Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr4
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: 37360634
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 908041 characters in sequence are not A, C, G, or T
File 68 of 115
Found at i:22577789 original size:22 final size:23
Alignment explanation
Indices: 22577763--22577810 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
22577753 GTCATGTACC
22577763 TTTATTCTTTATATTTTTTT-TG
1 TTTATTCTTTATATTTTTTTATG
* *
22577785 TTTATTTTTTTTATTTTTTTATG
1 TTTATTCTTTATATTTTTTTATG
22577808 TTT
1 TTT
22577811 TCATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.81
Consensus pattern (23 bp):
TTTATTCTTTATATTTTTTTATG
Found at i:22577963 original size:19 final size:20
Alignment explanation
Indices: 22577922--22577963 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
22577912 ATTTCTATGC
* *
22577922 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
22577942 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
22577961 CAT
1 CAT
22577964 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:22587924 original size:132 final size:132
Alignment explanation
Indices: 22587671--22587958 Score: 515
Period size: 132 Copynumber: 2.2 Consensus size: 132
22587661 ATTCGGGTAA
**
22587671 AACCGAAAAAATTCGGTTAACCGACCGAATTCGATTAATCGGTCGGTTAACCGAATTTTTTCGGT
1 AACCGAAAATTTTCGGTTAACCGACCGAATTCGATTAATCGGTCGGTTAACCGAATTTTTTCGGT
*
22587736 CGGTGGCCGGTTAATTTTTTTTATGATTTTTCGGTTAACGGTTAATTCGATTCGAAACCGGTCGG
66 CGGGGGCCGGTTAATTTTTTTTATGATTTTTCGGTTAACGGTTAATTCGATTCGAAACCGGTCGG
22587801 TT
131 TT
22587803 AACCGAAAATTTTCCGGTTAACCGACCGAATTCGATTAATCGGTCGGTTAACCGAATTTTTTCGG
1 AACCGAAAATTTT-CGGTTAACCGACCGAATTCGATTAATCGGTCGGTTAACCGAATTTTTTCGG
* *
22587868 TCGGGGGTCGGTTAA-TTTTTTTATGATTTTTCGGTTAACGGTTAATTCGGTTCGAAACCGGTCG
65 TCGGGGGCCGGTTAATTTTTTTTATGATTTTTCGGTTAACGGTTAATTCGATTCGAAACCGGTCG
22587932 GTT
130 GTT
22587935 AACCGAAAATTTTCGGTTAACCGA
1 AACCGAAAATTTTCGGTTAACCGA
22587959 AAAAATTAAT
Statistics
Matches: 150, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
131 11 0.07
132 75 0.50
133 64 0.43
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (132 bp):
AACCGAAAATTTTCGGTTAACCGACCGAATTCGATTAATCGGTCGGTTAACCGAATTTTTTCGGT
CGGGGGCCGGTTAATTTTTTTTATGATTTTTCGGTTAACGGTTAATTCGATTCGAAACCGGTCGG
TT
Found at i:22588167 original size:9 final size:9
Alignment explanation
Indices: 22588155--22588222 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
22588145 AAATAAAAAA
22588155 AATTCGGGT
1 AATTCGGGT
22588164 AATTCGGGT
1 AATTCGGGT
* **
22588173 ATTTTTTGGT
1 A-ATTCGGGT
*
22588183 AATTCGGTT
1 AATTCGGGT
*
22588192 AATTCGGTT
1 AATTCGGGT
22588201 AATTCGGGT
1 AATTCGGGT
22588210 AATTCGGGT
1 AATTCGGGT
22588219 AATT
1 AATT
22588223 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
9 44 0.88
10 6 0.12
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (9 bp):
AATTCGGGT
Found at i:22589775 original size:44 final size:44
Alignment explanation
Indices: 22589636--22590537 Score: 410
Period size: 44 Copynumber: 20.8 Consensus size: 44
22589626 CCAATGATCC
* * * * *
22589636 TATCTCCCTGAAGTTGCAGTGGAGCTA-ATTAAAACTA-CAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGC-AGACT-AAGCAAGCAAGTCT
* * * * *
22589680 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCA-C-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
*
22589720 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGCCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
* * * *
22589764 TATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAA-TATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCA-AGCAAGTCT
* * * * *
22589809 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAGC-CG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AGCAAGCA-AGTCT
* * * * **
22589853 TATCTCCCTGAAGTTACAGTGGAGCGGATTAA--AACCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC-AAG-TCT
* * * * * * *
22589897 TATCTCTCTAAAGTTTCAG-AGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
* *
22589937 TATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
* * * * *
22589981 TATC-CTCTTGAAGTTGCAGTGGTGCAGACTGAA-TATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAGTCT
* * * *
22590026 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGC-CG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AGCAAGCA-AGTCT
* * * *
22590070 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC-AAG-TCT
* * * * * *
22590114 TATCTCTCTGAAGTTTCAG-AGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
* * * *
22590154 TATCTCCATGAAGTTACAGTGGAGTAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
* * **
22590198 TATC-CTCCTGAAGTTGCAGTGGTGCAGACTGAAG-ATGGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAGTCT
* * * ** * * *
22590243 TATCTCCCTGAGGATGAAGTGGAGCAGGTTAAAGC-CG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAGCA-AGTCT
* * * ** **
22590287 TATCCCCCTGAAATTGCAGTGGAGCAGATTAA--ATCCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC-AAG-TCT
* * * * * *
22590331 TATCTCTCTGAAGTTTCAG-AGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
* * *
22590371 TATCTCCCTGAAGTTGTAGTGGAGTAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
* * *
22590415 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTAAAG-ATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAGTCT
* * *
22590460 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AAGTCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAG-C-A-AGTCT
*
22590505 TATCTCCCTGAAGTTGCAATGGAGCAGACTAAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG
22590538 TAGAGCAGAT
Statistics
Matches: 653, Mismatches: 139, Indels: 130
0.71 0.15 0.14
Matches are distributed among these distances:
39 1 0.00
40 80 0.12
41 33 0.05
42 16 0.02
43 44 0.07
44 303 0.46
45 170 0.26
46 6 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
Found at i:22589775 original size:84 final size:85
Alignment explanation
Indices: 22589636--22590537 Score: 398
Period size: 89 Copynumber: 10.4 Consensus size: 85
22589626 CCAATGATCC
* * * * *
22589636 TATCTCCCTGAAGTTGCAGTGGAGCTA-ATTAAAACTA-CAAATCCTATCTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGC-AGACT-AAGCAAGCAAGTCTTATCTC-CTGAAGTTGCAG
* * *
22589699 -AGAGCAGA-TCACATCTAGTCT
63 TGGAGCAGACTAAAATCTAGTCT
*
22589720 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGCCTTATCCTCCTGAAGTTGCAGT-
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTAT-CTCCTGAAGTTGCAGTG
* * * *
22589784 GAGGTAGACTGAATATGGCAAATCT
65 GA-GCAGACT-AAAAT--CTAGTCT
* * * * * *
22589809 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAGC-CG-ATAATCCTATCTCCCTGAAGTTACAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AGCAAGCA-AGTCTTATCT-CCTGAAGTTGCAG
* * * *
22589872 TGGAGCGGATTAAAACCTTGGATCT
63 TGGAGCAGACTAAAATC-TAG-TCT
* * * * * * *
22589897 TATCTCTCTAAAGTTTCAG-AGAGCAGA-T-CGC-ATCTAGTCTTATCTCCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCT-CCTGAAGTTGCAGTG
* * *
22589958 GAGTAGACTAAGTAAGCAAGTCT
65 GAGCAGACTAA--AATCTAGTCT
* * * * *
22589981 TATC-CTCTTGAAGTTGCAGTGGTGCAGACTGAA-TATGGCAAATCTTATCTCCCTGAAGTTGCA
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAGTCTTATCT-CCTGAAGTTGCA
* * ** * *
22590044 GTGGAGCAGATTAGAGCCGATAATCC
62 GTGGAGCAGACTAAAATC--TAGTCT
* * * * *
22590070 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AACCTTAGATCTTATCTCTCTGAAGTTTCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC-AAG-TCTTATCTC-CTGAAGTTGCAG
* ***
22590133 -AGAGCAGA-TCGCATCTAGTCT
63 TGGAGCAGACTAAAATCTAGTCT
* * * *
22590154 TATCTCCATGAAGTTACAGTGGAGTAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTAT-CTCCTGAAGTTGCAGTG
* * * **
22590219 GTGCAGACTGAAGATGGCAAACCT
65 GAGCAGACT-AAAAT--CTAGTCT
* * * ** * * * * *
22590243 TATCTCCCTGAGGATGAAGTGGAGCAGGTTAAAGC-CG-ATAATCCTATCCCCCTGAAATTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAGCA-AGTCTTAT-CTCCTGAAGTTGCAG
* *
22590306 TGGAGCAGA-TTAAATCCTTGGATCT
63 TGGAGCAGACTAAAAT-C-TAG-TCT
* * * * * * *
22590331 TATCTCTCTGAAGTTTCAG-AGAGCAGA-T-CGC-ATCTAGTCTTATCTCCCTGAAGTTGTAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCT-CCTGAAGTTGCAGTG
* * *
22590392 GAGTAGACTAAGTAAGCAAGTCT
65 GAGCAGACTAA--AATCTAGTCT
* * *
22590415 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTAAAG-ATGGCAAATCTTATCTCCCTGAAGTTGCA
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAGTCTTATCT-CCTGAAGTTGCA
* * *
22590478 GTGGAGCAGATTAAAAGTCGATAATCC
62 GTGGAGCAGACTAAAA-TC--TAGTCT
*
22590505 TATCTCCCTGAAGTTGCAATGGAGCAGACTAAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG
22590538 TAGAGCAGAT
Statistics
Matches: 604, Mismatches: 155, Indels: 113
0.69 0.18 0.13
Matches are distributed among these distances:
83 8 0.01
84 190 0.31
85 34 0.06
86 19 0.03
87 37 0.06
88 67 0.11
89 210 0.35
90 38 0.06
91 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCTTATCTCCTGAAGTTGCAGTGG
AGCAGACTAAAATCTAGTCT
Found at i:22590012 original size:217 final size:217
Alignment explanation
Indices: 22589622--22590529 Score: 1424
Period size: 217 Copynumber: 4.2 Consensus size: 217
22589612 GAACAGATCG
* * ** * * *
22589622 AAAGCCAATGATCCTATCTCCCTGAAGTTGCAGTGGAGCTAATTAAAA-CTACAAATCCTATCTC
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCT-TAGATCTTATCTC
* * *
22589686 TCTGAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
65 TCTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTA
* * * *
22589751 AGCAAGCAAGCCTTATCCTCCTGAAGTTGCAGTGAG-GTAGACTGAATATGGCAAATCTTATCTC
130 AGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG-GTGCAGACTGAAGATGGCAAATCTTATCTC
*
22589815 CCTAAAGTTGCAGTGGAGCAGATT
194 CCTGAAGTTGCAGTGGAGCAGATT
* * *
22589839 AGAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
*
22589904 CTAAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAA
66 CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAA
* *
22589969 GTAAGCAAGTCTTATCCTCTTGAAGTTGCAGTGGTGCAGACTGAATATGGCAAATCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATGGCAAATCTTATCTCCC
22590034 TGAAGTTGCAGTGGAGCAGATT
196 TGAAGTTGCAGTGGAGCAGATT
*
22590056 AGAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
* *
22590121 CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCATGAAGTTACAGTGGAGTAGACTAA
66 CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAA
*
22590186 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATGGCAAACCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATGGCAAATCTTATCTCCC
* * * *
22590251 TGAGGATGAAGTGGAGCAGGTT
196 TGAAGTTGCAGTGGAGCAGATT
* * * * *
22590273 AAAGCCGATAATCCTATCCCCCTGAAATTGCAGTGGAGCAGATTAAATCCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
*
22590338 CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTAA
66 CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAA
* *
22590403 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTAAAGATGGCAAATCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATGGCAAATCTTATCTCCC
22590468 TGAAGTTGCAGTGGAGCAGATT
196 TGAAGTTGCAGTGGAGCAGATT
* *
22590490 AAAAGTCGATAATCCTATCTCCCTGAAGTTGCAATGGAGC
1 -AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGC
22590530 AGACTAAGTA
Statistics
Matches: 637, Mismatches: 51, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
216 1 0.00
217 599 0.94
218 37 0.06
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (217 bp):
AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAA
GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATGGCAAATCTTATCTCCC
TGAAGTTGCAGTGGAGCAGATT
Found at i:22591574 original size:10 final size:11
Alignment explanation
Indices: 22591555--22591579 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22591545 TTAAGGTTTG
22591555 TTTTGTTTTTT
1 TTTTGTTTTTT
22591566 TTTTGTTTTTT
1 TTTTGTTTTTT
22591577 TTT
1 TTT
22591580 AATCAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:22592480 original size:13 final size:13
Alignment explanation
Indices: 22592456--22592509 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
22592446 ACCTTTATTC
*
22592456 TTTATATTTTTTTG
1 TTTAT-TTTTTTTA
22592470 TTTATTTTTTTTA
1 TTTATTTTTTTTA
22592483 TTTATTTATGTTTTCA
1 TTTATTT-T-TTTT-A
*
22592499 TTAATTTTTTT
1 TTTATTTTTTT
22592510 ACCTTGCTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 14 0.40
14 9 0.26
15 5 0.14
16 7 0.20
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:22592648 original size:19 final size:20
Alignment explanation
Indices: 22592602--22592648 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
22592592 ATATCATTTC
* *
22592602 TATACCATTGTAATATTTAT
1 TATAGCATTGTAATATTTAA
*
22592622 TATTGCATTGT-ATATTTAA
1 TATAGCATTGTAATATTTAA
*
22592641 TGTAGCAT
1 TATAGCAT
22592649 CACATCATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (20 bp):
TATAGCATTGTAATATTTAA
Found at i:22593662 original size:30 final size:29
Alignment explanation
Indices: 22593628--22593705 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
22593618 GTTAAGTATT
22593628 GTTCTGGAAAAAATAATTTTGACAAGATGG
1 GTTCT-GAAAAAATAATTTTGACAAGATGG
* ** *
22593658 GTTCTGAAAAAATAAATTTGACGTGATGT
1 GTTCTGAAAAAATAATTTTGACAAGATGG
*
22593687 GTTCTGAAAAAATTATTTT
1 GTTCTGAAAAAATAATTTT
22593706 AAAAACACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 37 0.88
30 5 0.12
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.36
Consensus pattern (29 bp):
GTTCTGAAAAAATAATTTTGACAAGATGG
Found at i:22594579 original size:23 final size:24
Alignment explanation
Indices: 22594527--22594584 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
22594517 TTTAATAACG
* *
22594527 TATATATTTATTATTTAATCTAAA
1 TATATTTTTATTATTTAATATAAA
*
22594551 TTATATTTTTATTATTTATTATAAA
1 -TATATTTTTATTATTTAATATAAA
22594576 -ATATTTTTA
1 TATATTTTTA
22594585 AACACATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 9 0.30
25 21 0.70
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTTTTATTATTTAATATAAA
Found at i:22596682 original size:30 final size:30
Alignment explanation
Indices: 22596624--22596688 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
22596614 TGGCAAAAAA
*
22596624 CTCTTAAATTCCTCTCTAAAATTTTCAAAG
1 CTCTCAAATTCCTCTCTAAAATTTTCAAAG
* *
22596654 CTCTCAAATTTCTC-CTTAAATTTCTCAAAG
1 CTCTCAAATTCCTCTCTAAAATTT-TCAAAG
22596684 CTCTC
1 CTCTC
22596689 TTTAATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.29, C:0.28, G:0.03, T:0.40
Consensus pattern (30 bp):
CTCTCAAATTCCTCTCTAAAATTTTCAAAG
Found at i:22596916 original size:26 final size:24
Alignment explanation
Indices: 22596862--22596913 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
22596852 TTGAACATTA
*
22596862 TTTAATATTTTTTATTTTATGTAAT
1 TTTAATAATTTTTATTTTA-GTAAT
22596887 TTTAATTAATTTTTATTTTA-TAAT
1 TTTAA-TAATTTTTATTTTAGTAAT
22596911 TTT
1 TTT
22596914 TTATAACAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTAATAATTTTTATTTTAGTAAT
Found at i:22598466 original size:18 final size:18
Alignment explanation
Indices: 22598443--22598485 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
22598433 TGTCAGGTGC
*
22598443 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
22598461 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
22598479 GTTTCCT
1 GTATCCT
22598486 TTTCTCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:22601181 original size:37 final size:38
Alignment explanation
Indices: 22601133--22601212 Score: 101
Period size: 37 Copynumber: 2.1 Consensus size: 38
22601123 AAATTCACAT
* * *
22601133 TTCAAATTTCACTTTTTCACTTTCAA-TCACA-ATTCGA
1 TTCAAAATTCACTTTTCCACTTTCAAGTCA-ATACTCGA
*
22601170 TTCAAAATTCACTTTTCCATTTTCAAGTCAATACTCGA
1 TTCAAAATTCACTTTTCCACTTTCAAGTCAATACTCGA
22601208 TTCAA
1 TTCAA
22601213 TTCCACACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 24 0.65
38 13 0.35
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (38 bp):
TTCAAAATTCACTTTTCCACTTTCAAGTCAATACTCGA
Found at i:22601909 original size:13 final size:13
Alignment explanation
Indices: 22601891--22601920 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22601881 AAACCCTCAA
*
22601891 TTTTCTTTTTTTC
1 TTTTCTTTCTTTC
22601904 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
22601917 TTTT
1 TTTT
22601921 TTCTGTTTTG
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:22604237 original size:40 final size:39
Alignment explanation
Indices: 22604159--22604237 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
22604149 CACTAAAGAT
* * *
22604159 TGAGCATTAGTGGCGTTTTTAAAAAAATACCGCTAAAAA
1 TGAGCATTAGCGGCGTTTTTAAAAAAACACCGCAAAAAA
*
22604198 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCGTTTTT-AAAAAAACACCGCAAAAAA
22604238 CCTTAGCCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 19 0.54
40 16 0.46
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (39 bp):
TGAGCATTAGCGGCGTTTTTAAAAAAACACCGCAAAAAA
Found at i:22604338 original size:41 final size:40
Alignment explanation
Indices: 22604273--22604388 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
22604263 AACATTTCGT
*
22604273 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* *
22604314 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
22604355 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
22604389 AAACATTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:22604630 original size:22 final size:22
Alignment explanation
Indices: 22604605--22604679 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
22604595 GAGTTACTGT
22604605 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
22604627 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
22604649 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
22604669 TTTAAGGTTTA
1 TTTAAGGTTTA
22604680 GGGGTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 19 0.45
22 19 0.45
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:22604651 original size:14 final size:15
Alignment explanation
Indices: 22604621--22604661 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
22604611 GTTTATGGAG
22604621 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
22604636 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
22604650 TATGG-TTTAAGG
1 TATGGATTTAAGG
22604662 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:22604700 original size:22 final size:22
Alignment explanation
Indices: 22604674--22604736 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
22604664 TGAGATTTAA
*
22604674 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
22604696 GGTTTAGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
22604718 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
22604737 CATGGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:22604788 original size:12 final size:12
Alignment explanation
Indices: 22604767--22604809 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
22604757 TGGGTTTAGA
22604767 TTAA-TTATTTT
1 TTAATTTATTTT
22604778 TTAATTTATTTT
1 TTAATTTATTTT
* *
22604790 TAAATAT-TTTT
1 TTAATTTATTTT
22604801 TTAATTTAT
1 TTAATTTAT
22604810 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:22604804 original size:23 final size:24
Alignment explanation
Indices: 22604766--22604819 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
22604756 TTGGGTTTAG
*
22604766 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
22604788 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
22604812 ATTAAATA
1 ATTAAATA
22604820 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:22605041 original size:21 final size:21
Alignment explanation
Indices: 22605017--22605057 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22605007 GATTTAAGGT
22605017 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
22605038 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
22605058 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:22605066 original size:21 final size:20
Alignment explanation
Indices: 22605014--22605067 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
22605004 TAGGATTTAA
22605014 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
22605035 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
22605056 GGATTTAGGGTT
1 GG-TTTAGGGTT
22605068 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:22609701 original size:43 final size:43
Alignment explanation
Indices: 22609619--22609858 Score: 286
Period size: 43 Copynumber: 5.6 Consensus size: 43
22609609 ATGGCACTTT
* * * * *
22609619 TAGCGGCGTTTG-CGAAAAAACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTA
* ** *
22609661 TAGCGGCGTTTATAAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
22609704 TAGCGGCGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * *
22609746 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * * *
22609789 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTA
*
22609832 TAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAGCGGCGTTTGTGGAAAAAGCGCCGC
22609859 AAATACTTTC
Statistics
Matches: 174, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 49 0.28
43 125 0.72
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:22609851 original size:86 final size:85
Alignment explanation
Indices: 22609619--22609852 Score: 290
Period size: 85 Copynumber: 2.7 Consensus size: 85
22609609 ATGGCACTTT
* * * * * * * *** *
22609619 TAGCGGCGTTTGCGAAAAAACGTCGCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGCG
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
*
22609684 CCGCTAAAGGTCTTGATCTA
66 TCGCTAAAGGTCTTGATCTA
* *
22609704 TAGCGGCGTTTGTGTAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
22609769 TCGCTAAAGGT-TCTGATCTA
66 TCGCTAAAGGTCT-TGATCTA
* * *
22609789 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAG
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAG
22609853 CGCCGCAAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 83 0.64
86 45 0.35
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (85 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
TCGCTAAAGGTCTTGATCTA
Found at i:22610569 original size:126 final size:125
Alignment explanation
Indices: 22610340--22610708 Score: 551
Period size: 126 Copynumber: 2.9 Consensus size: 125
22610330 CCAGGTCAAA
* *
22610340 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATATTGT
1 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
* *
22610405 ATCCTACTTAAAGCGTTTTTGACACTATTTGTTTAGAATTGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGTTTAGAATTGTCTTCTCAAAATTA-TTTTC
22610466 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
* * ** *
22610531 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAATCATCTTCTCAAAACTATTTTC
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGTTTAGAATTGTCTTCTCAAAATTATTTTC
* * * * * *
22610591 CAAGAACTACTGTAAAAAAAGAGCGTCCACGTGGGAGCTTTTTCCATCAATTTTGCTAACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
* * *
22610656 ATCTTGCTTAAAGC-TTTTGTGATACTATTTGTTTAGAACTGTCTTCTCAAAAT
66 ATCCTGCTTAAAGCGTTTT-TGACACTATTTGTTTAGAATTGTCTTCTCAAAAT
22610709 AAATTGAATA
Statistics
Matches: 219, Mismatches: 23, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
124 4 0.02
125 103 0.47
126 112 0.51
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (125 bp):
CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
ATCCTGCTTAAAGCGTTTTTGACACTATTTGTTTAGAATTGTCTTCTCAAAATTATTTTC
Found at i:22610837 original size:34 final size:32
Alignment explanation
Indices: 22610785--22610908 Score: 140
Period size: 34 Copynumber: 3.7 Consensus size: 32
22610775 ACACAAAGTT
*
22610785 ATTTTTAAAAAACACTAAACCTTAATTTAATTA
1 ATTTTTTAAAAACACTAAACC-TAATTTAATTA
*
22610818 ATTTTCTTAAAAACTCTAAACCCTAATTTAATTA
1 ATTTT-TTAAAAACACTAAA-CCTAATTTAATTA
* * *
22610852 ATTTATTTTAAACCCCTAAAACCTAATTTAATTA
1 ATTT-TTTAAAAACACT-AAACCTAATTTAATTA
22610886 ATTTTTTAAAAAAACACTAAACC
1 ATTTTTT--AAAAACACTAAACC
22610909 CTGATTTGTT
Statistics
Matches: 77, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
33 8 0.10
34 57 0.74
35 12 0.16
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (32 bp):
ATTTTTTAAAAACACTAAACCTAATTTAATTA
Found at i:22622739 original size:69 final size:68
Alignment explanation
Indices: 22622588--22622792 Score: 239
Period size: 69 Copynumber: 3.0 Consensus size: 68
22622578 ATAGAGCTCC
* * * * ** * *
22622588 CAACTGTCACACTAAGGCTCGTAAGCGAAGAGTGTAGCCTCCAACATAGTTAGTTAGAGTAAAGC
1 CAACTGCCACACTAAGGCTCGTAGGCGAAGAGTGCAGCCTCCAACACAGTTAGCGAGAGCAAAAC
*
22622653 TCT
66 TCA
* *
22622656 CAGCTGCCACACTAAGGCTCGTAGGCGAAGAGCTACAGCCTCCAACACAGTTAGCGAGAGCAAAA
1 CAACTGCCACACTAAGGCTCGTAGGCGAAGAG-TGCAGCCTCCAACACAGTTAGCGAGAGCAAAA
22622721 CTCA
65 CTCA
* ** * * *
22622725 CAATTGTTACACTAAGGCTCGCAGGCGAAGAGTCGCTGCCTCCAACACAGTTAGCGAGATCAAAA
1 CAACTGCCACACTAAGGCTCGTAGGCGAAGAGT-GCAGCCTCCAACACAGTTAGCGAGAGCAAAA
22622790 CTC
65 CTC
22622793 CTAGCTATCA
Statistics
Matches: 116, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
68 30 0.26
69 86 0.74
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (68 bp):
CAACTGCCACACTAAGGCTCGTAGGCGAAGAGTGCAGCCTCCAACACAGTTAGCGAGAGCAAAAC
TCA
Found at i:22628597 original size:9 final size:9
Alignment explanation
Indices: 22628583--22628637 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
22628573 GCATAATTTT
22628583 TTATAAAAA
1 TTATAAAAA
22628592 TTATAAAAA
1 TTATAAAAA
* *
22628601 TAAT-TAAA
1 TTATAAAAA
22628609 TCTATTAAAAA
1 T-TA-TAAAAA
*
22628620 TTATCAAAA
1 TTATAAAAA
22628629 TTATAAAAA
1 TTATAAAAA
22628638 AATATTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 4 0.11
9 26 0.70
10 3 0.08
11 4 0.11
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:22628608 original size:19 final size:19
Alignment explanation
Indices: 22628586--22628648 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
22628576 TAATTTTTTA
22628586 TAAAAATTATAAAAATAAT
1 TAAAAATTATAAAAATAAT
*
22628605 T--AAATCTATTAAAAATTA-
1 TAAAAAT-TA-TAAAAATAAT
* *
22628623 TCAAAATTATAAAAAAATAT
1 TAAAAATTATAAAAATA-AT
22628643 TAAAAA
1 TAAAAA
22628649 CCATAAAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
17 4 0.12
18 9 0.26
19 12 0.35
20 9 0.26
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATTATAAAAATAAT
Found at i:22628647 original size:10 final size:10
Alignment explanation
Indices: 22628586--22628720 Score: 57
Period size: 10 Copynumber: 13.7 Consensus size: 10
22628576 TAATTTTTTA
22628586 TAAAAATTA-
1 TAAAAATTAT
*
22628595 TAAAAATAAT
1 TAAAAATTAT
22628605 T--AAATCTAT
1 TAAAAAT-TAT
22628614 TAAAAATTA-
1 TAAAAATTAT
*
22628623 TCAAAATTAT
1 TAAAAATTAT
* *
22628633 AAAAAAATAT
1 TAAAAATTAT
**
22628643 TAAAAACCA-
1 TAAAAATTAT
* *
22628652 TAAAGATTAG
1 TAAAAATTAT
* *
22628662 AAAAAATAATT
1 TAAAAATTA-T
22628673 TATAAAATTAT
1 TA-AAAATTAT
*
22628684 TAGAAATTAAT
1 TAAAAATT-AT
* *
22628695 TAAGAATCA-
1 TAAAAATTAT
**
22628704 TAAATTTTAT
1 TAAAAATTAT
22628714 TAAAAAT
1 TAAAAAT
22628721 AAAGTTATTT
Statistics
Matches: 88, Mismatches: 28, Indels: 19
0.65 0.21 0.14
Matches are distributed among these distances:
8 4 0.05
9 30 0.34
10 33 0.38
11 15 0.17
12 6 0.07
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:22628660 original size:29 final size:29
Alignment explanation
Indices: 22628611--22628667 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
22628601 TAATTAAATC
** *
22628611 TATTAAAAATTATCAAAATTATAAAAAAA
1 TATTAAAAACCATCAAAATTAGAAAAAAA
22628640 TATTAAAAACCAT-AAAGATTAGAAAAAA
1 TATTAAAAACCATCAAA-ATTAGAAAAAA
22628668 TAATTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (29 bp):
TATTAAAAACCATCAAAATTAGAAAAAAA
Found at i:22631164 original size:9 final size:9
Alignment explanation
Indices: 22631150--22631204 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
22631140 GCATAATTTT
22631150 TTATAAAAA
1 TTATAAAAA
22631159 TTATAAAAA
1 TTATAAAAA
* *
22631168 TAAT-TAAA
1 TTATAAAAA
22631176 TCTATTAAAAA
1 T-TA-TAAAAA
*
22631187 TTATCAAAA
1 TTATAAAAA
22631196 TTATAAAAA
1 TTATAAAAA
22631205 AATATTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 4 0.11
9 26 0.70
10 3 0.08
11 4 0.11
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:22631175 original size:19 final size:19
Alignment explanation
Indices: 22631153--22631215 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
22631143 TAATTTTTTA
22631153 TAAAAATTATAAAAATAAT
1 TAAAAATTATAAAAATAAT
*
22631172 T--AAATCTATTAAAAATTA-
1 TAAAAAT-TA-TAAAAATAAT
* *
22631190 TCAAAATTATAAAAAAATAT
1 TAAAAATTATAAAAATA-AT
22631210 TAAAAA
1 TAAAAA
22631216 CCATAAAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
17 4 0.12
18 9 0.26
19 12 0.35
20 9 0.26
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATTATAAAAATAAT
Found at i:22631214 original size:10 final size:10
Alignment explanation
Indices: 22631153--22631287 Score: 57
Period size: 10 Copynumber: 13.7 Consensus size: 10
22631143 TAATTTTTTA
22631153 TAAAAATTA-
1 TAAAAATTAT
*
22631162 TAAAAATAAT
1 TAAAAATTAT
22631172 T--AAATCTAT
1 TAAAAAT-TAT
22631181 TAAAAATTA-
1 TAAAAATTAT
*
22631190 TCAAAATTAT
1 TAAAAATTAT
* *
22631200 AAAAAAATAT
1 TAAAAATTAT
**
22631210 TAAAAACCA-
1 TAAAAATTAT
* *
22631219 TAAAGATTAG
1 TAAAAATTAT
* *
22631229 AAAAAATAATT
1 TAAAAATTA-T
22631240 TATAAAATTAT
1 TA-AAAATTAT
*
22631251 TAGAAATTAAT
1 TAAAAATT-AT
* *
22631262 TAAGAATCA-
1 TAAAAATTAT
**
22631271 TAAATTTTAT
1 TAAAAATTAT
22631281 TAAAAAT
1 TAAAAAT
22631288 AAAGTTATTT
Statistics
Matches: 88, Mismatches: 28, Indels: 19
0.65 0.21 0.14
Matches are distributed among these distances:
8 4 0.05
9 30 0.34
10 33 0.38
11 15 0.17
12 6 0.07
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:22631227 original size:29 final size:29
Alignment explanation
Indices: 22631178--22631234 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
22631168 TAATTAAATC
** *
22631178 TATTAAAAATTATCAAAATTATAAAAAAA
1 TATTAAAAACCATCAAAATTAGAAAAAAA
22631207 TATTAAAAACCAT-AAAGATTAGAAAAAA
1 TATTAAAAACCATCAAA-ATTAGAAAAAA
22631235 TAATTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (29 bp):
TATTAAAAACCATCAAAATTAGAAAAAAA
Found at i:22631522 original size:22 final size:23
Alignment explanation
Indices: 22631471--22631523 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
22631461 TAATTAAAAT
* * *
22631471 TAAAATTAAAATTAGTTTTTTAA
1 TAAAATTAAAACTAGATTGTTAA
*
22631494 TAAAATTAAAACTA-ATTGTTAG
1 TAAAATTAAAACTAGATTGTTAA
22631516 TAAAATTA
1 TAAAATTA
22631524 TCAAATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.42
Consensus pattern (23 bp):
TAAAATTAAAACTAGATTGTTAA
Found at i:22631591 original size:66 final size:59
Alignment explanation
Indices: 22631526--22631645 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
22631516 TAAAATTATC
* * *
22631526 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
22631584 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
22631643 AAA
1 AAA
22631646 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:22632045 original size:6 final size:7
Alignment explanation
Indices: 22632027--22632051 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22632017 TTTAATGATT
22632027 TAAAAAA
1 TAAAAAA
22632034 TAAAAAA
1 TAAAAAA
22632041 TAAAAAA
1 TAAAAAA
22632048 TAAA
1 TAAA
22632052 TTATTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:22633910 original size:59 final size:58
Alignment explanation
Indices: 22633817--22633966 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
22633807 GTACTTGTGG
* *
22633817 CTTGTGA-TTGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGACATGCTGGTT
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* * * *
22633874 CTTGTGACTTGTGGTTTACTTTTGGTGCCAAAACAAATTTAATCCTTGACATGCTGGTA
1 CTTGTGACTTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* *
22633933 GTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACA
22633967 TAGCAACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (58 bp):
CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
Found at i:22634061 original size:26 final size:26
Alignment explanation
Indices: 22634008--22634063 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
22633998 AATGTCACAC
* *
22634008 ATTTTGAAGCTTCATTTTCTTTGATT
1 ATTTTGAAGCTTCAATTTCTATGATT
*
22634034 ATTTTGAA-CTTCAATTTCATATGCTT
1 ATTTTGAAGCTTCAATTTC-TATGATT
22634060 ATTT
1 ATTT
22634064 CAGATGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (26 bp):
ATTTTGAAGCTTCAATTTCTATGATT
Found at i:22634590 original size:120 final size:120
Alignment explanation
Indices: 22634452--22634675 Score: 439
Period size: 120 Copynumber: 1.9 Consensus size: 120
22634442 TGTAGTATTA
*
22634452 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATA
1 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAATTATA
22634517 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
66 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
22634572 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAATTATA
1 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAATTATA
22634637 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
66 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
22634676 ATATGATTAA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 103 1.00
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAATTATA
TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
Found at i:22634635 original size:61 final size:60
Alignment explanation
Indices: 22634452--22634640 Score: 206
Period size: 61 Copynumber: 3.1 Consensus size: 60
22634442 TGTAGTATTA
22634452 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-TAAAT
* * ** ** * * * * *
22634513 TATATATTTTTATTAAATTATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTATAGTAT
1 TATATATTATGATTTTAGAAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATA-AAT
22634572 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAAT
1 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-TAAAT
22634633 TATATATT
1 TATATATT
22634641 TTTATTAAAT
Statistics
Matches: 98, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 6 0.06
59 32 0.33
60 14 0.14
61 40 0.41
62 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (60 bp):
TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAT
Found at i:22634918 original size:16 final size:16
Alignment explanation
Indices: 22634895--22634953 Score: 73
Period size: 16 Copynumber: 3.7 Consensus size: 16
22634885 TGCTATTACG
22634895 CCTCTATTCCATTAAA
1 CCTCTATTCCATTAAA
* **
22634911 CCTTTATTCCATTACG
1 CCTCTATTCCATTAAA
**
22634927 CCTCTATTCCATTACG
1 CCTCTATTCCATTAAA
22634943 CCTCTATTCCA
1 CCTCTATTCCA
22634954 ATACAGCGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.22, C:0.36, G:0.03, T:0.39
Consensus pattern (16 bp):
CCTCTATTCCATTAAA
Found at i:22634951 original size:32 final size:32
Alignment explanation
Indices: 22634889--22634953 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
22634879 TTGATTTGCT
*
22634889 ATTACGCCTCTATTCCATTAAACCTTTATTCC
1 ATTACGCCTCTATTCCATTAAACCTCTATTCC
**
22634921 ATTACGCCTCTATTCCATTACGCCTCTATTCC
1 ATTACGCCTCTATTCCATTAAACCTCTATTCC
22634953 A
1 A
22634954 ATACAGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.34, G:0.05, T:0.38
Consensus pattern (32 bp):
ATTACGCCTCTATTCCATTAAACCTCTATTCC
Found at i:22637793 original size:24 final size:24
Alignment explanation
Indices: 22637761--22637806 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
22637751 GAGATAATTT
22637761 ATGCTCCAAAAATTCCTTTAAATC
1 ATGCTCCAAAAATTCCTTTAAATC
22637785 ATGCTCCAAAAATTCCTTTAAA
1 ATGCTCCAAAAATTCCTTTAAA
22637807 GTTAAAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (24 bp):
ATGCTCCAAAAATTCCTTTAAATC
Found at i:22641722 original size:30 final size:30
Alignment explanation
Indices: 22641688--22641816 Score: 159
Period size: 30 Copynumber: 4.0 Consensus size: 30
22641678 CACTATTTTG
22641688 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
*
22641718 TATGAGTCATAAAAGTGAGTTTGTTTGTTAGAAAAA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTT------A
* *
22641754 TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTA
1 --TATGAGTCATAAAAGTAAGTTTGTTTGTTA
22641786 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
22641816 T
1 T
22641817 GTAAAGGAGA
Statistics
Matches: 85, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
30 57 0.67
32 1 0.01
36 1 0.01
38 26 0.31
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (30 bp):
TATGAGTCATAAAAGTAAGTTTGTTTGTTA
Found at i:22641770 original size:68 final size:68
Alignment explanation
Indices: 22641686--22641815 Score: 233
Period size: 68 Copynumber: 1.9 Consensus size: 68
22641676 TTCACTATTT
* * *
22641686 TGTATGAGTCATAAAAGTAAGTTTGTTTGTTATATGAGTCATAAAAGTGAGTTTGTTTGTTAGAA
1 TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTATATGAGTCATAAAAGTAAGTTTGTTTGTTAGAA
22641751 AAA
66 AAA
22641754 TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTATATGAGTCATAAAAGTAAGTTTGTTTGTTA
1 TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTATATGAGTCATAAAAGTAAGTTTGTTTGTTA
22641816 TGTAAAGGAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.41
Consensus pattern (68 bp):
TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTATATGAGTCATAAAAGTAAGTTTGTTTGTTAGAA
AAA
Found at i:22647885 original size:48 final size:48
Alignment explanation
Indices: 22647828--22647937 Score: 184
Period size: 48 Copynumber: 2.3 Consensus size: 48
22647818 TTAGCTTATT
** *
22647828 AATGTTGTCCAAATTGGTGCTTAATTGTTGTCTATTTTTGTACAAATC
1 AATGTTGTCCAAATTGGTGCTTAATTACTGTCCATTTTTGTACAAATC
*
22647876 AATGCTGTCCAAATTGGTGCTTAATTACTGTCCATTTTTGTACAAATC
1 AATGTTGTCCAAATTGGTGCTTAATTACTGTCCATTTTTGTACAAATC
22647924 AATGTTGTCCAAAT
1 AATGTTGTCCAAAT
22647938 GTTGTTACTA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (48 bp):
AATGTTGTCCAAATTGGTGCTTAATTACTGTCCATTTTTGTACAAATC
Found at i:22652824 original size:15 final size:15
Alignment explanation
Indices: 22652804--22652843 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
22652794 TTACAAGAAT
22652804 TTGAAGAATCTCCTA
1 TTGAAGAATCTCCTA
*
22652819 TTGAAGAATCTCTTA
1 TTGAAGAATCTCCTA
22652834 TTGAAGAATC
1 TTGAAGAATC
22652844 ATCTTCATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (15 bp):
TTGAAGAATCTCCTA
Found at i:22656864 original size:31 final size:30
Alignment explanation
Indices: 22656803--22656932 Score: 134
Period size: 30 Copynumber: 4.0 Consensus size: 30
22656793 CACTATTTTG
22656803 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
*
22656833 TATGAGTCATAAAAGTAAGTTTTTTTTGTTA
1 TATGAGTCATAAAAGTAAG-TTTGTTTGTTA
* *
22656864 TAAAAAGGTACGAGTTAAAAAAGTAAGTTTGTTTGTTA
1 T----A--T--GAGTCATAAAAGTAAGTTTGTTTGTTA
* *
22656902 TATGAGTCATAAAAATAAATTTGTTTGTTA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
22656932 T
1 T
22656933 GTAAAGGAGA
Statistics
Matches: 83, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
30 43 0.52
31 11 0.13
32 1 0.01
34 1 0.01
35 1 0.01
37 1 0.01
38 11 0.13
39 14 0.17
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (30 bp):
TATGAGTCATAAAAGTAAGTTTGTTTGTTA
Found at i:22660051 original size:15 final size:15
Alignment explanation
Indices: 22660013--22660052 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22660003 AACTGGCTAA
22660013 ATTATATTAATC-AT
1 ATTATATTAATCAAT
22660027 -TTA-A-TAATCAAT
1 ATTATATTAATCAAT
22660039 ATTATATTAATCAA
1 ATTATATTAATCAA
22660053 AATTTTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.23
12 3 0.14
13 6 0.27
14 1 0.05
15 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATATTAATCAAT
Found at i:22666581 original size:9 final size:9
Alignment explanation
Indices: 22666567--22666615 Score: 82
Period size: 9 Copynumber: 5.4 Consensus size: 9
22666557 TTTGGTTAAA
22666567 AATTAACCG
1 AATTAACCG
22666576 AATTAACCG
1 AATTAACCG
22666585 AATTAACCG
1 AATTAACCG
22666594 AATT-ACTCG
1 AATTAAC-CG
22666603 AATTAACCG
1 AATTAACCG
22666612 AATT
1 AATT
22666616 GAATCACTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
8 2 0.05
9 34 0.89
10 2 0.05
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:22666654 original size:26 final size:26
Alignment explanation
Indices: 22666623--22666674 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
22666613 ATTGAATCAC
22666623 TACATAATTAAAAACATTACATAAGT
1 TACATAATTAAAAACATTACATAAGT
22666649 TACATAATTAAAAACATTACATAAGT
1 TACATAATTAAAAACATTACATAAGT
22666675 CTTGAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (26 bp):
TACATAATTAAAAACATTACATAAGT
Found at i:22669621 original size:56 final size:57
Alignment explanation
Indices: 22669413--22669667 Score: 297
Period size: 57 Copynumber: 4.5 Consensus size: 57
22669403 GACATTGAAG
* * * * *
22669413 CAACA-CTTTAATTTAATTTAGGATAGCAT-AATAATACTCAATTTGAAACA-TTAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACACTAAAA
* * * *
22669468 CATCAAC-TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATACACTAAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
* * *
22669524 CACCAGCTTTAATTCAATTTATGACAGTATGAAAATGCTCAATTTGAAACACTAAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
* * *
22669581 CAACAGC-TTCATTCAATTTAAGATAGTATGAAAATGCTCAATTTGAAACACTCAAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACT-AAAA
* *
22669638 -AACAGCTTTAATTCAATTTATGACAACATG
1 CAACAGCTTTAATTCAATTTAAGACAGCATG
22669668 CAAACAGTAA
Statistics
Matches: 173, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
55 40 0.23
56 60 0.35
57 73 0.42
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (57 bp):
CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
Found at i:22669621 original size:113 final size:112
Alignment explanation
Indices: 22669414--22669662 Score: 324
Period size: 113 Copynumber: 2.2 Consensus size: 112
22669404 ACATTGAAGC
* * * * *
22669414 AACA-CTTTAATTTAATTTAGGATAGCATAATAATACTCAATTTGAAACATTAAACATCAACTTA
1 AACAGCTTTAATTCAATTTATGACAGCATAATAATACTCAATTTGAAACATAAAACAACAACTTA
* *
22669478 ATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATACACT-AAAA
66 ATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTCAAAA
* * * *
22669524 CACCAGCTTTAATTCAATTTATGACAGTATGAA-AATGCTCAATTTGAAACACTAAAACAACAGC
1 -AACAGCTTTAATTCAATTTATGACAGCAT-AATAATACTCAATTTGAAACA-TAAAACAACAAC
* * *
22669588 TTCATTCAATTTAAGATAGTATGAAAATGCTCAATTTGAAACACTCAAAA
63 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTCAAAA
22669638 AACAGCTTTAATTCAATTTATGACA
1 AACAGCTTTAATTCAATTTATGACA
22669663 ACATGCAAAC
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
111 3 0.03
112 37 0.31
113 75 0.63
114 4 0.03
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (112 bp):
AACAGCTTTAATTCAATTTATGACAGCATAATAATACTCAATTTGAAACATAAAACAACAACTTA
ATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTCAAAA
Found at i:22670420 original size:66 final size:66
Alignment explanation
Indices: 22670344--22670477 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
22670334 ATAAAAATTT
22670344 ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATATTCTTCA
1 ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATATTCTTCA
22670409 G
66 G
22670410 ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATATTCTTCA
1 ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATATTCTTCA
22670475 G
66 G
22670476 AT
1 AT
22670478 GTAAATCTTC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (66 bp):
ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATATTCTTCA
G
Found at i:22670951 original size:19 final size:19
Alignment explanation
Indices: 22670927--22670965 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
22670917 AAGAAAAATT
*
22670927 AGAGAAAAAGATGAGAAAA
1 AGAGAAAAAGAAGAGAAAA
22670946 AGAGAAAAAGAAGAGAAAA
1 AGAGAAAAAGAAGAGAAAA
22670965 A
1 A
22670966 TTTGTGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAGAAAAAGAAGAGAAAA
Found at i:22671110 original size:18 final size:18
Alignment explanation
Indices: 22671084--22671137 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
22671074 AATTTTTATG
*
22671084 ATTGAGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
*
22671102 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
22671120 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
22671138 TTAGGTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.13, C:0.02, G:0.44, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:22671611 original size:32 final size:30
Alignment explanation
Indices: 22671575--22671648 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 30
22671565 TACAAAATAA
*
22671575 TATTTTATATTAAATTATATTAAAAGATTTTT
1 TATTTTATATTAAATTAT-TTAAAAGA-TCTT
*
22671607 TATTTTTATATTAAATTATTTAAAATATCTT
1 TA-TTTTATATTAAATTATTTAAAAGATCTT
*
22671638 CATTTTATATT
1 TATTTTATATT
22671649 TTTCTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.24
31 4 0.11
32 9 0.24
33 16 0.42
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (30 bp):
TATTTTATATTAAATTATTTAAAAGATCTT
Found at i:22674887 original size:24 final size:25
Alignment explanation
Indices: 22674834--22674881 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22674824 TTGTCTCTCA
* *
22674834 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
22674859 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
22674882 CGGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:22676341 original size:43 final size:43
Alignment explanation
Indices: 22676292--22676375 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
22676282 GATACGAGCA
* *
22676292 TGTCTCTTGACCGTGTAAACCACACGGCCTGGCCACACGGATG
1 TGTCTCTTAACCATGTAAACCACACGGCCTGGCCACACGGATG
*
22676335 TGTCTCTTAACCATGTGAACCACACGGCCTGGCCACACGGA
1 TGTCTCTTAACCATGTAAACCACACGGCCTGGCCACACGGA
22676376 CTTGTGTCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.23, C:0.33, G:0.24, T:0.20
Consensus pattern (43 bp):
TGTCTCTTAACCATGTAAACCACACGGCCTGGCCACACGGATG
Found at i:22677698 original size:14 final size:13
Alignment explanation
Indices: 22677673--22677718 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
22677663 TTATATATTT
22677673 TTTC-TTTTTTTC
1 TTTCTTTTTTTTC
22677685 TTTCTTTATTTTTC
1 TTTCTTT-TTTTTC
*
22677699 TTTCTCTTTTTTC
1 TTTCTTTTTTTTC
22677712 TCTTCTT
1 T-TTCTT
22677719 CTCTCAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 4 0.14
13 9 0.31
14 16 0.55
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:22677840 original size:18 final size:17
Alignment explanation
Indices: 22677801--22677834 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22677791 CCTTTCTCTT
*
22677801 TTCTTTTTCCTCTTATC
1 TTCTTTTTCCTCTCATC
22677818 TTCTTTTCTCCTCTCAT
1 TTCTTTT-TCCTCTCAT
22677835 TCTCTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.06, C:0.32, G:0.00, T:0.62
Consensus pattern (17 bp):
TTCTTTTTCCTCTCATC
Found at i:22678494 original size:57 final size:57
Alignment explanation
Indices: 22678381--22678517 Score: 195
Period size: 57 Copynumber: 2.4 Consensus size: 57
22678371 CAAAATTTCT
* *
22678381 AGGGTAAAAATATAATTTTAGGAAAAATTAAAGGCCAAAATGTAAATAGTAAAAAGTTA
1 AGGGTCAAAATGTAATTTTAGGAAAAATT--AGGCCAAAATGTAAATAGTAAAAAGTTA
* *
22678440 GGGGTCAAAATGTAATTTTAGGAAAAATT-GGCCCAAAATGTAAATATTAAAAAGTTA
1 AGGGTCAAAATGTAATTTTAGGAAAAATTAGG-CCAAAATGTAAATAGTAAAAAGTTA
22678497 AGGGTCAAAATGTAAATTTTA
1 AGGGTCAAAATGT-AATTTTA
22678518 AAAAGTTAAG
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
56 2 0.03
57 36 0.51
58 7 0.10
59 26 0.37
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.28
Consensus pattern (57 bp):
AGGGTCAAAATGTAATTTTAGGAAAAATTAGGCCAAAATGTAAATAGTAAAAAGTTA
Found at i:22678553 original size:59 final size:57
Alignment explanation
Indices: 22678381--22678575 Score: 166
Period size: 59 Copynumber: 3.4 Consensus size: 57
22678371 CAAAATTTCT
* * * *
22678381 AGGGTAAAAATAT-AATTTTAGGAAAAATTAAAGG-CCAAAATGTAAATAGTAAAAAGTTA
1 AGGGTCAAAATGTAAATTTTA-GAAAAATT---GGCCCAAAATATAAATATTAAAAAGTTA
* *
22678440 GGGGTCAAAATGT-AATTTTAGGAAAAATTGGCCCAAAATGTAAATATTAAAAAGTTA
1 AGGGTCAAAATGTAAATTTTA-GAAAAATTGGCCCAAAATATAAATATTAAAAAGTTA
* ** * *
22678497 AGGGTCAAAATGTAAATTTTA-AAAAGTTAAGGGGTCAAAATATAAATTTTTAAAAGTTA
1 AGGGTCAAAATGTAAATTTTAGAAAAATT---GGCCCAAAATATAAATATTAAAAAGTTA
*
22678556 AGTGGT-AAAATGGAAATTTT
1 AG-GGTCAAAATGTAAATTTT
22678576 TTTATCAAAT
Statistics
Matches: 118, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
56 8 0.07
57 36 0.31
58 7 0.06
59 64 0.54
60 3 0.03
ACGTcount: A:0.48, C:0.04, G:0.18, T:0.29
Consensus pattern (57 bp):
AGGGTCAAAATGTAAATTTTAGAAAAATTGGCCCAAAATATAAATATTAAAAAGTTA
Found at i:22678576 original size:29 final size:29
Alignment explanation
Indices: 22678403--22678575 Score: 167
Period size: 29 Copynumber: 6.0 Consensus size: 29
22678393 TAATTTTAGG
* * **
22678403 AAAAA-TTAAAGGCCAAAATGTAAATAGT
1 AAAAAGTTAAGGGTCAAAATGTAAATTTT
*
22678431 AAAAAGTTAGGGGTCAAAATGT-AATTTT
1 AAAAAGTTAAGGGTCAAAATGTAAATTTT
* ** *
22678459 AGGAAAAATT--GGCCCAAAATGTAAATATT
1 A--AAAAGTTAAGGGTCAAAATGTAAATTTT
22678488 AAAAAGTTAAGGGTCAAAATGTAAATTTT
1 AAAAAGTTAAGGGTCAAAATGTAAATTTT
*
22678517 AAAAAGTTAAGGGGTCAAAATATAAATTTT
1 AAAAAGTTAA-GGGTCAAAATGTAAATTTT
* *
22678547 TAAAAGTTAAGTGGT-AAAATGGAAATTTT
1 AAAAAGTTAAG-GGTCAAAATGTAAATTTT
22678576 TTTATCAAAT
Statistics
Matches: 120, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
27 6 0.05
28 20 0.17
29 58 0.48
30 36 0.30
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.29
Consensus pattern (29 bp):
AAAAAGTTAAGGGTCAAAATGTAAATTTT
Found at i:22678866 original size:77 final size:76
Alignment explanation
Indices: 22678737--22679070 Score: 386
Period size: 77 Copynumber: 4.3 Consensus size: 76
22678727 TTTTTTTATT
* * * * * *
22678737 TTTTTTGAAAAATAGAAATTGAAAATACCTCGGTGTGCGAACTGAGGCTCAACTCACTTGTCGGA
1 TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTCTCGGA
22678802 TTAT-ATGTTGA
66 TTATGA-GTTGA
* ** ** *
22678813 TTTTTTTGAAAAATAAAAATTGATCATACCTCGGCGTGCGACCCGAAAATCAACTCATCTCTCGG
1 -TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTCTCGG
* *
22678878 ATTGTGAATTGA
65 ATTATGAGTTGA
* *
22678890 -TCTTTGAAAAATAGAAATAGAAAATTTACCTCGGCGTGCGACCCGAAGCTCAACTCACCTCTCG
1 TTTTTTGAAAAATAGAAATTGAAAA--TACCTCGGCGTGCGACCCGAAGCTCAACTCACCTCTCG
*
22678954 GATTATGGGTT-A
64 GATTATGAGTTGA
* * *
22678966 ATTTTTGAGAAAATAGAAATTGATAATATACCTCGGCGTGCGACCAGATGCTCAACTCACCTCTC
1 TTTTTTGA-AAAATAGAAATTGA-AA-ATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTCTC
22679031 GGATTATGAGTTGA
63 GGATTATGAGTTGA
* *
22679045 TTTTTTGAAAAACAAAAATTGAAAAT
1 TTTTTTGAAAAATAGAAATTGAAAAT
22679071 GATTTTTGAA
Statistics
Matches: 216, Mismatches: 33, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
75 19 0.09
76 3 0.01
77 111 0.51
78 72 0.33
79 10 0.05
80 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (76 bp):
TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTCTCGGA
TTATGAGTTGA
Found at i:22691703 original size:6 final size:6
Alignment explanation
Indices: 22691668--22691723 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
22691658 TCCCCCTTTC
* *
22691668 TCTCTT TCTGCTT TCT-TT T-TCCT TCTTCTT TCTCTT TCTCTTT TCTCAT
1 TCTCTT TCT-CTT TCTCTT TCTCTT TC-TCTT TCTCTT TCTC-TT TCTCTT
22691717 TCTCTT T
1 TCTCTT T
22691724 TATTTCGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 1 0.02
5 5 0.12
6 18 0.44
7 17 0.41
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.66
Consensus pattern (6 bp):
TCTCTT
Found at i:22691719 original size:19 final size:18
Alignment explanation
Indices: 22691663--22691723 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
22691653 CATCCTCCCC
22691663 CTTTCTCTCTTTCTGCTT-T
1 CTTTCTCT-TTTCT-CTTCT
*
22691682 CTTTTTCCTTCTTCT-TTCT
1 CTTTCT-CTT-TTCTCTTCT
22691701 CTTTCTCTTTTCTCATTCT
1 CTTTCTCTTTTCTC-TTCT
22691720 CTTT
1 CTTT
22691724 TATTTCGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 4 0.11
18 5 0.14
19 20 0.57
20 6 0.17
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.66
Consensus pattern (18 bp):
CTTTCTCTTTTCTCTTCT
Found at i:22692215 original size:31 final size:30
Alignment explanation
Indices: 22692177--22692248 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
22692167 GTTGAGGCCT
***
22692177 AAAATATAAATAGTAAAAAGTTAGGGCGGTC
1 AAAATATAAATAGTAAAAAGTT-GAAAGGTC
**
22692208 AAAATATAAATTTTAAAAAGTTGAAAGGTC
1 AAAATATAAATAGTAAAAAGTTGAAAGGTC
22692238 AAAATATAAAT
1 AAAATATAAAT
22692249 TTTAGATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 16 0.44
31 20 0.56
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.26
Consensus pattern (30 bp):
AAAATATAAATAGTAAAAAGTTGAAAGGTC
Found at i:22692240 original size:30 final size:28
Alignment explanation
Indices: 22692147--22692252 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 28
22692137 TTCTGGGGTA
*
22692147 AAAATAT-AATTTTAGGAAAAGTTGAGGCC
1 AAAATATAAATTTTA--AAAAGTTGAGGTC
** *
22692176 TAAAATATAAATAGTAAAAAGTTAGGGCGGTC
1 -AAAATATAAATTTTAAAAAGTT---GAGGTC
22692208 AAAATATAAATTTTAAAAAGTTGAAAGGTC
1 AAAATATAAATTTTAAAAAGTTG--AGGTC
22692238 AAAATATAAATTTTA
1 AAAATATAAATTTTA
22692253 GATTTTTGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
28 1 0.02
29 7 0.11
30 26 0.41
31 25 0.40
32 4 0.06
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (28 bp):
AAAATATAAATTTTAAAAAGTTGAGGTC
Found at i:22698567 original size:24 final size:25
Alignment explanation
Indices: 22698514--22698561 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22698504 TTGGCTCTCA
* *
22698514 CGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGCTCTTG
22698539 CGAGCTTCCCGTTA-ATAGCTCTT
1 CGAGCTTCCCGTTATATAGCTCTT
22698562 CGGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGCTCTTG
Found at i:22705546 original size:52 final size:52
Alignment explanation
Indices: 22705485--22705591 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
22705475 TATTGATTTA
22705485 ACAAGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
1 ACAAGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
*
22705537 ACAAGTTTCATTTGCAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
1 ACAAGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
22705589 ACA
1 ACA
22705592 TACTGCAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (52 bp):
ACAAGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCT
Found at i:22712597 original size:15 final size:15
Alignment explanation
Indices: 22712577--22712607 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22712567 AAAAAACCTA
*
22712577 TATATATGTATATTT
1 TATATATATATATTT
22712592 TATATATATATATTT
1 TATATATATATATTT
22712607 T
1 T
22712608 TGCAACTAAT
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:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TATATATATATATTT
Found at i:22713262 original size:98 final size:98
Alignment explanation
Indices: 22713142--22713338 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
22713132 TAAAACATAA
*
22713142 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
22713207 TTAAATCTTGGATAAGTGGATCTTCTTTGAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTGAAAG
* *
22713240 TAAATGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
* *
22713305 TTAAATCTTGTATAAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTGAAAG
22713338 T
1 T
22713339 TTTATTGCAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTGAAAG
Found at i:22714283 original size:18 final size:19
Alignment explanation
Indices: 22714256--22714294 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
22714246 AATTATTTAA
* *
22714256 ATTTTATTTAACATTTTTT
1 ATTTTATTTAAAATATTTT
22714275 ATTTT-TTTAAAATATTTT
1 ATTTTATTTAAAATATTTT
22714293 AT
1 AT
22714295 ATATAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTATTTAAAATATTTT
Found at i:22714553 original size:6 final size:6
Alignment explanation
Indices: 22714542--22714569 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22714532 CTTTCCAACT
22714542 GCAATC GCAATC GCAATC GCAATC GCAA
1 GCAATC GCAATC GCAATC GCAATC GCAA
22714570 CTGCAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.14
Consensus pattern (6 bp):
GCAATC
Found at i:22717490 original size:29 final size:29
Alignment explanation
Indices: 22717448--22717506 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
22717438 GATGTAGATG
22717448 TAGAAGTAGTGATATAATTAACAACTAAC
1 TAGAAGTAGTGATATAATTAACAACTAAC
22717477 TAGAAGTAGTGATATAATTAACAACTAAC
1 TAGAAGTAGTGATATAATTAACAACTAAC
22717506 T
1 T
22717507 TCAAGCTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (29 bp):
TAGAAGTAGTGATATAATTAACAACTAAC
Found at i:22718910 original size:3 final size:3
Alignment explanation
Indices: 22718904--22718932 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22718894 CAATGAAGGA
22718904 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
22718933 GGCCCTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:22719200 original size:16 final size:17
Alignment explanation
Indices: 22719169--22719201 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22719159 ATATTTTTAA
22719169 TAATTATTTTACTTTGT
1 TAATTATTTTACTTTGT
*
22719186 TAATTTTTTTA-TTTGT
1 TAATTATTTTACTTTGT
22719202 ATTTAGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (17 bp):
TAATTATTTTACTTTGT
Found at i:22727470 original size:28 final size:28
Alignment explanation
Indices: 22727438--22727565 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
22727428 ATAGTAAGTC
*
22727438 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
22727466 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
22727495 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
22727523 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
22727552 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22727566 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:22727528 original size:57 final size:57
Alignment explanation
Indices: 22727437--22727565 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
22727427 TATAGTAAGT
*
22727437 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
22727494 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
22727551 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
22727566 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:22749945 original size:40 final size:40
Alignment explanation
Indices: 22749847--22750109 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
22749837 TCCTCGTTCA
* * * * *
22749847 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
22749886 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22749926 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22749966 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
22750006 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
22750046 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
22750086 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22750110 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:22757898 original size:40 final size:40
Alignment explanation
Indices: 22757800--22758062 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
22757790 TCCTCGTTCA
* * * * *
22757800 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
22757839 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22757879 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
22757919 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
22757959 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
22757999 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
22758039 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22758063 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:22764318 original size:13 final size:14
Alignment explanation
Indices: 22764294--22764323 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22764284 TTTATTGAAC
22764294 TTTTATTGTGTTGT
1 TTTTATTGTGTTGT
22764308 TTTTATT-TGTTGT
1 TTTTATTGTGTTGT
22764321 TTT
1 TTT
22764324 CTTGTTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.77
Consensus pattern (14 bp):
TTTTATTGTGTTGT
Found at i:22764572 original size:5 final size:5
Alignment explanation
Indices: 22764562--22764592 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
22764552 GAACAAATAT
22764562 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
22764593 ATTCCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:22765033 original size:27 final size:27
Alignment explanation
Indices: 22764995--22765060 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
22764985 ACCCGGTCAT
* * *
22764995 TAAACATGGGGTCGTCCACTGGGACAG
1 TAAACATGGGGTAGCCCACTGGGACAA
* *
22765022 TAAACATGGGGTAGCCCATTGGGATAA
1 TAAACATGGGGTAGCCCACTGGGACAA
*
22765049 TAAACACGGGGT
1 TAAACATGGGGT
22765061 GGAAAGGGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (27 bp):
TAAACATGGGGTAGCCCACTGGGACAA
Found at i:22771052 original size:12 final size:12
Alignment explanation
Indices: 22771035--22771062 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22771025 TAAAATGAAG
22771035 AATATTAACAAA
1 AATATTAACAAA
22771047 AATATTAACAAA
1 AATATTAACAAA
22771059 AATA
1 AATA
22771063 GCCACAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (12 bp):
AATATTAACAAA
Found at i:22776147 original size:47 final size:47
Alignment explanation
Indices: 22776093--22776599 Score: 755
Period size: 47 Copynumber: 10.7 Consensus size: 47
22776083 TTAGGATTTT
* *
22776093 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
* *
22776140 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
22776187 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
* *
22776234 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
* *
22776281 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
*
22776328 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
22776375 ATGTGATGAATGTGAACATGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAC--GTGTATATATGTGATAAGGCCGAATGGCCA
* * *
22776424 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
22776471 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
* *
22776518 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCG
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
* *
22776565 ATGTGATGGATGTGGAA-GTGTATAAATGTGATAAG
1 ATGTGATGAATGT-GAACGTGTATATATGTGATAAG
22776600 TCCCGAAGGG
Statistics
Matches: 439, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
47 394 0.90
48 3 0.01
49 42 0.10
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:22776774 original size:37 final size:37
Alignment explanation
Indices: 22776718--22776796 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22776708 CCGAGCTCTA
* * *
22776718 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22776755 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22776792 AAGAC
1 AAGAC
22776797 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22789907 original size:21 final size:22
Alignment explanation
Indices: 22789880--22789929 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
22789870 TTTATTTCTA
22789880 TTAATTTAGTAAT-TTTTTATTT
1 TTAATTTA-TAATATTTTTATTT
*
22789902 TT-ATTT-TAATATTTTTGTTT
1 TTAATTTATAATATTTTTATTT
22789922 TTAATTTA
1 TTAATTTA
22789930 ATTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 8 0.33
22 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
TTAATTTATAATATTTTTATTT
Found at i:22789922 original size:20 final size:19
Alignment explanation
Indices: 22789889--22789940 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
22789879 ATTAATTTAG
*
22789889 TAATTTTTTATTTTTATTT
1 TAATTTTTTATTTTTAATT
*
22789908 TAATATTTTTGTTTTTAATT
1 TAAT-TTTTTATTTTTAATT
22789928 TAATTTTTATATT
1 TAATTTTT-TATT
22789941 CTAATTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TAATTTTTTATTTTTAATT
Found at i:22796005 original size:49 final size:51
Alignment explanation
Indices: 22795943--22796040 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 51
22795933 TACAATATCT
* * *
22795943 ATTCTATTCAACCAAAGAAAAGAA-TGCT-ATTACAGCTCTATTCCATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATTCC
**
22795992 ATTCCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATT
1 ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
22796041 ACAGCTCTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 20 0.48
50 3 0.07
51 19 0.45
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (51 bp):
ATTCCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATTCC
Found at i:22796043 original size:16 final size:16
Alignment explanation
Indices: 22796022--22796075 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
22796012 TGAATTACTG
22796022 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
22796038 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
22796054 ATTACA-TTCCTATTCC
1 ATTACAGCT-CTATTCC
22796070 ATTACA
1 ATTACA
22796076 ATGAACCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:22796916 original size:19 final size:19
Alignment explanation
Indices: 22796892--22796928 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
22796882 AGTTTTTTTT
22796892 TTCTTTTGATTT-CTTCTTC
1 TTCTTTTG-TTTCCTTCTTC
22796911 TTCTTTTGTTTCCTTCTT
1 TTCTTTTGTTTCCTTCTT
22796929 ACCCAACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.03, C:0.22, G:0.05, T:0.70
Consensus pattern (19 bp):
TTCTTTTGTTTCCTTCTTC
Found at i:22796990 original size:16 final size:16
Alignment explanation
Indices: 22796969--22797015 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
22796959 TATTTATTTA
22796969 TTTGTTTTTGTTTTTT
1 TTTGTTTTTGTTTTTT
22796985 TTTGTTTTT-TTGTTTT
1 TTTGTTTTTGTT-TTTT
22797001 TTTGTTTTATGTTTT
1 TTTGTTTT-TGTTTT
22797016 ATATTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.07
16 21 0.75
17 3 0.11
18 2 0.07
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (16 bp):
TTTGTTTTTGTTTTTT
Found at i:22796992 original size:7 final size:8
Alignment explanation
Indices: 22796969--22797008 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
22796959 TATTTATTTA
22796969 TTTGTTTT
1 TTTGTTTT
22796977 TGTT-TTTT
1 T-TTGTTTT
22796985 TTTGTTTT
1 TTTGTTTT
22796993 TTTGTTTT
1 TTTGTTTT
22797001 TTTGTTTT
1 TTTGTTTT
22797009 ATGTTTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.07
8 26 0.87
9 2 0.07
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTGTTTT
Found at i:22808697 original size:43 final size:43
Alignment explanation
Indices: 22808548--22808706 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
22808538 AATGTGACAT
* *
22808548 CGTGTAAGACCACGTGTGGGACATTGGCCTCGATT-TGA-GATTTA
1 CGTGTAAGACCACGTTTGGGACATTGGCATC-ATTAT-ATGA-TTA
* * *
22808592 CGTGTAAGACCATGTTTGGGAAATTGGCATCA-TATATGGTTA
1 CGTGTAAGACCACGTTTGGGACATTGGCATCATTATATGATTA
* * *
22808634 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCATTATTTGATTA
1 CGTGTAAGACCAC-GTTTGGGACATTGGCATCATTATATGATTA
*
22808677 CATGTAAGACCACGTTTGGGACATTGGCAT
1 CGTGTAAGACCACGTTTGGGACATTGGCAT
22808707 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 32 0.33
43 36 0.38
44 28 0.29
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTTTGGGACATTGGCATCATTATATGATTA
Found at i:22827270 original size:19 final size:19
Alignment explanation
Indices: 22827246--22827283 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22827236 AAGTTAATAA
*
22827246 CAAATTTGATTACAGTGGG
1 CAAATTTAATTACAGTGGG
22827265 CAAATTTAATTACAGTGGG
1 CAAATTTAATTACAGTGGG
22827284 TGACAGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
CAAATTTAATTACAGTGGG
Found at i:22845271 original size:30 final size:31
Alignment explanation
Indices: 22845219--22845277 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
22845209 TTTGACTCTT
**
22845219 TTTCAAAAAGTTGATGGTCAAATTTAACTCA
1 TTTCAAAAAGTTGATGCCCAAATTTAACTCA
*
22845250 TTTCAAATA-TTGATGCCCAAATTTAACT
1 TTTCAAAAAGTTGATGCCCAAATTTAACT
22845278 TAAAAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTCAAAAAGTTGATGCCCAAATTTAACTCA
Found at i:22858814 original size:50 final size:50
Alignment explanation
Indices: 22858751--22859011 Score: 324
Period size: 50 Copynumber: 5.2 Consensus size: 50
22858741 CAATGTCATA
* ** * * *
22858751 TCCCAGATATGGTCTTACATGGGAGTTCTTATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
** * **
22858801 TCCCAGACATGGTCTTACGGGGGACCACTTATCTCGGTGCCAACGTAATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
* * *
22858851 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
** * **
22858901 TCCCAGACATGGTCTTACGGGGGACCACTTATCTCGGTGCCAACGTAATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
* *
22858951 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
*
22859001 TCCGAGACATG
1 TCCCAGACATG
22859012 AGCCATGTCC
Statistics
Matches: 176, Mismatches: 35, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 176 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
Found at i:22858865 original size:100 final size:100
Alignment explanation
Indices: 22858751--22859011 Score: 423
Period size: 100 Copynumber: 2.6 Consensus size: 100
22858741 CAATGTCATA
* ** * * * *
22858751 TCCCAGATATGGTCTTACATGGGAGTTCTTATATCGGTGCCCATGCCATGTCCCAGACATGGTCT
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
22858816 TACGGGGGACCACTTATCTCGGTGCCAACGTAATG
66 TACGGGGGACCACTTATCTCGGTGCCAACGTAATG
* *
22858851 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATATCCCAGACATGGTCT
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
22858916 TACGGGGGACCACTTATCTCGGTGCCAACGTAATG
66 TACGGGGGACCACTTATCTCGGTGCCAACGTAATG
* *
22858951 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCGAGACATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATG
22859012 AGCCATGTCC
Statistics
Matches: 148, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 148 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (100 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
TACGGGGGACCACTTATCTCGGTGCCAACGTAATG
Found at i:22858959 original size:150 final size:149
Alignment explanation
Indices: 22858689--22859011 Score: 367
Period size: 150 Copynumber: 2.2 Consensus size: 149
22858679 GATAATAACA
* * * ** * * * *
22858689 TGCCAAAGTTATGTCCCAGACATAGTCTTACATGGGATGTTTCCTTTACTGCCAATGTCATATCC
1 TGCCAACGTAATGTCCCAGACATGGTCTTACATGGGACCTCTCATTTACTGCCAACGCCATATCC
* * *** * * *
22858754 CAGATATGGTCTTACATGGGAGTTCTTATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTAC
66 CAGACATGGTCTTACAGGGGACCACTTATATCGGTGCCAACGCAATGTCCCAGACATGGTCTTAC
* * *
22858819 GGGGGACCACTTATCTCGG
131 AGGGGACCACTCATCTCAG
**
22858838 TGCCAACGTAATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATATC
1 TGCCAACGTAATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-TTACTGCCAACGCCATATC
* * *
22858903 CCAGACATGGTCTTACGGGGGACCACTTATCTCGGTGCCAACGTAATGTCCCAGACATGGTCTTA
65 CCAGACATGGTCTTACAGGGGACCACTTATATCGGTGCCAACGCAATGTCCCAGACATGGTCTTA
* *
22858968 CATGGGACCTCTCATCTCAG
130 CAGGGGACCACTCATCTCAG
** *
22858988 TGCCAACGCCATGTCCGAGACATG
1 TGCCAACGTAATGTCCCAGACATG
22859012 AGCCATGTCC
Statistics
Matches: 143, Mismatches: 30, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
149 38 0.27
150 105 0.73
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (149 bp):
TGCCAACGTAATGTCCCAGACATGGTCTTACATGGGACCTCTCATTTACTGCCAACGCCATATCC
CAGACATGGTCTTACAGGGGACCACTTATATCGGTGCCAACGCAATGTCCCAGACATGGTCTTAC
AGGGGACCACTCATCTCAG
Found at i:22860853 original size:50 final size:50
Alignment explanation
Indices: 22860738--22861121 Score: 394
Period size: 50 Copynumber: 7.6 Consensus size: 50
22860728 TGCCAAAGTT
* ** * * * * *
22860738 ATGTCCCAGACATAGTCTTACATGGGATGTTTCCTTTAC--TGCCAATGTC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAACGCC
* * ** * * * *
22860787 ATATCCCAGATATGGTCTTACATGGGAGTTCTTATATCGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
**
22860837 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
* *
22860887 ATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
* ** * * **
22860937 ATATCCCAGACATGGTCTTACGGGGGACCACTTATCTCGGTGCCAACGTA
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
*
22860987 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
* * * ***
22861037 ATGTCCGAGACATGGTCTTACATGGGACCTCTCATAATCATGATGCCAATTTC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-CTC--GGTGCCAACGCC
* *
22861090 ATGTCCCAGACATTGTCTTACATGGGATCTCT
1 ATGTCCCAGACATGGTCTTACATGGGACCTCT
22861122 TTACCCAAAT
Statistics
Matches: 278, Mismatches: 52, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
48 1 0.00
49 28 0.10
50 211 0.76
51 2 0.01
53 36 0.13
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
Found at i:22860998 original size:150 final size:150
Alignment explanation
Indices: 22860777--22861071 Score: 437
Period size: 150 Copynumber: 2.0 Consensus size: 150
22860767 TTTCCTTTAC
* * * * *** * * *
22860777 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTTATATCGGTGCCCATGCCATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACAGGGGACCACTTATATCGGTGCCAACGCAATGTC
* * *
22860842 CCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGACATGGTCTTA
66 CCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCCAACGCCATGTCCGAGACATGGTCTTA
22860907 CATGGGACCTCTCATCTTGG
131 CATGGGACCTCTCATCTTGG
* * *
22860927 TGCCAACGCCATATCCCAGACATGGTCTTACGGGGGACCACTTATCTCGGTGCCAACGTAATGTC
1 TGCCAACGCCATATCCCAGACATGGTCTTACAGGGGACCACTTATATCGGTGCCAACGCAATGTC
*
22860992 CCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATGTCCGAGACATGGTCTTA
66 CCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCCAACGCCATGTCCGAGACATGGTCTTA
22861057 CATGGGACCTCTCAT
131 CATGGGACCTCTCAT
22861072 AATCATGATG
Statistics
Matches: 128, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
150 128 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (150 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACAGGGGACCACTTATATCGGTGCCAACGCAATGTC
CCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGCCAACGCCATGTCCGAGACATGGTCTTA
CATGGGACCTCTCATCTTGG
Found at i:22862335 original size:50 final size:50
Alignment explanation
Indices: 22862279--22862408 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 50
22862269 AGGTCCCATG
* ** *
22862279 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCA
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCACA
* * * **
22862329 TAAGACCATGTCTGGGACTTGGCATGGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCACA
* *
22862379 TAAGACCATATCTGGGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
22862409 GTACAGAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCACA
Found at i:22865286 original size:40 final size:40
Alignment explanation
Indices: 22865242--22865328 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
22865232 GCACCGGAGC
**
22865242 GCATTCAGGGGAATGAATGTGATGTCAAGGGCA-TCGAAGT
1 GCATTCAGGGGAACAAATGTGATGTCAAGGGCACT-GAAGT
* * * *
22865282 GCATTTAGGGGCACAAATGTGCTGTCAGGGGCACTGAAGT
1 GCATTCAGGGGAACAAATGTGATGTCAAGGGCACTGAAGT
22865322 GCATTCA
1 GCATTCA
22865329 AGGACACCGA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (40 bp):
GCATTCAGGGGAACAAATGTGATGTCAAGGGCACTGAAGT
Found at i:22865340 original size:20 final size:21
Alignment explanation
Indices: 22865317--22865364 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
22865307 CAGGGGCACT
22865317 GAAGTGCATT-CAAGGACACC
1 GAAGTGCATTACAAGGACACC
* *
22865337 GAAGTG-TTTACAAGGGCACC
1 GAAGTGCATTACAAGGACACC
*
22865357 GAGGTGCA
1 GAAGTGCA
22865365 ATGAAGGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (21 bp):
GAAGTGCATTACAAGGACACC
Found at i:22871689 original size:14 final size:14
Alignment explanation
Indices: 22871649--22871697 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
22871639 TAAAACTTAG
22871649 TATTTAAGGATTTAA
1 TATTTAAGG-TTTAA
* * *
22871664 GATCTAACGTTTAA
1 TATTTAAGGTTTAA
22871678 TATTTAAGGTTTAA
1 TATTTAAGGTTTAA
*
22871692 CATTTA
1 TATTTA
22871698 GGATTTAAGG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (14 bp):
TATTTAAGGTTTAA
Found at i:22871692 original size:21 final size:21
Alignment explanation
Indices: 22871650--22871710 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
22871640 AAAACTTAGT
* *
22871650 ATTTAAGGATTTAAGATCTAAC
1 ATTTAA-GATTTAAGGTTTAAC
* *
22871672 GTTTAATATTTAAGGTTTAAC
1 ATTTAAGATTTAAGGTTTAAC
*
22871693 ATTTAGGATTTAAGGTTT
1 ATTTAAGATTTAAGGTTT
22871711 TTGTGTAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATTTAAGATTTAAGGTTTAAC
Found at i:22875131 original size:2 final size:2
Alignment explanation
Indices: 22875124--22875168 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
22875114 AAATCCCTCC
* *
22875124 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT CA CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22875166 CT C
1 CT C
22875169 ATTGTTCTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.02, C:0.53, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:22881201 original size:80 final size:79
Alignment explanation
Indices: 22881117--22881288 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
22881107 GGACTAAGAT
*
22881117 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
22881181 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
22881197 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
22881262 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
22881276 CCGAAGGCATTTG
1 CCGAAGGCATTTG
22881289 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:22881268 original size:39 final size:39
Alignment explanation
Indices: 22881064--22881286 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
22881054 TTGAATGCTG
* * * * *
22881064 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
22881104 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
22881143 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
22881184 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
22881224 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
22881263 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
22881287 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:22881306 original size:79 final size:80
Alignment explanation
Indices: 22881144--22881321 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
22881134 AGATACAAAT
* * * *
22881144 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
22881209 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
22881224 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
22881288 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
22881303 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22881322 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:22881841 original size:47 final size:47
Alignment explanation
Indices: 22881788--22881881 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
22881778 GGACTACCCA
22881788 TTGTTGTCTTTCGAGTACTTTATGAAATGTATAAGTGTACAGCCATG
1 TTGTTGTCTTTCGAGTACTTTATGAAATGTATAAGTGTACAGCCATG
*
22881835 TTGTTGTCTTTCGAGTATTTTATGAAATGTATAAGTGTACAGCCATG
1 TTGTTGTCTTTCGAGTACTTTATGAAATGTATAAGTGTACAGCCATG
22881882 CGAAGATGGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (47 bp):
TTGTTGTCTTTCGAGTACTTTATGAAATGTATAAGTGTACAGCCATG
Found at i:22883701 original size:18 final size:18
Alignment explanation
Indices: 22883678--22883720 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
22883668 ATGCAAGTAG
22883678 TTTGGTTTG-TAATGTGAA
1 TTTGGTTTGATAAT-TGAA
22883696 TTTGGTTTGATAATTGAA
1 TTTGGTTTGATAATTGAA
22883714 TTGTGGT
1 TT-TGGT
22883721 GTCAATGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (18 bp):
TTTGGTTTGATAATTGAA
Done.