTGA-
64 TTGACCA-GAGACTAAGTTGAC
* *
633340 TAGATCACCAAGGAGAGAAGGGGTTTACCGGGGACTAAGCCGATAGGT
1 AAG-TCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGATAGGT
633388 CACCAAGGAG
Statistics
Matches: 364, Mismatches: 88, Indels: 36
0.75 0.18 0.07
Matches are distributed among these distances:
82 1 0.00
83 19 0.05
84 93 0.26
85 238 0.65
86 13 0.04
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.19
Consensus pattern (84 bp):
AAGTCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGATAGGTAAACGATAGATGAAGGTT
GACCAGAGACTAAGTTGAC
Found at i:633416 original size:128 final size:128
Alignment explanation
Indices: 633258--633503 Score: 320
Period size: 128 Copynumber: 1.9 Consensus size: 128
633248 AAGCTGACAA
* * *
633258 GTCACCAAGAAGAGAAAGGGTTTAGCGGGGATTGAGCCAATAGGTAAATAA-ATGATGAAAGGTT
1 GTCACCAAGAAGAGAAAGGGTTTAGCGGGGACTGAGCCAACAAGTAAATAATA-GATGAAAGGTT
** * *
633322 GACAGGGGACTAAGTTGA-TAGATCACCAAGGAGAGAAGGGGTTTACCGGGGACTAAGCCGATAG
65 GACAGAAGACTAAGCTGACAAG-TCACCAAGGAGAGAAGGGGTTTACCGGGGACTAAGCCGATAG
* *
633386 GTCACCAAGGAGA-AAATGGGTTTA-CTGGGGACTGAGCCAACAAGTAAATAATAGATGAAGGGT
1 GTCACCAAGAAGAGAAA-GGGTTTAGC-GGGGACTGAGCCAACAAGTAAATAATAGATGAAAGGT
* * *
633449 TGACCGAAGACTGAGCTGACAAGTCACCAAGGAGAGAAGGGGTTTATCGGGGACT
64 TGACAGAAGACTAAGCTGACAAGTCACCAAGGAGAGAAGGGGTTTACCGGGGACT
633504 GAACCGACAA
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
127 4 0.04
128 95 0.93
129 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.33, T:0.18
Consensus pattern (128 bp):
GTCACCAAGAAGAGAAAGGGTTTAGCGGGGACTGAGCCAACAAGTAAATAATAGATGAAAGGTTG
ACAGAAGACTAAGCTGACAAGTCACCAAGGAGAGAAGGGGTTTACCGGGGACTAAGCCGATAG
Found at i:633488 original size:42 final size:43
Alignment explanation
Indices: 633344--633515 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
633334 AGTTGATAGA
* * *
633344 TCACCAAGGAGAGAAGGGGTTTACCGGGGACTAAGCCGATAGG
1 TCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGACAAG
* * * *
633387 TCACCAAGGAGAAAATGGGTTTACTGGGGACTGAGCCAACAAG
1 TCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGACAAG
* ** * * ** *
633430 TAAATAA-TAGATGAA-GGGTTGACCGAAGACTGAGCTGACAAG
1 TCACCAAGGAGA-GAAGGGGTTTACCGGGGACTGAGCCGACAAG
* *
633472 TCACCAAGGAGAGAAGGGGTTTATCGGGGACTGAACCGACAAG
1 TCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGACAAG
633515 T
1 T
633516 AAACAAATGA
Statistics
Matches: 98, Mismatches: 28, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
42 31 0.32
43 67 0.68
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (43 bp):
TCACCAAGGAGAGAAGGGGTTTACCGGGGACTGAGCCGACAAG
Found at i:633697 original size:47 final size:47
Alignment explanation
Indices: 633641--634206 Score: 429
Period size: 47 Copynumber: 12.1 Consensus size: 47
633631 AATGATGATG
* **
633641 GAAAGAGTTTGACAAGAACCTAATGCCAATATAGTCAAACAAGGGTGA
1 GAAA-AGTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* ** *
633689 GAAAAGTTTGACTAGGTCTTAACACCAATACAGTCAAACAA-GGTGA
1 GAAAAGTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* * *
633735 -AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGGT-A
1 GAAA-AGTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* ** * * *
633781 AAAAATGTTTGACTACATCATAATGCTAATATAGTCAAACAA-GATGA
1 GAAAA-GTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* * * * * * * *
633828 GAAGAGTTTGGCCAGATCCCAATGCCAATACAGTCAAACGATGGTGA
1 GAAAAGTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* ** * * **
633875 -AAAGAGTTTGATGTA-GTTTTAATGCCAATATAATCAAACGAGAATG-
1 GAAA-AGTTTGA-CTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* ** * * * * *
633921 GAAAGAGTTTGACTAGATTTTAACGCTAATACAATCAAATAAGGGTG-
1 GAAA-AGTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* * * *
633968 GAAGAGTTTGACTAGGTCTTATTGCCAATATAGTCAAACAAGGGTAA
1 GAAAAGTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* ** *
634015 GAAAAGTTTGACTAGGTCCGAACACCAATATAGTCAAAC-AGGGCGA
1 GAAAAGTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* * * *
634061 GAAAAGTTTGACTAGGTCCTAATACCAATACAGTCAAACAATGGTAA
1 GAAAAGTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
* * * *
634108 GAAAAGTTTGACAAGGTCCTAA-CCCTAATATAGTCAAGCAATGGT-A
1 GAAAAGTTTGACTAGGTCCTAATGCC-AATATAGTCAAACAAGGGTGA
* * *
634154 -AATAAGTGTTTGACTAGGTCCTAACGCTAATATAGTTAAACAAGGGTG-
1 GAA-AA--GTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
634202 GAAAA
1 GAAAA
634207 AATTTAACCA
Statistics
Matches: 412, Mismatches: 87, Indels: 38
0.77 0.16 0.07
Matches are distributed among these distances:
45 5 0.01
46 152 0.37
47 213 0.52
48 39 0.09
49 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (47 bp):
GAAAAGTTTGACTAGGTCCTAATGCCAATATAGTCAAACAAGGGTGA
Found at i:633756 original size:93 final size:93
Alignment explanation
Indices: 633642--634198 Score: 432
Period size: 93 Copynumber: 6.0 Consensus size: 93
633632 ATGATGATGG
* *
633642 AAAGAGTTTGACAAGAACCTAATGCCAATATAGTCAAACAAGGGTGAGAAAAGTTTGACTAGGTC
1 AAAGAGTTTGACAAGATCCTAATGCCAATACAGTCAAACAAGGGTGAGAAAAGTTTGACTAGGTC
** *
633707 TTAACACCAATACAGTCAAACAAGGTGA
66 TTAATGCCAATATAGTCAAACAAGGTGA
* * * * **
633735 AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGGT-AAAAAATGTTTGACTACAT
1 AAAGAGTTTGACAAGATCCTAATGCCAATACAGTCAAACAAGGGTGAGAAAA-GTTTGACTAGGT
* * *
633799 CATAATGCTAATATAGTCAAACAAGATGA
65 CTTAATGCCAATATAGTCAAACAAGGTGA
* * * * * * *
633828 GAAGAGTTTGGCCAGATCCCAATGCCAATACAGTCAAACGATGGTGA-AAAGAGTTTGATGTA-G
1 AAAGAGTTTGACAAGATCCTAATGCCAATACAGTCAAACAAGGGTGAGAAA-AGTTTGA-CTAGG
* * * * *
633891 TTTTAATGCCAATATAATCAAACGAGAATGG
64 TCTTAATGCCAATATAGTCAAACAAG-GTGA
* ** * * * * *
633922 AAAGAGTTTGACTAGATTTTAACGCTAATACAATCAAATAAGGGTG-GAAGAGTTTGACTAGGTC
1 AAAGAGTTTGACAAGATCCTAATGCCAATACAGTCAAACAAGGGTGAGAAAAGTTTGACTAGGTC
*
633986 TTATTGCCAATATAGTCAAACAAGG-GTA
66 TTAATGCCAATATAGTCAAACAAGGTG-A
* * * * ** * *
634014 AGAAAAGTTTGACTAGGTCCGAACACCAATATAGTCAAAC-AGGGCGAGAAAAGTTTGACTAGGT
1 A-AAGAGTTTGACAAGATCCTAATGCCAATACAGTCAAACAAGGGTGAGAAAAGTTTGACTAGGT
* * *
634078 CCTAATACCAATACAGTCAAACAATGGT-A
65 CTTAATGCCAATATAGTCAAACAA-GGTGA
* * * * * *
634107 AGAAAAGTTTGACAAGGTCCTAA-CCCTAATATAGTCAAGCAATGGT-A-AATAAGTGTTTGACT
1 A-AAGAGTTTGACAAGATCCTAATGCC-AATACAGTCAAACAAGGGTGAGAA-AA--GTTTGACT
* * * *
634169 AGGTCCTAACGCTAATATAGTTAAACAAGG
61 AGGTCTTAATGCCAATATAGTCAAACAAGG
634199 GTGGAAAAAA
Statistics
Matches: 373, Mismatches: 74, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
91 1 0.00
92 17 0.05
93 274 0.73
94 50 0.13
95 31 0.08
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (93 bp):
AAAGAGTTTGACAAGATCCTAATGCCAATACAGTCAAACAAGGGTGAGAAAAGTTTGACTAGGTC
TTAATGCCAATATAGTCAAACAAGGTGA
Found at i:633949 original size:140 final size:140
Alignment explanation
Indices: 633638--634177 Score: 358
Period size: 140 Copynumber: 3.9 Consensus size: 140
633628 TCAAATGATG
* * * * * *
633638 ATGGAAAGAGTTTGACAAGAACCTAATGCCAATATAGTCAAACAAGGGTGAGAAAAGTTTGACTA
1 ATGGAAAGAGTTTGACTAGATCATAATGCTAATATAGTCAAACAAGGGTGAGAAGAGTTTGACCA
* ** *
633703 GGTCTTAACACCAATACAGTCAAACAAGGTGAAAAGAGTTTGACCAGGTCCTAATGCCAATACAG
66 GATCCCAACACCAATACAGTCAAACAAGGTGAAAAGAGTTTGACCAGGTCCTAATGCCAATACAA
*
633768 TCAAACGAGG
131 TCAAACGAGA
* * * * * *
633778 GT-AAAAAATGTTTGACTACATCATAATGCTAATATAGTCAAACAA-GATGAGAAGAGTTTGGCC
1 ATGGAAAGA-GTTTGACTAGATCATAATGCTAATATAGTCAAACAAGGGTGAGAAGAGTTTGACC
** * ** **
633841 AGATCCCAATGCCAATACAGTCAAACGATGGTGAAAAGAGTTTGATGTA-GTTTTAATGCCAATA
65 AGATCCCAACACCAATACAGTCAAAC-AAGGTGAAAAGAGTTTGA-CCAGGTCCTAATGCCAATA
*
633905 TAATCAAACGAGA
128 CAATCAAACGAGA
** * * * * *
633918 ATGGAAAGAGTTTGACTAGATTTTAACGCTAATACAATCAAATAAGGGTG-GAAGAGTTTGACTA
1 ATGGAAAGAGTTTGACTAGATCATAATGCTAATATAGTCAAACAAGGGTGAGAAGAGTTTGACCA
* ** *** * * * * ** *
633982 GGTCTTATTGCCAATATAGTCAAACAAGG-GTAAGAAAAGTTTGACTAGGTCCGAACACCAATAT
66 GATCCCAACACCAATACAGTCAAACAAGGTG-AA-AAGAGTTTGACCAGGTCCTAATGCCAATAC
* *
634046 AGTCAAAC-AGG
129 AATCAAACGAGA
** * * * * * * * * *
634057 GCGAGAAA-AGTTTGACTAGGTCCTAATACCAATACAGTCAAACAATGGTAAGAAAAGTTTGACA
1 ATG-GAAAGAGTTTGACTAGATCATAATGCTAATATAGTCAAACAAGGGTGAGAAGAGTTTGACC
* * * * * * *
634121 AGGTCCTAAC-CCTAATATAGTCAAGCAATGGTAAATAAGTGTTTGACTAGGTCCTAA
65 AGATCCCAACACC-AATACAGTCAAACAA-GGTGAA-AAGAGTTTGACCAGGTCCTAA
634178 CGCTAATATA
Statistics
Matches: 311, Mismatches: 76, Indels: 25
0.75 0.18 0.06
Matches are distributed among these distances:
138 1 0.00
139 83 0.27
140 197 0.63
141 30 0.10
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (140 bp):
ATGGAAAGAGTTTGACTAGATCATAATGCTAATATAGTCAAACAAGGGTGAGAAGAGTTTGACCA
GATCCCAACACCAATACAGTCAAACAAGGTGAAAAGAGTTTGACCAGGTCCTAATGCCAATACAA
TCAAACGAGA
Found at i:634026 original size:233 final size:233
Alignment explanation
Indices: 633661--634118 Score: 546
Period size: 233 Copynumber: 2.0 Consensus size: 233
633651 GACAAGAACC
* ** * *
633661 TAATGCCAATATAGTCAAACAAGGGTGAGAAAAGTTTGACTAGGTCTTAACACCAATACAGTCAA
1 TAATGCCAATATAATCAAACAAGAATGAGAAAAGTTTGACTAGATCTTAACACCAATACAATCAA
*
633726 ACAAGGTGAAAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACGAGGGTAAAAAATGTTT
66 ACAAGGTGAAAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAAGGGTAAAAAATGTTT
* ** * * * * *
633791 GACTACATCATAATGCTAATATAGTCAAACAAGATGAGAAGAGTTTGGCCAGATCCCAATGCCAA
131 GACTACATCAGAACACCAATATAGTCAAACAAGACGAGAAAAGTTTGACCAGATCCCAATACCAA
* *
633856 TACAGTCAAACGATGGTGAA-AAGAGTTTGATGTAGTTT
196 TACAGTCAAACAATGGT-AAGAAAAGTTTGATGTAGTTT
* * * *
633894 TAATGCCAATATAATCAAACGAGAATG-GAAAGAGTTTGACTAGATTTTAACGCTAATACAATCA
1 TAATGCCAATATAATCAAACAAGAATGAGAAA-AGTTTGACTAGATCTTAACACCAATACAATCA
* * * * * *
633958 AATAAGGGTG-GAAGAGTTTGACTAGGTCTTATTGCCAATATAGTCAAACAAGGGTAAGAAAA-G
65 AACAA-GGTGAAAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAAGGGTAA-AAAATG
** * * * * * *
634021 TTTGACTAGGTCCGAACACCAATATAGTCAAACAGGGCGAGAAAAGTTTGACTAGGTCCTAATAC
128 TTTGACTACATCAGAACACCAATATAGTCAAACAAGACGAGAAAAGTTTGACCAGATCCCAATAC
634086 CAATACAGTCAAACAATGGTAAGAAAAGTTTGA
193 CAATACAGTCAAACAATGGTAAGAAAAGTTTGA
634119 CAAGGTCCTA
Statistics
Matches: 187, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
232 6 0.03
233 173 0.93
234 8 0.04
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (233 bp):
TAATGCCAATATAATCAAACAAGAATGAGAAAAGTTTGACTAGATCTTAACACCAATACAATCAA
ACAAGGTGAAAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAAGGGTAAAAAATGTTT
GACTACATCAGAACACCAATATAGTCAAACAAGACGAGAAAAGTTTGACCAGATCCCAATACCAA
TACAGTCAAACAATGGTAAGAAAAGTTTGATGTAGTTT
Found at i:641411 original size:155 final size:155
Alignment explanation
Indices: 641084--641463 Score: 431
Period size: 155 Copynumber: 2.4 Consensus size: 155
641074 TAAATGGAAG
* * * * * *
641084 AAAAATTATGAAAATG-CCCTTAGGGAATACTTTCGACGTAAAAGTACCCAATTCCCCTAAATGA
1 AAAAATTATAAAAATGCCCCTAAGGG-ATACCTTCGACGTAAAAGTA-CCGATACCCCTAAAGGA
* ** * *
641148 CTTAAAAAGGATATTAAAAAAGATGAACCTATCCTCCTAAATACCCTCCTTCGGCATGAAAGCGG
64 CTTAAAAAGGATAATAAAAAAGATGAACCTA--CTCCTAAATACCAACCTTCGGCATAAAAGCGA
641213 ACCTGATGACAACCTAAGACTCGGTTCTA
127 ACCTGATGACAACCTAAGACTCGGTTCTA
** ** * * *
641242 TGAAATTACCAAAATGCCCCTAAGGGATACCTTCGATGTAAAAGTACTCGGTACCTCTAAAGGAC
1 AAAAATTATAAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTAC-CGATACCCCTAAAGGAC
* * ** * *
641307 TTAAAGAGGATAATATATGAGATGAACCTA-TCCTAAATATCAACCTTCGGCATAAAAGCGAACT
65 TTAAAAAGGATAATAAAAAAGATGAACCTACTCCTAAATACCAACCTTCGGCATAAAAGCGAACC
* *
641371 TGGTGACAACCTAGGACTCGGTTCTA
130 TGATGACAACCTAAGACTCGGTTCTA
* * *
641397 AAAAATTATAAAAATGCCCCTAGGGGATTCCTTTGACGTAAAAGTACCTGATACCCCTAAAGGAC
1 AAAAATTATAAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACC-GATACCCCTAAAGGAC
641462 TT
65 TT
641464 GGGATAATGC
Statistics
Matches: 184, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
154 1 0.01
155 107 0.58
157 1 0.01
158 67 0.36
159 8 0.04
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (155 bp):
AAAAATTATAAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTACCGATACCCCTAAAGGACT
TAAAAAGGATAATAAAAAAGATGAACCTACTCCTAAATACCAACCTTCGGCATAAAAGCGAACCT
GATGACAACCTAAGACTCGGTTCTA
Found at i:642192 original size:162 final size:160
Alignment explanation
Indices: 641719--642205 Score: 627
Period size: 160 Copynumber: 3.0 Consensus size: 160
641709 AATATAAAAG
* * * * * * *
641719 ATTAAAATTT-TCTTGAAAGTATTAATTAAATTAAATTTTATTTATTTTTGAAAATACCATTTCA
1 ATTAGAATTTATCTCGATAGTATCAATTTAATTTAATTTTA-TTATTTTTGAAAATACCATTTCG
** *
641783 TACCTAACAGAAGCCCGAAAGCATACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCC
65 TACCTAATGGAAGCCCGAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCC
*
641848 ATAGGAATATAAAAGATTAGAAAAAATAGAT
130 ATAGGAATATAAAAGATTAGAAAAAATAAAT
* * * * * *
641879 ATTAGAATTTATCCCAATAATACCAATTTAATTTAATTGT-TTATTTTTGAAAATACCATTTTGT
1 ATTAGAATTTATCTCGATAGTATCAATTTAATTTAATTTTATTATTTTTGAAAATACCATTTCGT
* * *
641943 ACCCTAATGGAAGCCCGAAAGAATATGAAAGGTTTTTGAAATCTTTTATACCCCTATAGATTCCC
66 A-CCTAATGGAAGCCCGAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCC
642008 ATAGGAATATAAAAGATTAGAAAAAATAAAT
130 ATAGGAATATAAAAGATTAGAAAAAATAAAT
642039 ATTAGAATTTATCTCGATAGTATCAATTTAATTTAATTTTACTTATTTTTGAAAATACCATTTCG
1 ATTAGAATTTATCTCGATAGTATCAATTTAATTTAATTTTA-TTATTTTTGAAAATACCATTTCG
* * * * * * ** *
642104 TGTCGTAATGGAAGCTCGAATGAATACGAAAAGTTTGTGAAGCCTTTTATACCCCTACGGATGCC
65 T-ACCTAATGGAAGCCCGAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCC
* * *
642169 CATAAGAATATAAAAGTTTAGAAAAAAACAAAT
129 CATAGGAATATAAAAGATTAG-AAAAAATAAAT
642202 ATTA
1 ATTA
642206 TTTAATTTTA
Statistics
Matches: 280, Mismatches: 41, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
159 23 0.08
160 131 0.47
161 19 0.07
162 93 0.33
163 14 0.05
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (160 bp):
ATTAGAATTTATCTCGATAGTATCAATTTAATTTAATTTTATTATTTTTGAAAATACCATTTCGT
ACCTAATGGAAGCCCGAAAGAATACGAAAGGTTTTTGAAATCTTTTATACCCCTACAGATGCCCA
TAGGAATATAAAAGATTAGAAAAAATAAAT
Found at i:642911 original size:23 final size:23
Alignment explanation
Indices: 642884--642927 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
642874 TTTAGCTAAC
* *
642884 AACACAAAGAATAGAGAAAAACA
1 AACACAAAAAAAAGAGAAAAACA
642907 AACACAAAAAAAAGAGAAAAA
1 AACACAAAAAAAAGAGAAAAA
642928 GCGAGCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.75, C:0.11, G:0.11, T:0.02
Consensus pattern (23 bp):
AACACAAAAAAAAGAGAAAAACA
Found at i:643305 original size:8 final size:9
Alignment explanation
Indices: 643286--643319 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
643276 CTAGCCTAGA
643286 TTTTCTATT
1 TTTTCTATT
643295 TTTTCTATTT
1 TTTTCTA-TT
*
643305 TTTTCTCTT
1 TTTTCTATT
643314 TTTTCT
1 TTTTCT
643320 CTCTGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCTATT
Found at i:643639 original size:12 final size:13
Alignment explanation
Indices: 643616--643661 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
643606 ATAGCTACAA
643616 AAAATAAAATAAAT
1 AAAAT-AAATAAAT
643630 -AAATAAATAAAT
1 AAAATAAATAAAT
* *
643642 AAAATAAGTTAA-
1 AAAATAAATAAAT
643654 AAAATAAA
1 AAAATAAA
643662 AGGATGAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 15 0.54
13 13 0.46
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:643639 original size:17 final size:18
Alignment explanation
Indices: 643617--643662 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
643607 TAGCTACAAA
643617 AAATAAA-ATAAATAA-AT
1 AAATAAATA-AAATAAGAT
*
643634 AAATAAATAAAATAAGTT
1 AAATAAATAAAATAAGAT
643652 AAA-AAATAAAA
1 AAATAAATAAAA
643663 GGATGAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
AAATAAATAAAATAAGAT
Found at i:643643 original size:21 final size:21
Alignment explanation
Indices: 643617--643661 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
643607 TAGCTACAAA
643617 AAATAAAATAA-ATAAATAAAT
1 AAATAAAATAAGATAAA-AAAT
*
643638 AAATAAAATAAGTTAAAAAAT
1 AAATAAAATAAGATAAAAAAT
643659 AAA
1 AAA
643662 AGGATGAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (21 bp):
AAATAAAATAAGATAAAAAAT
Found at i:644302 original size:325 final size:325
Alignment explanation
Indices: 643823--644721 Score: 966
Period size: 325 Copynumber: 2.7 Consensus size: 325
643813 TAAATTAAAA
* * * * * * * * *** *
643823 TTTTCAAAACTGAATTAATAGGAGTTCAATGACAATATTAGATGAATTTAAAAAATTTTAAATCA
1 TTTTGAAAACTGAATTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATAAAAAAACA
* * * * *
643888 AGAAAAATCCCACCAAAAAATTTACGGAGTAAAAAACTCCATATTTCAGAAAAAAAGAAATTTCA
66 AGAAAAATCCC-CCAAAAAATTTACGAAGTAGAAAACTCCGTATTT-TGAAAAAAAGGAATTTCA
* * *
643953 AGGAAAAAA-TCAAAATTCATGGAAATGAATGAATTTTTGAAAAATTAATTAATATGAAATAAAT
129 AGGAAAAAATTAAAAATTTATGGAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAAT
* * **
644017 AATAATATTTGACAAATTTTAAAAATTAAAAACCAAGGAAAATC-CCCTCCGAAAAAATTTGTGG
194 AATAATATTTG-CGAATTTTAAAAATTAAAAA-CAAGAAAAATCTCCC-CC-AAAAAATTTACGG
* *
644081 AGTAGAAA-AC-TCTGTA-TTTCG-AAAAAAA-TTC-AGGGAAAAAATTCAAAATTTATGGAAAT
255 AGTA-AAAGACTTC-GTATTTTAGAAAAAAAAGTTCAAGGAAAAAAATTCAAAATTTATGGAAAT
644140 GAATGAAT
318 GAATGAAT
**
644148 TTTTGAAAACTGAATTAATATGAATTAAATAATAATATTTTTTGAATTTTAAAAATAAAAAAACA
1 TTTTGAAAACTGAATTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATAAAAAAACA
* * *
644213 AGAAAAATCCCCCGAAAGAATTTACGAAGTAGAAAACTTCGTATTTTGAAAAAAAGGGATTTCAA
66 AGAAAAATCCCCC-AAAAAATTTACGAAGTAGAAAACTCCGTATTTTGAAAAAAAGGAATTTCAA
* *
644278 GGAAAAAATTTAAAATTTATGGAAATGAATGAATTTTTGGAAAAA-GAATTAATATGAAAAAAAT
130 GGAAAAAATTAAAAATTTATGGAAATGAATGAATTTTT-GAAAAATGAATTAATATGAAATAAAT
* * **
644342 AATAATATTTTGGGAATTTT-AAAA-TAAAAA-AAGAAAAATCTTCCCCAAAAAATTTACGGTTT
194 AATAATA-TTTGCGAATTTTAAAAATTAAAAACAAGAAAAATCTCCCCCAAAAAATTTACGGAGT
644404 AAAAGACTTCGTATTTTAGAAAAAAAAGGGGTTTCAAGGAAAAAAATTCAAAATTTATGGAAATG
258 AAAAGACTTCGTATTTTAGAAAAAAAA---G-TTCAAGGAAAAAAATTCAAAATTTATGGAAATG
644469 AATGAAT
319 AATGAAT
* * * * *
644476 TTTTGAAAACTGAGTTAATATGAAATAAATAATAA-ATTCTGATGAATTTTGAAATTAAAAAACC
1 TTTTGAAAACTGAATTAATATGAATTAAATAATAATATT-TGATGAATTTTAAAAATAAAAAAAC
* *
644540 AAGAAAAATCTCTCCAAAAAAATTTACGGAA-TAGAAAACTCCGTA-TTTCAAAAAAGAGAGAAT
65 AAGAAAAATC-C-CCCAAAAAATTTAC-GAAGTAGAAAACTCCGTATTTTGAAAAAA-AG-GAA-
* * * *
644603 TTTCAAGGAAAAAATTCAAAAATTTAT-GAAGATGAATAAAATTTTGAAAACTGATTTAATATGA
124 TTTCAAGGAAAAAATT-AAAAATTTATGGAA-ATGAATGAATTTTTGAAAAATGAATTAATATGA
** ** * *
644667 GTTAAATAATAATATTTTTTGAATTTTAAAAATTAAAAACTGAGAAAATTCTCCC
187 AATAAATAATAATA-TTTGCGAATTTTAAAAATTAAAAAC-AAGAAAAATCTCCC
644722 GAGAAAATTT
Statistics
Matches: 484, Mismatches: 61, Indels: 47
0.82 0.10 0.08
Matches are distributed among these distances:
319 3 0.01
320 18 0.04
321 17 0.04
322 9 0.02
323 6 0.01
324 30 0.06
325 146 0.30
326 10 0.02
327 6 0.01
328 107 0.22
329 26 0.05
330 7 0.01
331 24 0.05
332 54 0.11
333 4 0.01
334 6 0.01
336 11 0.02
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.29
Consensus pattern (325 bp):
TTTTGAAAACTGAATTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATAAAAAAACA
AGAAAAATCCCCCAAAAAATTTACGAAGTAGAAAACTCCGTATTTTGAAAAAAAGGAATTTCAAG
GAAAAAATTAAAAATTTATGGAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATAA
TAATATTTGCGAATTTTAAAAATTAAAAACAAGAAAAATCTCCCCCAAAAAATTTACGGAGTAAA
AGACTTCGTATTTTAGAAAAAAAAGTTCAAGGAAAAAAATTCAAAATTTATGGAAATGAATGAAT
Found at i:644315 original size:164 final size:163
Alignment explanation
Indices: 643823--644775 Score: 902
Period size: 164 Copynumber: 5.8 Consensus size: 163
643813 TAAATTAAAA
* * ** * * * * * ** *
643823 TTTTCAAAACTGAATTAATAGGAGTTCAATGACAATATTAGATGAATTTAAAAAATTTTAAATCA
1 TTTTGAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAA-TAAAAAACA
* * * * * *
643888 AGAAAAATCCCACC-AAAAAATTTACGGAGTAAAAAACTCCATATTTCAGAAAAAAAGAAATTTC
65 AGAAAAATCCC-CCGAAAAAATTTACGAAGTAGAAAACTTCGTATTT-TGAAAAAAAGGAATTTC
*
643952 AAGGAAAAAA-TCAAAATTCATGGAAATGAATGAAT
128 AAGGAAAAAATTCAAAATTTATGGAAATGAATGAAT
* * ** *
643987 TTTTGAAAAATTAATTAATATGAAATAAATAATAATATTTGACAAATTTTAAAAATTAAAAACCA
1 TTTTGAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAA-TAAAAAACA
* ** * *
644052 AGGAAAATCCCCTCCGAAAAAATTTGTGGAGTAGAAAAC-TCTGTATTTCG--AAAAA--AA-TT
65 AGAAAAAT-CCC-CCGAAAAAATTTACGAAGTAGAAAACTTC-GTATTTTGAAAAAAAGGAATTT
*
644111 CAGGGAAAAAATTCAAAATTTATGGAAATGAATGAAT
127 CAAGGAAAAAATTCAAAATTTATGGAAATGAATGAAT
* **
644148 TTTTGAAAACTGAATTAATATGAATTAAATAATAATATTTTTTGAATTTTAAAAATAAAAAAACA
1 TTTTGAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAAT-AAAAAACA
* *
644213 AGAAAAATCCCCCGAAAGAATTTACGAAGTAGAAAACTTCGTATTTTGAAAAAAAGGGATTTCAA
65 AGAAAAATCCCCCGAAAAAATTTACGAAGTAGAAAACTTCGTATTTTGAAAAAAAGGAATTTCAA
*
644278 GGAAAAAATTTAAAATTTATGGAAATGAATGAAT
130 GGAAAAAATTCAAAATTTATGGAAATGAATGAAT
* * *
644312 TTTTGGAAAA-AGAATTAATATGAAAAAAATAATAATATTTTG-GGAATTTT-AAAAT-AAAAA-
1 TTTT-GAAAACTGAATTAATATGAAATAAATAATAATA-TTTGATGAATTTTAAAAATAAAAAAC
*** **
644372 AAGAAAAATCTTCCCC-AAAAAATTTACGGTTTA-AAAGACTTCGTATTTTAGAAAAAAAAGGGG
64 AAGAAAAATC--CCCCGAAAAAATTTACGAAGTAGAAA-ACTTCGTATTTT-G-AAAAAAAGGAA
644435 TTTCAAGGAAAAAAATTCAAAATTTATGGAAATGAATGAAT
124 TTTCAAGG-AAAAAATTCAAAATTTATGGAAATGAATGAAT
* * *
644476 TTTTGAAAACTGAGTTAATATGAAATAAATAATAA-ATTCTGATGAATTTTGAAATTAAAAAACC
1 TTTTGAAAACTGAATTAATATGAAATAAATAATAATATT-TGATGAATTTTAAAAATAAAAAA-C
* * * *
644540 AAGAAAAATCTCTCCAAAAAAATTTACGGAA-TAGAAAACTCCGTA-TTTCAAAAAAGAGAGAAT
64 AAGAAAAATC-CCCCGAAAAAATTTAC-GAAGTAGAAAACTTCGTATTTTGAAAAAA-AG-GAA-
* *
644603 TTTCAAGGAAAAAATTCAAAAATTTAT-GAAGATGAATAAAA
124 TTTCAAGGAAAAAATTC-AAAATTTATGGAA-ATGAATGAAT
* ** ** * *
644644 TTTTGAAAACTGATTTAATATGAGTTAAATAATAATATTTTTTGAATTTTAAAAATTAAAAACTG
1 TTTTGAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATAAAAAAC-A
* * * * * * *
644709 AGAAAATTCTCCCGAGAAAATTTGCGAAGAAGAAAA-TCTCGTAATTTGAAAATAAGAGAAATTT
65 AGAAAAATCCCCCGAAAAAATTTACGAAGTAGAAAACT-TCGTATTTTGAAAA-AA-AGGAATTT
644773 CAA
127 CAA
644776 AAGAAAATCA
Statistics
Matches: 662, Mismatches: 87, Indels: 77
0.80 0.11 0.09
Matches are distributed among these distances:
159 29 0.04
160 31 0.05
161 123 0.19
162 7 0.01
163 37 0.06
164 192 0.29
165 25 0.04
166 36 0.05
167 48 0.07
168 122 0.18
169 12 0.02
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (163 bp):
TTTTGAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATAAAAAACAA
GAAAAATCCCCCGAAAAAATTTACGAAGTAGAAAACTTCGTATTTTGAAAAAAAGGAATTTCAAG
GAAAAAATTCAAAATTTATGGAAATGAATGAAT
Found at i:645888 original size:20 final size:20
Alignment explanation
Indices: 645863--645929 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
645853 GTTTGAAGCA
645863 ATGTATCGATACAATATACC
1 ATGTATCGATACAATATACC
645883 ATGTATCGATAC---AT---
1 ATGTATCGATACAATATACC
645897 -TGTATCGATACAATATACC
1 ATGTATCGATACAATATACC
645916 ATGTATCGATACAA
1 ATGTATCGATACAA
645930 ACAATGGTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 25 0.62
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATATACC
Found at i:645906 original size:33 final size:33
Alignment explanation
Indices: 645864--645928 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
645854 TTTGAAGCAA
645864 TGTATCGATACAATATACCATGTATCGATACAT
1 TGTATCGATACAATATACCATGTATCGATACAT
645897 TGTATCGATACAATATACCATGTATCGATACA
1 TGTATCGATACAATATACCATGTATCGATACA
645929 AACAATGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAATATACCATGTATCGATACAT
Found at i:645908 original size:13 final size:13
Alignment explanation
Indices: 645884--645908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
645874 CAATATACCA
645884 TGTATCGATACAT
1 TGTATCGATACAT
645897 TGTATCGATACA
1 TGTATCGATACA
645909 ATATACCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:646033 original size:19 final size:20
Alignment explanation
Indices: 645958--646032 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
645948 CTGCCAATTT
645958 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
*
645978 CATGTTTCGATACAATTGTC
1 CATGTATCGATACAATTGTC
**
645998 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTC
646017 CATGTATCGATACAAT
1 CATGTATCGATACAAT
646033 GTATTGATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.34
20 33 0.66
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTC
Found at i:646150 original size:20 final size:20
Alignment explanation
Indices: 646122--646173 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
646112 GTCAACCATA
*
646122 ATGTGTCGATACAAATACCT
1 ATGTATCGATACAAATACCT
646142 ATGTATCGATACAAATACCT
1 ATGTATCGATACAAATACCT
646162 ATGTATCGATAC
1 ATGTATCGATAC
646174 TTTGAAGTAT
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:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAAATACCT
Found at i:648450 original size:22 final size:21
Alignment explanation
Indices: 648412--648466 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
648402 CTGTTTTTGT
648412 TGAAGATTTT-AA-TGAAAAA
1 TGAAGATTTTGAAGTGAAAAA
648431 TGAAGTATTTTGAAGTGAAAAA
1 TGAAG-ATTTTGAAGTGAAAAA
*
648453 T-AAGAAATTTGAAG
1 TGAAG-ATTTTGAAG
648467 AAGATTTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.16
20 5 0.16
21 13 0.42
22 8 0.26
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (21 bp):
TGAAGATTTTGAAGTGAAAAA
Found at i:654815 original size:13 final size:13
Alignment explanation
Indices: 654774--654859 Score: 70
Period size: 13 Copynumber: 7.5 Consensus size: 13
654764 CCGTTTGAAG
654774 CAATGTATCGATA
1 CAATGTATCGATA
654787 CAA--T-TC-AT-
1 CAATGTATCGATA
654795 C-ATGTATCGATA
1 CAATGTATCGATA
*
654807 CATTGTATCGATA
1 CAATGTATCGATA
654820 CAATGTA-C----
1 CAATGTATCGATA
654828 C-ATGTATCGATA
1 CAATGTATCGATA
*
654840 CATTGTATCGATA
1 CAATGTATCGATA
654853 CAATGTA
1 CAATGTA
654860 CCATGTATTG
Statistics
Matches: 57, Mismatches: 4, Indels: 24
0.67 0.05 0.28
Matches are distributed among these distances:
7 6 0.11
8 3 0.05
9 3 0.05
10 4 0.07
11 3 0.05
12 3 0.05
13 35 0.61
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:654819 original size:33 final size:33
Alignment explanation
Indices: 654777--654874 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
654767 TTTGAAGCAA
*
654777 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
654810 TGTATCGATACAATGTACCATGTATCGATACAT
1 TGTATCGATACAATGTACCATGTATCGATACAT
*
654843 TGTATCGATACAATGTACCATGTATTGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
654875 AATAGTGGTA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 61 0.98
34 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:654835 original size:20 final size:20
Alignment explanation
Indices: 654810--654875 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
654800 ATCGATACAT
654810 TGTATCGATACAATGTACCA
1 TGTATCGATACAATGTACCA
654830 TGTATCGATAC-A--T----
1 TGTATCGATACAATGTACCA
654843 TGTATCGATACAATGTACCA
1 TGTATCGATACAATGTACCA
*
654863 TGTATTGATACAA
1 TGTATCGATACAA
654876 ATAGTGGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 23 0.61
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAATGTACCA
Found at i:655537 original size:42 final size:42
Alignment explanation
Indices: 655472--655560 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
655462 TAAAAACAAA
655472 ATTTTCTTCTGCGAATTCACCTTTTTGATCCAAGAAAAGCAG
1 ATTTTCTTCTGCGAATTCACCTTTTTGATCCAAGAAAAGCAG
* * * *
655514 ATTTTCTTCTGCGGATTCGCCTTTTTGATCTAAGAAAAGTAG
1 ATTTTCTTCTGCGAATTCACCTTTTTGATCCAAGAAAAGCAG
655556 ATTTT
1 ATTTT
655561 TCCATCGCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (42 bp):
ATTTTCTTCTGCGAATTCACCTTTTTGATCCAAGAAAAGCAG
Found at i:656012 original size:155 final size:155
Alignment explanation
Indices: 655730--656037 Score: 444
Period size: 155 Copynumber: 2.0 Consensus size: 155
655720 TCTACATTAA
* * * *
655730 GTACTTCTACGTCGAAAGTATCCCATAGGAGCATTTTCGTAATTTTCTAGAACCAACTCCTGGGT
1 GTACTTCTACGTCGAAAGTATCCCATAGGAGCACTTTCATAATTTTCTAAAACCAACTCCTAGGT
* *
655795 TGTCACTGGTTTTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATTCCATATTAAACCT
66 TGTCACTGGGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATTCCATATTAAACCT
655860 TTTTTAAG-TCTTTTAGGGGTATCGG
131 TTTTTAAGTTC-TTTAGGGGTATCGG
* * * *
655885 GTACTTCTACGTTGAAGGTATCCCCTAGGGGCACTTTCATAATTTT-TCAAAACCAACTCCTAGG
1 GTACTTCTACGTCGAAAGTATCCCATAGGAGCACTTTCATAATTTTCT-AAAACCAACTCCTAGG
* *
655949 TTGTCA-TCGGGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCA-TCCTGTCTTAAA
65 TTGTCACT-GGGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATTCC-ATATTAAA
656012 CCTTTTTTAAGTTCTTTAGGGGTATC
128 CCTTTTTTAAGTTCTTTAGGGGTATC
656038 ATATATTTCT
Statistics
Matches: 137, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
154 5 0.04
155 130 0.95
156 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (155 bp):
GTACTTCTACGTCGAAAGTATCCCATAGGAGCACTTTCATAATTTTCTAAAACCAACTCCTAGGT
TGTCACTGGGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATTCCATATTAAACCT
TTTTTAAGTTCTTTAGGGGTATCGG
Found at i:656058 original size:155 final size:156
Alignment explanation
Indices: 655731--656086 Score: 436
Period size: 155 Copynumber: 2.3 Consensus size: 156
655721 CTACATTAAG
* * * *
655731 TACTTCTACGTCGAAA-GTATCCCATAGGAGCATTTTCGTAA-TTTTCTAGAACCAACTCCTGGG
1 TACTTCTACATC-AAAGGTATCCCATAGGGGCATTTTCGTAATTTTTCTAAAACCAACTCCTAGG
* *
655794 TTGTCACTGGTTTTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATTCCATATTAAACC
65 TTGTCACTGGGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATTCCATATTAAACC
* *
655859 TTTTTTAAGTCTTTTAGGGGTATCGGG
130 TTTTTTAAGTCTTTTAGGGGTATCAGA
* ** * * *
655886 TACTTCTACGTTGAAGGTATCCCCTAGGGGCACTTTCATAATTTTTC-AAAACCAACTCCTAGGT
1 TACTTCTACATCAAAGGTATCCCATAGGGGCATTTTCGTAATTTTTCTAAAACCAACTCCTAGGT
* *
655950 TGTCA-TCGGGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCA-TCCTGTCTTAAAC
66 TGTCACT-GGGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATTCC-ATATTAAAC
*
656013 CTTTTTTAAGT-TCTTTAGGGGTATCATA
129 CTTTTTTAAGTCT-TTTAGGGGTATCAGA
* * * * *
656041 TATTTCTATATCAAAGGTATCTCTTAGGGGTATTTTCGTAATTTTT
1 TACTTCTACATCAAAGGTATCCCATAGGGGCATTTTCGTAATTTTT
656087 TATGAAATGA
Statistics
Matches: 171, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
154 7 0.04
155 159 0.93
156 5 0.03
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (156 bp):
TACTTCTACATCAAAGGTATCCCATAGGGGCATTTTCGTAATTTTTCTAAAACCAACTCCTAGGT
TGTCACTGGGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCATTCCATATTAAACCT
TTTTTAAGTCTTTTAGGGGTATCAGA
Found at i:661096 original size:28 final size:28
Alignment explanation
Indices: 661056--661122 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
661046 AAAATAAGCT
661056 TTGGAGTATCCCTTCGGAGATGGTAGGG
1 TTGGAGTATCCCTTCGGAGATGGTAGGG
661084 TTGGAGTATCCCTTCGGAGATGGTAGGG
1 TTGGAGTATCCCTTCGGAGATGGTAGGG
*
661112 TTGAAGTATCC
1 TTGGAGTATCC
661123 ACAAAAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.19, C:0.15, G:0.36, T:0.30
Consensus pattern (28 bp):
TTGGAGTATCCCTTCGGAGATGGTAGGG
Found at i:664110 original size:21 final size:20
Alignment explanation
Indices: 664081--664123 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
664071 GGCTAGTATG
* *
664081 GGGACTGCCTGGTTGCGACCT
1 GGGACTGCC-GATCGCGACCT
*
664102 GGGAGTGCCGATCGCGACCT
1 GGGACTGCCGATCGCGACCT
664122 GG
1 GG
664124 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.12, C:0.28, G:0.42, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGATCGCGACCT
Found at i:664582 original size:13 final size:13
Alignment explanation
Indices: 664564--664588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
664554 ATAATCTCCC
664564 TGTATCGATACAG
1 TGTATCGATACAG
664577 TGTATCGATACA
1 TGTATCGATACA
664589 TTCGATACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:666698 original size:15 final size:15
Alignment explanation
Indices: 666678--666708 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
666668 ATTTCGTTTG
*
666678 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
666693 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
666708 G
1 G
666709 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:668539 original size:21 final size:21
Alignment explanation
Indices: 668510--668554 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
668500 AAGTTTTTAT
*
668510 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
668530 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
668552 TTT
1 TTT
668555 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:670480 original size:32 final size:30
Alignment explanation
Indices: 670444--670502 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
670434 GAAATCAAAT
670444 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
670476 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
670503 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:670734 original size:20 final size:20
Alignment explanation
Indices: 670692--670730 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
670682 CGTGTGAATG
* *
670692 TATCGATACAATTTTTGATA
1 TATCGATACAATATTTGAAA
670712 TATCGATAC-ATATTTGAAA
1 TATCGATACAATATTTGAAA
670731 ATATAGCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACAATATTTGAAA
Found at i:670790 original size:13 final size:13
Alignment explanation
Indices: 670772--670797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
670762 AATTTTTTTG
670772 TGTATCGATACAT
1 TGTATCGATACAT
670785 TGTATCGATACAT
1 TGTATCGATACAT
670798 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:680673 original size:20 final size:20
Alignment explanation
Indices: 680650--680702 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
680640 ACAATTCAAA
680650 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
680670 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
680690 GTATCGATACATG
1 GTATCGATACATG
680703 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:680815 original size:33 final size:31
Alignment explanation
Indices: 680754--680816 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
680744 TAGCCAAACT
*
680754 TGTATCGATACACAAAGTAGTATCGATACAA
1 TGTATCGATACACAAAATAGTATCGATACAA
*
680785 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACAC--AAAATAGTATCGATACA
680817 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 13 0.46
33 15 0.54
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (31 bp):
TGTATCGATACACAAAATAGTATCGATACAA
Found at i:684835 original size:15 final size:15
Alignment explanation
Indices: 684815--684845 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
684805 TAAAAATGTC
*
684815 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
684830 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
684845 C
1 C
684846 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:686945 original size:13 final size:13
Alignment explanation
Indices: 686923--686960 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
686913 CATTTTTCTT
686923 TGTATCGATACAA
1 TGTATCGATACAA
* *
686936 TGTATTGATACAC
1 TGTATCGATACAA
686949 TGTATCGATACA
1 TGTATCGATACA
686961 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:689521 original size:20 final size:20
Alignment explanation
Indices: 689476--689527 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
689466 GTAGCCAAAC
**
689476 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
689496 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
689515 TTGTATCGATACA
1 TTGTATCGATACA
689528 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:690483 original size:13 final size:13
Alignment explanation
Indices: 690465--690491 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
690455 ACATTTCTTC
690465 ATGTATCGATACA
1 ATGTATCGATACA
690478 ATGTATCGATACA
1 ATGTATCGATACA
690491 A
1 A
690492 ATAGTGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:690565 original size:19 final size:20
Alignment explanation
Indices: 690520--690573 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
690510 CTATCAGTTT
*
690520 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAC
*
690541 CATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAC
690560 CATGTATCGATACA
1 CATGTATCGATACA
690574 TCTAGGTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 16 0.52
21 15 0.48
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAC
Found at i:691158 original size:21 final size:19
Alignment explanation
Indices: 691112--691159 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
691102 TAAACGATTA
691112 TCTCCTCCTTTAAAAATTCT
1 TCTCC-CCTTTAAAAATTCT
* *
691132 TTTCCCCTTTAACAATTATCT
1 TCTCCCCTTTAA-AAAT-TCT
691153 TCTCCCC
1 TCTCCCC
691160 CTTTTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 9 0.39
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (19 bp):
TCTCCCCTTTAAAAATTCT
Found at i:693051 original size:13 final size:13
Alignment explanation
Indices: 693033--693074 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
693023 AAATAGTACC
693033 CAATGTATCAATA
1 CAATGTATCAATA
*
693046 CAATGTATCGATA
1 CAATGTATCAATA
693059 CAATGTATCAATA
1 CAATGTATCAATA
693072 CAA
1 CAA
693075 GGAATGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (13 bp):
CAATGTATCAATA
Found at i:699371 original size:33 final size:32
Alignment explanation
Indices: 699314--699375 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
699304 TTTGTCCATG
*
699314 TATCGATACAATGAACATGTATCGATACAATA
1 TATCGATACAAAGAACATGTATCGATACAATA
*
699346 TATCGATACAAAGCAGCATGTATCGATACA
1 TATCGATACAAAG-AACATGTATCGATACA
699376 TCTTGGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACAATA
Found at i:704544 original size:63 final size:62
Alignment explanation
Indices: 704477--705205 Score: 335
Period size: 63 Copynumber: 11.5 Consensus size: 62
704467 ATTAGTAAAA
* * *
704477 TCTGCCTTAGTCACCTTTTTGACTATTATGGTTTTGCTCTGATCAATATTTCCAACTAAAGGT
1 TCTGCCTTAGTCACCTCTTTGACTATTATGGTTTTGC-CTGATCAATCTTTTCAACTAAAGGT
* * * * * * * * *
704540 TCTG-CTCCAATCATCTATTTGACTATTATTGTTTTTCCTTAATCAATATTTTCAACCAAAGGT
1 TCTGCCT-TAGTCACCTCTTTGACTATTATGGTTTTGCC-TGATCAATCTTTTCAACTAAAGGT
* * * * * * * *
704603 TCTACCTTGGTCACATATTTAACTATTATTTATGGTTTTGCCTTGGTCAATCTTTTCTATTAAA-
1 TCTGCCTTAGTCACCTCTTTGAC---TA-TTATGGTTTTGCC-TGATCAATCTTTTCAACTAAAG
704667 GT
61 GT
* * * * * ** ** **
704669 TTTCGCCCTAGTTATCTCTTTAACTATTATGGTTTCACCTTCTCAATCTTTTTGACTAAAGGT
1 TCT-GCCTTAGTCACCTCTTTGACTATTATGGTTTTGCCTGATCAATCTTTTCAACTAAAGGT
*** * * * * * * * ** * * *
704732 TCCATCTTGGTCAACTCTTTGACTACTATGATTTTACCTTGGTTAATCTTTTTGACTGATGAT
1 TCTGCCTTAGTCACCTCTTTGACTATTATGGTTTTGCC-TGATCAATCTTTTCAACTAAAGGT
* * * * *
704795 TCTGCCTT-GTTCA-CTTTCTTGACTATTATGGTTTCGCCTTAATCAATC-TTTCGACTATTAGG
1 TCTGCCTTAG-TCACCTCT-TTGACTATTATGGTTTTGCC-TGATCAATCTTTTCAACTA-AAGG
704857 T
62 T
* * ** * * * * * * *
704858 TTTGCCCTAGTCATTTCTTTGCCTAGTA-CGTTTTTCCTTGATTAATCTTTTTAACTAAAGTT
1 TCTGCCTTAGTCACCTCTTTGACTATTATGGTTTTGCC-TGATCAATCTTTTCAACTAAAGGT
** * * * * * * *
704920 TCCACCTTGGTCACCTCATTGATTATAATGGTTTTTCCTTGGTCAATCTTTTCGACTAAAGGT
1 TCTGCCTTAGTCACCTCTTTGACTATTATGGTTTTGCC-TGATCAATCTTTTCAACTAAAGGT
* * *
704983 T-TCGCCCTAGTCATCTCTTTGACTATTATGGTTTTGCTCT-AGTTAATC-TTTCTAACTAAAGG
1 TCT-GCCTTAGTCACCTCTTTGACTATTATGGTTTTGC-CTGA-TCAATCTTTTC-AACTAAAGG
705045 T
62 T
* * * * * * * *
705046 TCCGCCTTGGTTACCTCCTTGACTATTATGGTTTTGCCTTAGTTAATCTTCTCAACTAATGGT
1 TCTGCCTTAGTCACCTCTTTGACTATTATGGTTTTGCCTGA-TCAATCTTTTCAACTAAAGGT
* * * * * * * *
705109 TCTACCCTAGTCACCTCTTTGCCTTTTATGGTTTTGCCTTAGTTAATC-TTTCGACTAGTAGGT
1 TCTGCCTTAGTCACCTCTTTGACTATTATGGTTTTGCCTGA-TCAATCTTTTCAACTA-AAGGT
* * * *
705172 TTTGCCTTGGTCACCTTTTTAACTATTATGGTTT
1 TCTGCCTTAGTCACCTCTTTGACTATTATGGTTT
705206 CACCTTGGTA
Statistics
Matches: 495, Mismatches: 146, Indels: 50
0.72 0.21 0.07
Matches are distributed among these distances:
62 101 0.20
63 337 0.68
64 11 0.02
66 6 0.01
67 40 0.08
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.46
Consensus pattern (62 bp):
TCTGCCTTAGTCACCTCTTTGACTATTATGGTTTTGCCTGATCAATCTTTTCAACTAAAGGT
Found at i:705056 original size:126 final size:125
Alignment explanation
Indices: 704813--705205 Score: 389
Period size: 126 Copynumber: 3.1 Consensus size: 125
704803 GTTCACTTTC
* * * * * *
704813 TTGACTATTATGGTTTCGCCTTAATCAATC-TTTCGACTATTAGGTTTTGCCCTAGTCATTTCTT
1 TTGACTATAATGGTTTTGCCTTAGTCAATCTTTTCGACTA-AAGGTTTCGCCCTAGTCATCTCTT
* * * * * * *
704877 TGCCTAGTA-CGTTTTTCCTTGATTAATCTTTTTAACTAAAGTTTCCACCTTGGTCACCTCA
65 TGCCTATTATGGTTTTGCCTAG-TTAATCTTTCTAACTAAAGGTTCCGCCTTGGTCACCTCA
* * *
704938 TTGATTATAATGGTTTTTCCTTGGTCAATCTTTTCGACTAAAGGTTTCGCCCTAGTCATCTCTTT
1 TTGACTATAATGGTTTTGCCTTAGTCAATCTTTTCGACTAAAGGTTTCGCCCTAGTCATCTCTTT
* * *
705003 GACTATTATGGTTTTGCTCTAGTTAATCTTTCTAACTAAAGGTTCCGCCTTGGTTACCTCC
66 GCCTATTATGGTTTTGC-CTAGTTAATCTTTCTAACTAAAGGTTCCGCCTTGGTCACCTCA
* * * * * * *
705064 TTGACTATTATGGTTTTGCCTTAGTTAATCTTCTCAACTAATGG-TTCTACCCTAGTCACCTCTT
1 TTGACTATAATGGTTTTGCCTTAGTCAATCTTTTCGACTAAAGGTTTC-GCCCTAGTCATCTCTT
* * * ** **
705128 TGCCTTTTATGGTTTTGCCTTAGTTAATCTTTC-GACTAGTAGGTTTTGCCTTGGTCACCTTT
65 TGCCTATTATGGTTTTGCC-TAGTTAATCTTTCTAACTA-AAGGTTCCGCCTTGGTCACCTCA
* *
705190 TTAACTATTATGGTTT
1 TTGACTATAATGGTTT
705206 CACCTTGGTA
Statistics
Matches: 223, Mismatches: 39, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
125 60 0.27
126 160 0.72
127 3 0.01
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (125 bp):
TTGACTATAATGGTTTTGCCTTAGTCAATCTTTTCGACTAAAGGTTTCGCCCTAGTCATCTCTTT
GCCTATTATGGTTTTGCCTAGTTAATCTTTCTAACTAAAGGTTCCGCCTTGGTCACCTCA
Found at i:705108 original size:31 final size:30
Alignment explanation
Indices: 705010--705179 Score: 83
Period size: 31 Copynumber: 5.4 Consensus size: 30
705000 TTTGACTATT
705010 ATGGTTTTG-CTCTAGTTAATCTTTCTAACTA
1 ATGGTTTTGCCT-TAGTTAATCTTTC-AACTA
* ** * * * *
705041 AAGGTTCCGCCTTGGTTACCTCCTT-GACTA
1 ATGGTTTTGCCTTAGTTA-ATCTTTCAACTA
705071 TTATGGTTTTGCCTTAGTTAATCTTCTCAACTA
1 --ATGGTTTTGCCTTAGTTAATCTT-TCAACTA
* * * * * *** *
705104 ATGGTTCTACCCTAGTCACCTCTTTGCCTTTT
1 ATGGTTTTGCCTTAGTTA-ATCTTT-CAACTA
*
705136 ATGGTTTTGCCTTAGTTAATCTTTCGACTA
1 ATGGTTTTGCCTTAGTTAATCTTTCAACTA
*
705166 GTAGGTTTTGCCTT
1 AT-GGTTTTGCCTT
705180 GGTCACCTTT
Statistics
Matches: 97, Mismatches: 33, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
30 7 0.07
31 45 0.46
32 41 0.42
33 4 0.04
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.45
Consensus pattern (30 bp):
ATGGTTTTGCCTTAGTTAATCTTTCAACTA
Found at i:705509 original size:124 final size:124
Alignment explanation
Indices: 705356--705579 Score: 301
Period size: 124 Copynumber: 1.8 Consensus size: 124
705346 TCCTGATCAC
* * * * * **
705356 CTCTTTGACTATTATGGTTTCACCTTAGTCAATCTTTCC-AACTGAATGTTCTA-CCGTGGTCAC
1 CTCTTTAACTATTATGGTTTCACCCTAGTCAAT-ATTCCTAACTGAAGGTTCCATCC-TAATCAC
* *
705419 CTTCTTGACTATTATGGTTTTGCCTTT-ATTAATTTTTGATTGAAAGTTTCACCCTAGTTTT
64 CTTCTTAACTATTATGGTTTTG-CTTTGATCAATTTTTGATTGAAAGTTTCACCCTAGTTTT
* *
705480 CTCTTTAACTATTATGGTTTCGCCCTAGTCAATATTCCTTACTGAAGGTTCCATCCTAATCACCT
1 CTCTTTAACTATTATGGTTTCACCCTAGTCAATATTCCTAACTGAAGGTTCCATCCTAATCACCT
705545 TCTTAACTATTATGGTTTTGCTTTGATCAATTTTT
66 TCTTAACTATTATGGTTTTGCTTTGATCAATTTTT
705580 TAACCAAAGG
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
123 8 0.09
124 76 0.88
125 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (124 bp):
CTCTTTAACTATTATGGTTTCACCCTAGTCAATATTCCTAACTGAAGGTTCCATCCTAATCACCT
TCTTAACTATTATGGTTTTGCTTTGATCAATTTTTGATTGAAAGTTTCACCCTAGTTTT
Found at i:705649 original size:125 final size:123
Alignment explanation
Indices: 705352--705649 Score: 294
Period size: 124 Copynumber: 2.4 Consensus size: 123
705342 TTCATCCTGA
* * ** * * **
705352 TCACCTCTTTGACTATTATGGTTTCACCTTAGTCAATCTTTCCAACTGAATGTTCTACCGTGGTC
1 TCACCTCTTTAACTATTATGGTTTCACCCTAGTCAATCTTT-TTACTGAAGGTTCCACCGTAATC
* * ***
705417 ACCTTCTTGACTATTATGGTTTTGCCTTTATTAATTTTTGATTGAAAGTTTCACCCTAG
65 ACCTTCTTAACTATTATGGTTTTGCCTTTATCAATTTTTGAACCAAAGTTTCACCCTAG
*** * * *
705476 TTTTCTCTTTAACTATTATGGTTTCGCCCTAGTCAATATTCCTTACTGAAGGTTCCATCC-TAAT
1 TCACCTCTTTAACTATTATGGTTTCACCCTAGTCAATCTT-TTTACTGAAGGTTCCA-CCGTAAT
* * *
705540 CACCTTCTTAACTATTATGGTTTTG-CTTTGATCAATTTTTTAACCAAAGGTTTGACCCTTG
64 CACCTTCTTAACTATTATGGTTTTGCCTTT-ATCAATTTTTGAACCAAA-GTTTCACCCTAG
* * * *
705601 TCACCTTTTTTACTATCATGGTTTTACCCTAGTCAATCTTTTTGACTGA
1 TCACCTCTTTAACTATTATGGTTTCACCCTAGTCAATCTTTTT-ACTGA
705650 TAATACTACC
Statistics
Matches: 137, Mismatches: 32, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
123 4 0.03
124 85 0.62
125 48 0.35
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.44
Consensus pattern (123 bp):
TCACCTCTTTAACTATTATGGTTTCACCCTAGTCAATCTTTTTACTGAAGGTTCCACCGTAATCA
CCTTCTTAACTATTATGGTTTTGCCTTTATCAATTTTTGAACCAAAGTTTCACCCTAG
Found at i:714656 original size:33 final size:33
Alignment explanation
Indices: 714619--714685 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
714609 GTTACAAGCT
714619 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTATAC--CATGTATCGATACA
714652 ATGTATCGATACATTATACCATGTATCGATACA
1 ATGTATCGATACATTATACCATGTATCGATACA
714685 A
1 A
714686 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTATACCATGTATCGATACA
Found at i:714670 original size:20 final size:20
Alignment explanation
Indices: 714647--714684 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
714637 TCATGTATCG
714647 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
714667 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
714685 AATAGTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:714683 original size:13 final size:13
Alignment explanation
Indices: 714639--714664 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
714629 ACATTTCTTC
714639 ATGTATCGATACA
1 ATGTATCGATACA
714652 ATGTATCGATACA
1 ATGTATCGATACA
714665 TTATACCATG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:714759 original size:19 final size:19
Alignment explanation
Indices: 714714--714770 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
714704 CTGCTAGTTT
**
714714 CATGTATCGATACAACTTGTC
1 CATGTATCGATACAA--TGAA
714735 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
714754 CATGTATCGATATAATG
1 CATGTATCGATACAATG
714771 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:714777 original size:32 final size:33
Alignment explanation
Indices: 714736--714798 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
714726 CAACTTGTCC
*
714736 ATGTATCGATACAATG-A-ACATGTATCGATATA
1 ATGTATCGATACAAAGCAGA-ATGTATCGATATA
714768 ATGTATCGATACAAAGCAGAATGTATCGATA
1 ATGTATCGATACAAAGCAGAATGTATCGATA
714799 CATCTGGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAGAATGTATCGATATA
Found at i:716549 original size:155 final size:152
Alignment explanation
Indices: 716267--716740 Score: 581
Period size: 155 Copynumber: 3.1 Consensus size: 152
716257 AAAATCACCA
* * * * *
716267 TCTCTAGTCTTTTTAAGTCCTTTAAGGGTACCGAGATATTTTAACGTCGAAGGTTTCCCCTAGGG
1 TCTCTAGTC-TTTTAAGTCCTTTAGGGGTACTGAGATACTTTAACGTCAAAGGTATCCCCTAGGG
* * * * *
716332 GCATTTTTATAATTTTTTAGAACCAACTCATAGGTCGTCACCGGGTCTGCTTTTATGCCGAAGAT
65 GTATTTTTGTAATTTTTTTGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATG-CGAAG-T
716397 GGGCATTTAGGATAGGTTCATCCCT
128 GGGCATTTAGGATAGGTTCATCCCT
* * * * * *
716422 TCTCTAATATTTTCAAGTCTTTTAGGGGTACTGAGATACTTTAACGTCAAAAGTATCCCCTAAGA
1 TCTCTAGTCTTTT-AAGTCCTTTAGGGGTACTGAGATACTTTAACGTCAAAGGTATCCCCTAGGG
* **
716487 GTATTTTTGTAATTTTTTTGAACCAACTCCTAGGTTGTCACTAGGTCCGCTTTTATGTCGAAGGT
65 GTATTTTTGTAATTTTTTTGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATG-CGAA-GT
716552 GGGCATTTAGGATAGGTTCATCCCT
128 GGGCATTTAGGATAGGTTCATCCCT
* * * *
716577 TCTCTAGTCCTCTTAAGTCCTTTAGGGGTACT-AGGATACTTTCATGTCAAAGGTATCTCCTAGG
1 TCTCTAGT-CTTTTAAGTCCTTTAGGGGTACTGA-GATACTTTAACGTCAAAGGTATCCCCTAGG
* * * * * *
716641 GGTGTTTTTGTATTTTTTTTAGAACCAACTTCTAGGTCGTCACCGGGTTCACTTTTGTGCTGAAT
64 GGTATTTTTGTAATTTTTTT-GAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATGC-GAA-
716706 GTGGGCATTTAGGATAGGTTCATCCCT
126 GTGGGCATTTAGGATAGGTTCATCCCT
716733 TCTCTAGT
1 TCTCTAGT
716741 TTGTAAGCTC
Statistics
Matches: 273, Mismatches: 40, Indels: 11
0.84 0.12 0.03
Matches are distributed among these distances:
154 5 0.02
155 195 0.71
156 73 0.27
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (152 bp):
TCTCTAGTCTTTTAAGTCCTTTAGGGGTACTGAGATACTTTAACGTCAAAGGTATCCCCTAGGGG
TATTTTTGTAATTTTTTTGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATGCGAAGTGGG
CATTTAGGATAGGTTCATCCCT
Found at i:717514 original size:20 final size:20
Alignment explanation
Indices: 717489--717541 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
717479 ATTGGGCATA
717489 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTAC--C
717509 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
717529 ATGTATCGATACA
1 ATGTATCGATACA
717542 TTTCACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:717613 original size:19 final size:19
Alignment explanation
Indices: 717570--717625 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
717560 CTGCCAGTTT
717570 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
* *
717590 TATGTATCTATACAATGAG
1 CATGTATCGATACAATGAG
717609 CATGTATCGATACAATG
1 CATGTATCGATACAATG
717626 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:717628 original size:13 final size:13
Alignment explanation
Indices: 717610--717636 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
717600 TACAATGAGC
717610 ATGTATCGATACA
1 ATGTATCGATACA
717623 ATGTATCGATACA
1 ATGTATCGATACA
717636 A
1 A
717637 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:726468 original size:13 final size:13
Alignment explanation
Indices: 726450--726479 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
726440 ACAATTCTTC
*
726450 ATGTATCGGTACA
1 ATGTATCGATACA
726463 ATGTATCGATACA
1 ATGTATCGATACA
726476 ATGT
1 ATGT
726480 CCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:726475 original size:33 final size:33
Alignment explanation
Indices: 726429--726495 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
726419 CGTTGGGCAT
* *
726429 AATGTATCAATACAAT-TCTTCATGTATCGGTAC
1 AATGTATCAATACAATGTC-CCATGTATCGATAC
*
726462 AATGTATCGATACAATGTCCCATGTATCGATAC
1 AATGTATCAATACAATGTCCCATGTATCGATAC
726495 A
1 A
726496 TTTCACTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.33
Consensus pattern (33 bp):
AATGTATCAATACAATGTCCCATGTATCGATAC
Found at i:726567 original size:19 final size:20
Alignment explanation
Indices: 726524--726574 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
726514 CTGCCAGTTT
726524 CATGTATCAATACAATTGAG
1 CATGTATCAATACAATTGAG
* *
726544 TATGTATCTATACAA-TGAG
1 CATGTATCAATACAATTGAG
726563 CATGTATCAATA
1 CATGTATCAATA
726575 TAATGTATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (20 bp):
CATGTATCAATACAATTGAG
Found at i:727570 original size:311 final size:310
Alignment explanation
Indices: 726898--727593 Score: 872
Period size: 311 Copynumber: 2.2 Consensus size: 310
726888 CCTAACATAG
* *
726898 TCTTTTTAAGTCCTTTAGTGGTATCGAGATACTTTCACGTCGAAGGTATCCCTTAGGGGCATTTT
1 TCTTTTTAAGTCCTTTAGAGGTATCGGGATACTTTCACGTCGAAGGTATCCCTTAGGGGCATTTT
* * *
726963 TATAATTTTTTAGAATCAACTCCTAGGTCATCAGCAGGTTCGCTTTTATGCTGAAGGTGGGCATT
66 TGTAATTTTTTAGAATCAACTCCTAGGTCATCACCAGGTTCGCTTTTATGCTGAAAGTGGGCATT
* * *
727028 TAGGATAGGCTCATCCCTTCTCTGGTCTTTTTAAGCCCTTTAGGGGTACCAGGATATTTTCACGT
131 TAGGATAGGATCATCCCTTCTCTAGTCTTTTTAAGCCCTTTAGGGGTACCAGGATACTTTCACGT
* * * * *
727093 CGAAGGTATCCCATAAGGGCATTTTCGTAATTTTTTTAGAACCAACTCCTAGGTCGTCACCGGGT
196 CAAAGGTACCCCATAAGGGCATTTTCATAA-TTTTTTAGAACCAACTCCTAGGTCATCACCAGGT
* * *
727158 CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCATTCTCTAG
260 CCGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCATTCTATAA
* *
727209 TCTTTTTAAGTCCTTTAGAGGTA-CTGGAATACTTTCACGTCAAAGGTATCCCTTAGGGGCATTT
1 TCTTTTTAAGTCCTTTAGAGGTATC-GGGATACTTTCACGTCGAAGGTATCCCTTAGGGGCATTT
* * *
727273 TTGTAATTTTTTTGAA-CTAACTCTTGGGTCATCACC-GAG-TCTGCTTTTATG-TCGAAAGTGG
65 TTGTAATTTTTTAGAATC-AACTCCTAGGTCATCACCAG-GTTC-GCTTTTATGCT-GAAAGTGG
* * *
727334 GCATTTAGGGTAGGATCATCCCTTCTCTAGT-TTTCTTAAGTCCTTTAGGGGTACCGGGATACTT
126 GCATTTAGGATAGGATCATCCCTTCTCTAGTCTTT-TTAAGCCCTTTAGGGGTACCAGGATACTT
*
727398 TCACGTCAAAGGTACCCCCATAGGGGCATTTTCATAA-TTTTTA-AATCCAACTCCTAGGTCATC
190 TCACGTCAAAGGTA-CCCCATAAGGGCATTTTCATAATTTTTTAGAA-CCAACTCCTAGGTCATC
* * * *
727461 ACTAGGTTCGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCTTTTTATAAA
253 ACCAGGTCCGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCATTCTAT-AA
** * * * * * *
727520 TCCTTTTTTGGTCCTTTAGGGGTATCGGGA-ACTTTTATGTCGAGGGTAT-CCTCTAGAGCCATT
1 T-CTTTTTAAGTCCTTTAGAGGTATCGGGATACTTTCACGTCGAAGGTATCCCT-TAGGGGCATT
*
727583 TTCGTAATTTT
64 TTTGTAATTTT
727594 CCTTAAACTT
Statistics
Matches: 333, Mismatches: 40, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
309 2 0.01
310 83 0.25
311 206 0.62
312 41 0.12
313 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (310 bp):
TCTTTTTAAGTCCTTTAGAGGTATCGGGATACTTTCACGTCGAAGGTATCCCTTAGGGGCATTTT
TGTAATTTTTTAGAATCAACTCCTAGGTCATCACCAGGTTCGCTTTTATGCTGAAAGTGGGCATT
TAGGATAGGATCATCCCTTCTCTAGTCTTTTTAAGCCCTTTAGGGGTACCAGGATACTTTCACGT
CAAAGGTACCCCATAAGGGCATTTTCATAATTTTTTAGAACCAACTCCTAGGTCATCACCAGGTC
CGCTTTTATGCCGAAAGTGGGCATTTAGGATAGGTTCATCCATTCTATAA
Found at i:727583 original size:155 final size:154
Alignment explanation
Indices: 726895--727593 Score: 807
Period size: 155 Copynumber: 4.5 Consensus size: 154
726885 GATCCTAACA
* * * *
726895 TAGTCTTTTTAAGTCCTTTAGTGGTATCGAGATACTTTCACGTCGAAGGTATCCCTTAGGGGCAT
1 TAGTCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTATCCCATAGGGGCAT
** * * *
726960 TTTTATAATTTTTTAGAATCAACTCCTAGGTCATCAGCAGGTTCGCTTTTATGCTGAAGGTGGGC
66 TTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCA-CAGGTTCGCTTTTATGCCGAAAGTGGGC
*
727025 ATTTAGGATAGGCTCATCCCTTCTC
130 ATTTAGGATAGGTTCATCCCTTCTC
* * * * *
727050 TGGTCTTTTTAAGCCCTTTAGGGGTACCAGGATATTTTCACGTCGAAGGTATCCCATAAGGGCAT
1 TAGTCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTATCCCATAGGGGCAT
* * * *
727115 TTTCGTAATTTTTTTAGAACCAACTCCTAGGTCGTCACCGGGTCCGCTTTTATGCCGAAGGTGGG
66 TTTCGTAA-TTTTTTAGAACCAACTCCTAGGTCATCA-CAGGTTCGCTTTTATGCCGAAAGTGGG
*
727180 CATTTAGGATAGGTTCATCCATTCTC
129 CATTTAGGATAGGTTCATCCCTTCTC
* * * * *
727206 TAGTCTTTTTAAGTCCTTTAGAGGTACTGGAATACTTTCACGTCAAAGGTATCCCTTAGGGGCAT
1 TAGTCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTATCCCATAGGGGCAT
* * * * * * *
727271 TTTTGTAATTTTTTTGAACTAACTCTTGGGTCATCACCGAG-TCTGCTTTTATGTCGAAAGTGGG
66 TTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCACAG-GTTC-GCTTTTATGCCGAAAGTGGG
* *
727335 CATTTAGGGTAGGATCATCCCTTCTC
129 CATTTAGGATAGGTTCATCCCTTCTC
* *
727361 TAGT-TTTCTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCAAAGGTACCCCCATAGGGGC
1 TAGTCTTT-TTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTA-TCCCATAGGGGC
*
727425 ATTTTCATAA-TTTTTA-AATCCAACTCCTAGGTCATCACTAGGTTCGCTTTTATGCCGAAAGTG
64 ATTTTCGTAATTTTTTAGAA-CCAACTCCTAGGTCATCAC-AGGTTCGCTTTTATGCCGAAAGTG
* * *
727488 GGCATTTAGGATAGGTTCATCCTTTTTA
127 GGCATTTAGGATAGGTTCATCCCTTCTC
* ** * * * * * *
727516 TAAATCCTTTTTTGGTCCTTTAGGGGTATCGGGA-ACTTTTATGTCGAGGGTATCCTC-TAGAGC
1 T-AGT-CTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTATCC-CATAGGGG
727579 CATTTTCGTAATTTT
63 CATTTTCGTAATTTT
727594 CCTTAAACTT
Statistics
Matches: 459, Mismatches: 72, Indels: 25
0.83 0.13 0.04
Matches are distributed among these distances:
154 8 0.02
155 250 0.54
156 177 0.39
157 21 0.05
158 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (154 bp):
TAGTCTTTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACGTCGAAGGTATCCCATAGGGGCAT
TTTCGTAATTTTTTAGAACCAACTCCTAGGTCATCACAGGTTCGCTTTTATGCCGAAAGTGGGCA
TTTAGGATAGGTTCATCCCTTCTC
Found at i:728464 original size:349 final size:349
Alignment explanation
Indices: 727825--728509 Score: 1352
Period size: 349 Copynumber: 2.0 Consensus size: 349
727815 CTTTTTAGTC
727825 CCTAGATTCGAATTAGTACCTTGGTATCTAGATCAAGTCTTAGGGTTTTGTTTTTCTTTAATAAA
1 CCTAGATTCGAATTAGTACCTTGGTATCTAGATCAAGTCTTAGGGTTTTGTTTTTCTTTAATAAA
727890 TAAAAATTGAATATTTTCGTAAAATAAATGTAATGTCTCGAGATTAGAATAGTACATGAAATTTC
66 TAAAAATTGAATATTTTCGTAAAATAAATGTAATGTCTCGAGATTAGAATAGTACATGAAATTTC
727955 TCTCGTGCATATAAGAGGGGTTTTATGGATTATTCTAATAACGAGATACCCTTTTAAAACAAAAA
131 TCTCGTGCATATAAGAGGGGTTTTATGGATTATTCTAATAACGAGATACCCTTTTAAAACAAAAA
728020 TCGAGAATGTTATGATTTTCAAAAATTAAAAAAAAACCTTTCGAGCTCTCCAAGACTCTAGGAGG
196 TCGAGAATGTTATGATTTTCAAAAATTAAAAAAAAACCTTTCGAGCTCTCCAAGACTCTAGGAGG
728085 GTATGAAAGACATTTTGGCCTTTAAAACCTTTTATGTTCCTCCGAGCTTCCAGCGAGGCGTGAAA
261 GTATGAAAGACATTTTGGCCTTTAAAACCTTTTATGTTCCTCCGAGCTTCCAGCGAGGCGTGAAA
728150 GTGAATAATAATTGAATATTATTA
326 GTGAATAATAATTGAATATTATTA
*
728174 CCTAGATTCGAATTAGTACCTTGGTATCTAGATCAAGTCTTATGGTTTTGTTTTTCTTTAATAAA
1 CCTAGATTCGAATTAGTACCTTGGTATCTAGATCAAGTCTTAGGGTTTTGTTTTTCTTTAATAAA
728239 TAAAAATTGAATATTTTCGTAAAATAAATGTAATGTCTCGAGATTAGAATAGTACATGAAATTTC
66 TAAAAATTGAATATTTTCGTAAAATAAATGTAATGTCTCGAGATTAGAATAGTACATGAAATTTC
728304 TCTCGTGCATATAAGAGGGGTTTTATGGATTATTCTAATAACGAGATACCCTTTTAAAACAAAAA
131 TCTCGTGCATATAAGAGGGGTTTTATGGATTATTCTAATAACGAGATACCCTTTTAAAACAAAAA
*
728369 TCGAGAATGTTATGATTTTCAAAAATTTAAAAAAAACCTTTCGAGCTCTCCAAGACTCTAGGAGG
196 TCGAGAATGTTATGATTTTCAAAAATTAAAAAAAAACCTTTCGAGCTCTCCAAGACTCTAGGAGG
728434 GTATGAAAGACATTTTGGCCTTTAAAACCTTTTATGTTCCTCCGAGCTTCCAGCGAGGCGTGAAA
261 GTATGAAAGACATTTTGGCCTTTAAAACCTTTTATGTTCCTCCGAGCTTCCAGCGAGGCGTGAAA
728499 GTGAATAATAA
326 GTGAATAATAA
728510 AAACTTACGT
Statistics
Matches: 334, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
349 334 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (349 bp):
CCTAGATTCGAATTAGTACCTTGGTATCTAGATCAAGTCTTAGGGTTTTGTTTTTCTTTAATAAA
TAAAAATTGAATATTTTCGTAAAATAAATGTAATGTCTCGAGATTAGAATAGTACATGAAATTTC
TCTCGTGCATATAAGAGGGGTTTTATGGATTATTCTAATAACGAGATACCCTTTTAAAACAAAAA
TCGAGAATGTTATGATTTTCAAAAATTAAAAAAAAACCTTTCGAGCTCTCCAAGACTCTAGGAGG
GTATGAAAGACATTTTGGCCTTTAAAACCTTTTATGTTCCTCCGAGCTTCCAGCGAGGCGTGAAA
GTGAATAATAATTGAATATTATTA
Found at i:731282 original size:16 final size:16
Alignment explanation
Indices: 731261--731291 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
731251 ACACAAGCTT
731261 AAAATGAAAAAAAGAC
1 AAAATGAAAAAAAGAC
731277 AAAATGAAAAAAAGA
1 AAAATGAAAAAAAGA
731292 AGAAACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAATGAAAAAAAGAC
Found at i:734918 original size:27 final size:27
Alignment explanation
Indices: 734843--734910 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
734833 TTATTCATTA
734843 GGGATACTCCAACCCCATTTTTTTGAG
1 GGGATACTCCAACCCCATTTTTTTGAG
734870 GGGATACTCCAACCCCATTTTTTTGAG
1 GGGATACTCCAACCCCATTTTTTTGAG
734897 GGGATACTCCAACC
1 GGGATACTCCAACC
734911 TCGTTTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (27 bp):
GGGATACTCCAACCCCATTTTTTTGAG
Found at i:735695 original size:98 final size:98
Alignment explanation
Indices: 735526--735724 Score: 389
Period size: 98 Copynumber: 2.0 Consensus size: 98
735516 CCAATGAAAC
735526 CAATGTCGAGTCAAAACATAGCTAGCAAGGTACCGATTTCGGGCATCGCGATGAGGTTCATACCT
1 CAATGTCGAGTCAAAACATAGCTAGCAAGGTACCGATTTCGGGCATCGCGATGAGGTTCATACCT
*
735591 TTTTGCACGTAATCAACTCTCGAACCCAACTGG
66 TTTTGCACATAATCAACTCTCGAACCCAACTGG
735624 CAATGTCGAGTCAAAACATAGCTAGCAAGGTACCGATTTCGGGCATCGCGATGAGGTTCATACCT
1 CAATGTCGAGTCAAAACATAGCTAGCAAGGTACCGATTTCGGGCATCGCGATGAGGTTCATACCT
735689 TTTTGCACATAATCAACTCTCGAACCCAACTGG
66 TTTTGCACATAATCAACTCTCGAACCCAACTGG
735722 CAA
1 CAA
735725 ATCTCTAAAT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 100 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (98 bp):
CAATGTCGAGTCAAAACATAGCTAGCAAGGTACCGATTTCGGGCATCGCGATGAGGTTCATACCT
TTTTGCACATAATCAACTCTCGAACCCAACTGG
Found at i:738577 original size:11 final size:11
Alignment explanation
Indices: 738556--738601 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
738546 GTTTTCTTTA
738556 ATTATTTTTATT
1 ATTA-TTTTATT
738568 ATTATTTTATT
1 ATTATTTTATT
738579 ATTATATTT-TT
1 ATTAT-TTTATT
*
738590 ATTATCTTATT
1 ATTATTTTATT
738601 A
1 A
738602 ATTGTAACGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
10 2 0.06
11 22 0.71
12 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:738600 original size:14 final size:13
Alignment explanation
Indices: 738557--738600 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
738547 TTTTCTTTAA
738557 TTATTTTTATTA-
1 TTATTTTTATTAT
738569 TTA-TTTTATTAT
1 TTATTTTTATTAT
738581 TATATTTTTATTAT
1 T-TATTTTTATTAT
738595 CTTATT
1 -TTATT
738601 AATTGTAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 8 0.29
12 4 0.14
13 2 0.07
14 13 0.46
15 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:741111 original size:29 final size:29
Alignment explanation
Indices: 741064--741156 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 29
741054 GAGGTGTCTA
* *
741064 TAAA-GTCAAAGTATAATTTCAAAAAGTT
1 TAAAGGTCAATGTACAATTTCAAAAAGTT
* * *
741092 TAAAGGTCAAAT-TACGATTTTAAAAAATT
1 TAAAGGTC-AATGTACAATTTCAAAAAGTT
* * *
741121 TTAGGGTCAATGTATAATTTCAAAAAGTT
1 TAAAGGTCAATGTACAATTTCAAAAAGTT
741150 TAAAGGT
1 TAAAGGT
741157 TAAAATGTAA
Statistics
Matches: 49, Mismatches: 13, Indels: 5
0.73 0.19 0.07
Matches are distributed among these distances:
28 7 0.14
29 40 0.82
30 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAAGGTCAATGTACAATTTCAAAAAGTT
Found at i:741167 original size:29 final size:28
Alignment explanation
Indices: 741077--741180 Score: 75
Period size: 29 Copynumber: 3.6 Consensus size: 28
741067 AGTCAAAGTA
*
741077 TAATTTCAAAAAGTTTAAAGG-TCAAAT
1 TAATTTCAAAAAGTTTAAAGGTTAAAAT
* * * * * **
741104 TACGATTTTAAAAAATTTTAGGGTCAATGT
1 TA--ATTTCAAAAAGTTTAAAGGTTAAAAT
741134 ATAATTTCAAAAAGTTTAAAGGTTAAAAT
1 -TAATTTCAAAAAGTTTAAAGGTTAAAAT
**
741163 GTAATTTTGAAAAGTTTA
1 -TAATTTCAAAAAGTTTA
741181 GGGATCAAAA
Statistics
Matches: 55, Mismatches: 18, Indels: 6
0.70 0.23 0.08
Matches are distributed among these distances:
27 2 0.04
29 49 0.89
30 2 0.04
31 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (28 bp):
TAATTTCAAAAAGTTTAAAGGTTAAAAT
Found at i:741170 original size:58 final size:56
Alignment explanation
Indices: 741068--741189 Score: 156
Period size: 58 Copynumber: 2.1 Consensus size: 56
741058 TGTCTATAAA
* *
741068 GTCAAAGTATAATTTCAAAAAGTTTAAAGGTCAAATTACGATTTTAAAAAATTTTAGG
1 GTCAAAGTATAATTTCAAAAAGTTTAAAGGTAAAATTAC-ATTTT-AAAAAGTTTAGG
* *
741126 GTCAATGTATAATTTCAAAAAGTTTAAAGGTTAAAATGTA-ATTTTGAAAAGTTTAGG
1 GTCAAAGTATAATTTCAAAAAGTTTAAAGG-TAAAAT-TACATTTTAAAAAGTTTAGG
741183 GATCAAA
1 G-TCAAA
741190 ATTACATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
57 11 0.20
58 38 0.68
59 5 0.09
60 2 0.04
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (56 bp):
GTCAAAGTATAATTTCAAAAAGTTTAAAGGTAAAATTACATTTTAAAAAGTTTAGG
Found at i:741190 original size:29 final size:29
Alignment explanation
Indices: 741158--741213 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
741148 TTTAAAGGTT
*
741158 AAAATGTA-ATTTTGAAAAGTTTAGGGATC
1 AAAAT-TACATTTTGAAAAATTTAGGGATC
741187 AAAATTACATTTTGAAAAATTTAGGGA
1 AAAATTACATTTTGAAAAATTTAGGGA
741214 CTTACCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTGAAAAATTTAGGGATC
Found at i:742475 original size:65 final size:64
Alignment explanation
Indices: 742361--742508 Score: 178
Period size: 65 Copynumber: 2.3 Consensus size: 64
742351 GTCTTTGTTA
*
742361 TCTTTTTGACTATTATAGTTTCACCTTGGTTAATTTTCTCCACTAAAAGTTCCACCATGGTCACC
1 TCTTTTTGACTATTATGGTTTCACCTTGGTTAATTTTCTCCACTAAAAGTTCCACC-TGGTCACC
* * * *
742426 TCTTTTTGACTATTATGGTTTCACCTTGGTTTATCTTTCT-GA-TCGAAAGTTCTACCTGGTCAC
1 TCTTTTTGACTATTATGGTTTCACCTTGGTTAAT-TTTCTCCACT-AAAAGTTCCACCTGGTCAC
742489 C
64 C
* *
742490 TC--CTTGACTATTTTGGTTT
1 TCTTTTTGACTATTATGGTTT
742509 TTCCTAGTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
62 15 0.20
64 11 0.15
65 43 0.58
66 5 0.07
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (64 bp):
TCTTTTTGACTATTATGGTTTCACCTTGGTTAATTTTCTCCACTAAAAGTTCCACCTGGTCACC
Found at i:742600 original size:93 final size:92
Alignment explanation
Indices: 742434--742643 Score: 251
Period size: 92 Copynumber: 2.3 Consensus size: 92
742424 CCTCTTTTTG
* ** * *
742434 ACTATTATGGTTTCACCTTGGTTTATCTTTCTGATCGAAAGTTCTACCTGGTCACCTCCTTGACT
1 ACTATTATGGTTTTACCTTGGTCAACCTTTCTGATCGAAAATTCTACCTGGTCACCTCCTTGACT
**
742499 ATTTTGG-TTTTTCCTAGTCAATCTTT
66 ATCATGGTTTTTTCCTAGTCAATCTTT
* * * * * *
742525 AACTATTATGGTTTTACCCTGGTCAACCTTTTTGATTGAAAATTCTGCCTTGGTGACCTCTTTGA
1 -ACTATTATGGTTTTACCTTGGTCAACCTTTCTGATCGAAAATTCTACC-TGGTCACCTCCTTGA
*
742590 CTATCATGGTTTTTTCCTAGTTAATCTTT
64 CTATCATGGTTTTTTCCTAGTCAATCTTT
*
742619 ACTATTGATGGTTCTACCTTGGTCA
1 ACTATT-ATGGTTTTACCTTGGTCA
742644 CCTCCTTAGC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
92 39 0.39
93 26 0.26
94 34 0.34
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.45
Consensus pattern (92 bp):
ACTATTATGGTTTTACCTTGGTCAACCTTTCTGATCGAAAATTCTACCTGGTCACCTCCTTGACT
ATCATGGTTTTTTCCTAGTCAATCTTT
Found at i:747192 original size:13 final size:13
Alignment explanation
Indices: 747174--747199 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
747164 TACAGCAAGT
747174 ATGTATCGATACA
1 ATGTATCGATACA
747187 ATGTATCGATACA
1 ATGTATCGATACA
747200 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:747527 original size:23 final size:22
Alignment explanation
Indices: 747501--747543 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
747491 TTTGTTCATA
747501 TTGTCATTATT-TTTCTAAGCTCT
1 TTGT-ATTATTATTTC-AAGCTCT
*
747524 TTGTATTCTTATTTCAAGCT
1 TTGTATTATTATTTCAAGCT
747544 TAAAATTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.56
Consensus pattern (22 bp):
TTGTATTATTATTTCAAGCTCT
Found at i:751243 original size:15 final size:15
Alignment explanation
Indices: 751223--751261 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
751213 TAAAAATGTC
*
751223 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
751238 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
751253 CCAAATGAA
1 CAAAATGAA
751262 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:760802 original size:20 final size:20
Alignment explanation
Indices: 760776--760828 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
760766 GTAGCCAAAC
* *
760776 TTGTATCGATACAC-CAAAG
1 TTGTATCGATACACAAAAAA
760795 TATGTATCGATACACAAAAAA
1 T-TGTATCGATACACAAAAAA
760816 TTGTATCGATACA
1 TTGTATCGATACA
760829 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:766764 original size:13 final size:13
Alignment explanation
Indices: 766746--766777 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
766736 AATTTCTTTG
*
766746 GATACATTGTATC
1 GATACACTGTATC
766759 GATACACTGTATC
1 GATACACTGTATC
766772 GATACA
1 GATACA
766778 AGGGGATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (13 bp):
GATACACTGTATC
Found at i:766941 original size:20 final size:19
Alignment explanation
Indices: 766900--766942 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
766890 ATCTTTTGCA
766900 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
766920 AAATGACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
766940 AAA
1 AAA
766943 ACCAACATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:771549 original size:28 final size:30
Alignment explanation
Indices: 771485--771560 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 30
771475 TTTTTTCATA
* *
771485 ATCG-GGGG-TACTCAAACCCTGTTATTTC
1 ATCGAGGGGATACTCCAACCCCGTTATTTC
771513 ATCGA--GGATACTCCAACCCCGTTATTTC
1 ATCGAGGGGATACTCCAACCCCGTTATTTC
771541 -T-GAGGGGATACTCCAACCCC
1 ATCGAGGGGATACTCCAACCCC
771561 AGCTTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
26 2 0.05
27 3 0.07
28 37 0.88
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (30 bp):
ATCGAGGGGATACTCCAACCCCGTTATTTC
Found at i:771609 original size:51 final size:51
Alignment explanation
Indices: 771544--771662 Score: 195
Period size: 50 Copynumber: 2.4 Consensus size: 51
771534 TTATTTCTGA
*
771544 GGGGATACTCCAACCCCAGCTTTATTTCCAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATC
* * *
771595 GGGGATACTTCAA-CCCAGCCTTATTTCTAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATC
771645 GGGGATACTCCAACCCCA
1 GGGGATACTCCAACCCCA
771663 TTATTTTCAC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 46 0.74
51 16 0.26
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATC
Found at i:771619 original size:109 final size:108
Alignment explanation
Indices: 771400--771621 Score: 288
Period size: 109 Copynumber: 2.0 Consensus size: 108
771390 AACATCAATT
* *
771400 TTTCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCTTTATATCTA
1 TTTCATCGAGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAGCTTTATATCTA
* * * *
771465 AAAATATTATTTTTTTCATAATCGGGGGTACTCAAACCCTGTTA
66 AAAATATTA-TTTTCTCACAATCGGGGATACTCAAACCCAGTTA
* * * *
771509 TTTCATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAGCTTTATTTC-C
1 TTTCATCGAGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAGCTTTATATCTA
771573 AAAATATTGA-TTTCTCACAATCGGGGATACTTC-AACCCAGCCTTA
66 AAAATATT-ATTTTCTCACAATCGGGGATAC-TCAAACCCAG--TTA
771618 TTTC
1 TTTC
771622 TAAAATATTG
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
107 23 0.23
108 10 0.10
109 66 0.67
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (108 bp):
TTTCATCGAGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCAGCTTTATATCTA
AAAATATTATTTTCTCACAATCGGGGATACTCAAACCCAGTTA
Found at i:784185 original size:5 final size:5
Alignment explanation
Indices: 784173--784225 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
784163 AAAAAAAATT
*
784173 AAAA- AAAAC AAAAAC AAAAC AAAAAC AAAA- AAAAC AAAAA AAAAC AAAAC
1 AAAAC AAAAC -AAAAC AAAAC -AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
784223 AAA
1 AAA
784226 GAAAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
4 8 0.19
5 25 0.58
6 10 0.23
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:784185 original size:6 final size:6
Alignment explanation
Indices: 784176--784225 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
784166 AAAAATTAAA
* *
784176 AAAAAC AAAAAC -AAAAC AAAAAC AAAAAA AACAAAA AAAAAC -AAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AA-AAAC AAAAAC AAAAAC
784223 AAA
1 AAA
784226 GAAAAAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 10 0.26
6 23 0.59
7 6 0.15
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:784191 original size:11 final size:11
Alignment explanation
Indices: 784173--784225 Score: 78
Period size: 10 Copynumber: 5.2 Consensus size: 11
784163 AAAAAAAATT
784173 AAAA-AAAACA
1 AAAACAAAACA
784183 AAAACAAAACA
1 AAAACAAAACA
784194 AAAAC-AAA-A
1 AAAACAAAACA
784203 AAAACAAAA-A
1 AAAACAAAACA
784213 AAAACAAAACA
1 AAAACAAAACA
784224 AA
1 AA
784226 GAAAAAAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
9 6 0.15
10 20 0.50
11 14 0.35
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAACAAAACA
Found at i:784230 original size:15 final size:14
Alignment explanation
Indices: 784158--784231 Score: 67
Period size: 15 Copynumber: 4.9 Consensus size: 14
784148 CTTCTTTCCT
* *
784158 AAAATAAAAAAAATT
1 AAAACAAAAAAAA-C
*
784173 AAAAAAAACAAAAAC
1 AAAACAAA-AAAAAC
*
784188 AAAACAAAAACAAAA
1 AAAACAAAAA-AAAC
784203 AAAACAAAAAAAAAC
1 AAAAC-AAAAAAAAC
784218 AAAACAAAGAAAAA
1 AAAACAAA-AAAAA
784232 AGAGAGGAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
14 5 0.10
15 35 0.70
16 10 0.20
ACGTcount: A:0.85, C:0.09, G:0.01, T:0.04
Consensus pattern (14 bp):
AAAACAAAAAAAAC
Found at i:784232 original size:35 final size:36
Alignment explanation
Indices: 784158--784225 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
784148 CTTCTTTCCT
* **
784158 AAAATAAAAAAAATTAAAAAAAACAAAAACAAAACA
1 AAAACAAAAAAAACAAAAAAAAACAAAAACAAAACA
784194 AAAACAAAAAAAACAAAAAAAAAC-AAAACAAA
1 AAAACAAAAAAAACAAAAAAAAACAAAAACAAA
784226 GAAAAAAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.04
Consensus pattern (36 bp):
AAAACAAAAAAAACAAAAAAAAACAAAAACAAAACA
Found at i:784248 original size:1 final size:1
Alignment explanation
Indices: 784158--784232 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
784148 CTTCTTTCCT
* ** * * * * * * *
784158 AAAATAAAAAAAATTAAAAAAAACAAAAACAAAACAAAAACAAAAAAAACAAAAAAAAACAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
784223 AAAGAAAAAA
1 AAAAAAAAAA
784233 GAGAGGAAAG
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.85, C:0.09, G:0.01, T:0.04
Consensus pattern (1 bp):
A
Found at i:784946 original size:29 final size:29
Alignment explanation
Indices: 784904--784963 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
784894 CCGAAATCCT
784904 AGAGTATGATGGATGAACTTTAGGCATAA
1 AGAGTATGATGGATGAACTTTAGGCATAA
784933 AGAGTATGATGGATGAACTTTAGGCATAA
1 AGAGTATGATGGATGAACTTTAGGCATAA
784962 AG
1 AG
784964 CCAATCCGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.27
Consensus pattern (29 bp):
AGAGTATGATGGATGAACTTTAGGCATAA
Found at i:785473 original size:115 final size:110
Alignment explanation
Indices: 785271--785545 Score: 311
Period size: 115 Copynumber: 2.4 Consensus size: 110
785261 TTTCAAAACC
* * *
785271 CACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTT
1 CACACAAATTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAACCCACACAAGTT
* *
785336 GCTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCA
66 GCTGGCAGTTTCCAGTCCTCAAAGAGCAAGACGCCTTTTAAAGCA
* *
785381 CACACAAATTGTTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAACCCACA
1 CACACAAATTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACG-C----CTTTCAAAACCCACA
* *
785445 CAAGTTGGTGGCAGTTTCCAGTCCTCAAAGAGCAAGACGCCTTCTCCTTGTAAAGCC
60 CAAGTTGCTGGCAGTTTCCAGTCCTCAAAGAGCAAGACG-C--CT--TT-TAAAGCA
* * *
785502 CACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGTAGGACGC
1 CACACAAATTGGTGGCACCTT-TCAGTCCTCAAAGAGCAGGACGC
785546 TGAAAGCTTA
Statistics
Matches: 138, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
109 4 0.03
110 34 0.25
111 1 0.01
115 50 0.36
116 1 0.01
118 2 0.01
120 3 0.02
121 42 0.30
122 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (110 bp):
CACACAAATTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAACCCACACAAGTT
GCTGGCAGTTTCCAGTCCTCAAAGAGCAAGACGCCTTTTAAAGCA
Found at i:785527 original size:61 final size:58
Alignment explanation
Indices: 785225--785545 Score: 368
Period size: 55 Copynumber: 5.5 Consensus size: 58
785215 TTTCTCCTTT
* * *
785225 CACTTTTCAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTCAAAACCCACACAAGTTGGTGG
1 CACTTTCCAGTCCTCAAAGAGCAGGACGCC-TTT-CTTT-AAAGCCCACACAAGTTGGTGG
* *
785286 CACCTTT-CAGTCCTCAAAGAGCAGGATGCCTTTC---AAAGCCCACACAAGTTGCTGG
1 CA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTAAAGCCCACACAAGTTGGTGG
* * * *
785341 CATTTTCCAGTCCTCAAAGAGCAGGACGCC--T-TTTAAAGCACACACAAATTGTTGG
1 CACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTAAAGCCCACACAAGTTGGTGG
* * *
785396 CATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAACCCACACAAGTTGGTGG
1 CACTTTCCAGTCCTCAAAGAGCAGGACGCC-TTTCTTT-AAAGCCCACACAAGTTGGTGG
* *
785456 CAGTTTCCAGTCCTCAAAGAGCAAGACGCCTTCTCCTTGTAAAGCCCACACAAGTTGGTGG
1 CACTTTCCAGTCCTCAAAGAGCAGGACGCCTT-T-CTT-TAAAGCCCACACAAGTTGGTGG
* *
785517 CACTTCCCAGTCCTCAAAGAGTAGGACGC
1 CACTTTCCAGTCCTCAAAGAGCAGGACGC
785546 TGAAAGCTTA
Statistics
Matches: 225, Mismatches: 22, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
53 1 0.00
54 3 0.01
55 90 0.40
58 1 0.00
59 6 0.03
60 48 0.21
61 71 0.32
62 5 0.02
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (58 bp):
CACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCTTTAAAGCCCACACAAGTTGGTGG
Found at i:786323 original size:20 final size:21
Alignment explanation
Indices: 786298--786350 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
786288 TACAAGCCAA
* *
786298 TGTATCGATACAAT-TTTTTG
1 TGTATCGATACAATACTTTGG
786318 TGTATCGATAC-ATACTTTGG
1 TGTATCGATACAATACTTTGG
786338 TGTATCGATACAA
1 TGTATCGATACAA
786351 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACAATACTTTGG
Found at i:786355 original size:19 final size:19
Alignment explanation
Indices: 786298--786356 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
786288 TACAAGCCAA
* *
786298 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA-CTTTGG
786318 TGTATCGATACATACTTTGG
1 TGTATCGATACA-ACTTTGG
*
786338 TGTATCGATACAAGTTTGG
1 TGTATCGATACAACTTTGG
786357 CTACTGCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.17
20 28 0.80
21 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (19 bp):
TGTATCGATACAACTTTGG
Found at i:788416 original size:21 final size:20
Alignment explanation
Indices: 788392--788434 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
788382 GGCTAGTGTG
*
788392 GGGACTACCCGGTTGCGACCT
1 GGGACT-CCCGGTCGCGACCT
* *
788413 GGGAGTGCCGGTCGCGACCT
1 GGGACTCCCGGTCGCGACCT
788433 GG
1 GG
788435 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTCCCGGTCGCGACCT
Found at i:788893 original size:13 final size:13
Alignment explanation
Indices: 788875--788899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
788865 ATAATCCCCC
788875 TGTATCGATACAG
1 TGTATCGATACAG
788888 TGTATCGATACA
1 TGTATCGATACA
788900 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:795086 original size:13 final size:13
Alignment explanation
Indices: 795068--795093 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
795058 CAATTTTTTG
795068 TGTATCGATACAT
1 TGTATCGATACAT
795081 TGTATCGATACAT
1 TGTATCGATACAT
795094 ACTTTGGTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.