Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008413.1 Hibiscus syriacus cultivar Beakdansim tig00111191_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2772818
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 10
Found at i:783873 original size:131 final size:132
Alignment explanation
Indices: 783644--783971 Score: 482
Period size: 131 Copynumber: 2.5 Consensus size: 132
783634 GAGAAACGAC
* * * *
783644 AATATCTAATTATTTCCAATTGAGAATAAATTACCTTTCATGCCTTTAAA-CATTCATTTATTAC
1 AATATCTAATTATTTCCAATCGAGAATAAATAACCTCTCATGCC-TTAAAGCAATCATTTATTAC
* * * * * *
783708 -CTCAATTGAAATGAAGAGATATCACTATTTTGTCTTAAAATTCAATATTGATTCGAGTGAAAAC
65 TCTCAATCGAAATGAAGAGATATCACTATTCTGTCTTAAAAATCAATATTGACTCCAGAGAAAAC
783772 GGT
130 GGT
* * * *
783775 AATATCTAATGATTTCCAAACGAGAATAAATGACCTCTCATGCCTTAAAGAAATCATTTATTACT
1 AATATCTAATTATTTCCAATCGAGAATAAATAACCTCTCATGCCTTAAAGCAATCATTTATTACT
783840 CT-AATCGAAATGAAGAGATATCACTATTCTGTCTTAAAAATCAATATTGACTCCAGAGAAAACG
66 CTCAATCGAAATGAAGAGATATCACTATTCTGTCTTAAAAATCAATATTGACTCCAGAGAAAACG
783904 GT
131 GT
* *
783906 AATATCTGATTATTTCCAATCGAGAATAAATAACCTCTCATGCCTTAAAGCAATCATCTATTACT
1 AATATCTAATTATTTCCAATCGAGAATAAATAACCTCTCATGCCTTAAAGCAATCATTTATTACT
783971 C
66 C
783972 CAACCAAAAC
Statistics
Matches: 176, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
130 5 0.03
131 169 0.96
132 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (132 bp):
AATATCTAATTATTTCCAATCGAGAATAAATAACCTCTCATGCCTTAAAGCAATCATTTATTACT
CTCAATCGAAATGAAGAGATATCACTATTCTGTCTTAAAAATCAATATTGACTCCAGAGAAAACG
GT
Found at i:792594 original size:47 final size:45
Alignment explanation
Indices: 792527--792636 Score: 152
Period size: 47 Copynumber: 2.4 Consensus size: 45
792517 TATAAAATCC
792527 CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTA-CGAAAATA
1 CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTATC-AAAATA
*
792572 CTTACCATTTAAATCCCATAAGCTCATAAGCTTATTTTATCAATATA
1 CTTACCATTT--ATCCCATAAGCTCATAAGCTTATTTTATCAAAATA
* *
792619 CTTCCCATTAAT-CCATAA
1 CTTACCATTTATCCCATAA
792637 TCATATACCA
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
44 6 0.10
45 12 0.20
47 40 0.68
48 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (45 bp):
CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTATCAAAATA
Found at i:796564 original size:458 final size:464
Alignment explanation
Indices: 795692--796629 Score: 1582
Period size: 458 Copynumber: 2.0 Consensus size: 464
795682 ACAAGGATCC
* *
795692 TGCACAAACAAGAAAGCTCAAAAAAATAATTAAATGGAAGTAATGAAATGGAAAGATAAATATGG
1 TGCACATACAAGAAAGCTAAAAAAAATAATTAAATGGAAGTAATGAAATGGAAAGATAAATATGG
* *
795757 AAGCGATATATATATATATATATATGTTGGTGATATGTTTAAAGGAAATGATGAAGTATAGTAAT
66 AAGCG--A-ATATATATATATATATGTTGGTGATATATTTAAAGGAAATGATGAAGCATAGTAAT
** * *
795822 GGAAGTAGAATGAAGGTGATGGATTTGAATATGAAAGGTAGTATCTCAAAGATGACTCAAAGAAT
128 GGAAGTAGAATGAAGGTGATGGAGATGAATATGAAAGGTAGTATCTCAAAGAAGACTCAAAGAAG
*
795887 AACCAATGTTAAAGAACAAAGACCCAGACTTTATATTGCTTCTTTAAGGGGTGGTAAACAAGGAC
193 AACCAATGTTAAAGAACAAAGACCCAGACTTTATATTGCTTCTTTAAGGGGTGATAAACAAGGAC
*
795952 TTTGACCCACTATCTATAAAGAGATAGGAACCAAAAGTATCAGGGTGACATAGATAAGGGTGACG
258 TTTGACCCACTATCTATAAAGAGATAGGAACCAAAAGTATCAGGGTGAAATAGATAAGGGTGACG
* *
796017 CCACAAGCATAAGCTTGATAAGTCGATAAAGTTCACTTAAGAACTAAAGAGAGAAACTCTAACAA
323 CCACAAGAATAAGCTTGATAAGTCGAAAAAGTTCACTTAAGAACTAAAGAGAGAAACTCTAACAA
*
796082 ATATTTGATTAAACAAAGTGAATTGCCTTTTACAAATGAAATGGAAAGTTATTTATAGGCCTAAG
388 ATATTTGATTAAACAAAGTGAATTGCCTTTTACAAATGAAATGGAAAGCTATTTATAGGCCTAAG
796147 AGATGT-TAGGA
453 AGATGTCTAGGA
* ** *
796158 TGCATATACAAGAAAGCTAAAAAAAATGGTTAAATGGGAGTAATGAAATGGAAAGATAAATATGG
1 TGCACATACAAGAAAGCTAAAAAAAATAATTAAATGGAAGTAATGAAATGGAAAGATAAATATGG
* *
796223 CAGCG-A-A-ATATATATA-A-GTTGGTGATATATTTAAAGGAAATGATGAAGCATGGTAATGGA
66 AAGCGAATATATATATATATATGTTGGTGATATATTTAAAGGAAATGATGAAGCATAGTAATGGA
*
796283 ATTAGAATGAAGGTGATGGAGATGAATATGAAAGGTAGTATCTCAAAGAAGACTCAAAGAAGAAC
131 AGTAGAATGAAGGTGATGGAGATGAATATGAAAGGTAGTATCTCAAAGAAGACTCAAAGAAGAAC
796348 CAATGTTAAAGAACAAAGACCCAGACTTTATATTGCTTCTTTAAGGGGTGATAAACAAGGACTTT
196 CAATGTTAAAGAACAAAGACCCAGACTTTATATTGCTTCTTTAAGGGGTGATAAACAAGGACTTT
* *
796413 TACCCACTATCTATAAAGAGATAGGAACCAAAAGTATCAGGGTGAAATAGATAGGGGTGACGCCA
261 GACCCACTATCTATAAAGAGATAGGAACCAAAAGTATCAGGGTGAAATAGATAAGGGTGACGCCA
* *
796478 TAAGAATAAGCTTGATAAGTCGAAAAAGTTCACTTAAGAACTAAAGAGAGAAACTCTCACAAATA
326 CAAGAATAAGCTTGATAAGTCGAAAAAGTTCACTTAAGAACTAAAGAGAGAAACTCTAACAAATA
796543 TTTGATTAAACAAAGTGAATTGCCTTTTACAAATGAAATGGAAAGCTATTTATAGGCCTAAGAGA
391 TTTGATTAAACAAAGTGAATTGCCTTTTACAAATGAAATGGAAAGCTATTTATAGGCCTAAGAGA
*
796608 TTTCTAGGA
456 TGTCTAGGA
796617 TGCACATACAAGA
1 TGCACATACAAGA
796630 TTTAATGATT
Statistics
Matches: 445, Mismatches: 26, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
458 353 0.79
459 18 0.04
460 9 0.02
461 1 0.00
462 1 0.00
466 63 0.14
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (464 bp):
TGCACATACAAGAAAGCTAAAAAAAATAATTAAATGGAAGTAATGAAATGGAAAGATAAATATGG
AAGCGAATATATATATATATATGTTGGTGATATATTTAAAGGAAATGATGAAGCATAGTAATGGA
AGTAGAATGAAGGTGATGGAGATGAATATGAAAGGTAGTATCTCAAAGAAGACTCAAAGAAGAAC
CAATGTTAAAGAACAAAGACCCAGACTTTATATTGCTTCTTTAAGGGGTGATAAACAAGGACTTT
GACCCACTATCTATAAAGAGATAGGAACCAAAAGTATCAGGGTGAAATAGATAAGGGTGACGCCA
CAAGAATAAGCTTGATAAGTCGAAAAAGTTCACTTAAGAACTAAAGAGAGAAACTCTAACAAATA
TTTGATTAAACAAAGTGAATTGCCTTTTACAAATGAAATGGAAAGCTATTTATAGGCCTAAGAGA
TGTCTAGGA
Found at i:798473 original size:7 final size:7
Alignment explanation
Indices: 798447--798561 Score: 56
Period size: 7 Copynumber: 15.4 Consensus size: 7
798437 CTTGCACCCT
*
798447 TTTTTTG
1 TTTTTTC
*
798454 TTTATTC
1 TTTTTTC
*
798461 TCTTTTC
1 TTTTTTC
798468 TTTTTTC
1 TTTTTTC
*
798475 TTTTCTC
1 TTTTTTC
798482 TTTCCTTT-
1 TTT--TTTC
*
798490 TTACTTT-
1 TT-TTTTC
*
798497 TTTTCTC
1 TTTTTTC
798504 TTTTTTC
1 TTTTTTC
798511 ATTTTCTTTC
1 --TTT-TTTC
798521 TTTCATTTC
1 TTT--TTTC
*
798530 -ATTTTC
1 TTTTTTC
798536 TTTTTTC
1 TTTTTTC
798543 TTTTTTC
1 TTTTTTC
798550 ATTTTTTTC
1 --TTTTTTC
798559 TTT
1 TTT
798562 CTTCAGGTGA
Statistics
Matches: 83, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
6 6 0.07
7 51 0.61
8 6 0.07
9 16 0.19
10 4 0.05
ACGTcount: A:0.05, C:0.17, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTTC
Found at i:798517 original size:15 final size:14
Alignment explanation
Indices: 798502--798562 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 14
798492 ACTTTTTTTC
798502 TCTTT-TTTCATTT
1 TCTTTCTTTCATTT
798515 TCTTTCTTTCA-TT
1 TCTTTCTTTCATTT
798528 TCATTT-TCTT--TTT
1 TC-TTTCT-TTCATTT
798541 TCTTT-TTTCATTT
1 TCTTTCTTTCATTT
798554 T-TTTCTTTC
1 TCTTTCTTTC
798563 TTCAGGTGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.05
12 7 0.17
13 22 0.54
14 10 0.24
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (14 bp):
TCTTTCTTTCATTT
Found at i:798521 original size:19 final size:19
Alignment explanation
Indices: 798461--798559 Score: 93
Period size: 19 Copynumber: 5.4 Consensus size: 19
798451 TTGTTTATTC
*
798461 TCTTT-TCTTTTTTCTTTT
1 TCTTTCTCTTTTTTCATTT
*
798479 CTCTTTC-CTTTTTAC-TTT
1 -TCTTTCTCTTTTTTCATTT
798497 T-TTTCTCTTTTTTCATTT
1 TCTTTCTCTTTTTTCATTT
*
798515 TCTTTCT-TTCATTTCATTT
1 TCTTTCTCTT-TTTTCATTT
*
798534 TCTTTTTTCTTTTTTCATTT
1 TC-TTTCTCTTTTTTCATTT
798554 T-TTTCT
1 TCTTTCT
798560 TTCTTCAGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
16 4 0.06
17 8 0.12
18 13 0.19
19 27 0.40
20 13 0.19
21 2 0.03
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (19 bp):
TCTTTCTCTTTTTTCATTT
Found at i:798523 original size:39 final size:40
Alignment explanation
Indices: 798458--798562 Score: 116
Period size: 39 Copynumber: 2.8 Consensus size: 40
798448 TTTTTGTTTA
* *
798458 TTCTCTTT-TCTTTTTTC-TTTTC--TCTTTCCTTTTTACT
1 TTCT-TTTCTCTTTTTTCATTTTCTTTCTTTCCATTTCACT
*
798495 TT-TTTTCTCTTTTTTCATTTTCTTTCTTT-CATTTCATT
1 TTCTTTTCTCTTTTTTCATTTTCTTTCTTTCCATTTCACT
*
798533 TTCTTTTTTCTTTTTTCATTTT-TTTCTTTC
1 TTCTTTTCTCTTTTTTCATTTTCTTTCTTTC
798563 TTCAGGTGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
35 3 0.05
36 10 0.17
37 7 0.12
38 15 0.26
39 23 0.40
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (40 bp):
TTCTTTTCTCTTTTTTCATTTTCTTTCTTTCCATTTCACT
Found at i:798524 original size:23 final size:24
Alignment explanation
Indices: 798471--798524 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
798461 TCTTTTCTTT
*
798471 TTTCTTT-TCTCTTTCCTTTTTAC
1 TTTCTTTCTCTCTTTCCATTTTAC
* * *
798494 TTTTTTTCTCTTTTTTCATTTT-C
1 TTTCTTTCTCTCTTTCCATTTTAC
798517 TTTCTTTC
1 TTTCTTTC
798525 ATTTCATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTCTTTCTCTCTTTCCATTTTAC
Found at i:798534 original size:25 final size:25
Alignment explanation
Indices: 798506--798553 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
798496 TTTTTCTCTT
798506 TTTTC-ATTTTCTTTCTTTCATTTCA
1 TTTTCTATTTTCTTT-TTTCATTTCA
*
798531 TTTTCTTTTTTCTTTTTTCATTT
1 TTTTCTATTTTCTTTTTTCATTT
798554 TTTTCTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTCTATTTTCTTTTTTCATTTCA
Found at i:803144 original size:18 final size:17
Alignment explanation
Indices: 803118--803177 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
803108 ATCGTGACGA
803118 TTGAAGAAACTAAAGAC
1 TTGAAGAAACTAAAGAC
*
803135 TTGAAAGAAA-TGACA-A-
1 TTG-AAGAAACT-AAAGAC
803151 TTGAAGAAACTAAAGAC
1 TTGAAGAAACTAAAGAC
803168 TTGGAAGAAA
1 TT-GAAGAAA
803178 TGACGATCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
15 8 0.23
16 5 0.14
17 7 0.20
18 15 0.43
ACGTcount: A:0.53, C:0.08, G:0.20, T:0.18
Consensus pattern (17 bp):
TTGAAGAAACTAAAGAC
Found at i:803159 original size:33 final size:33
Alignment explanation
Indices: 803112--803181 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
803102 CACATCATCG
*
803112 TGACGATTGAAGAAACTAAAGACTTGAAAGAAA
1 TGACAATTGAAGAAACTAAAGACTTGAAAGAAA
*
803145 TGACAATTGAAGAAACTAAAGACTTGGAAGAAA
1 TGACAATTGAAGAAACTAAAGACTTGAAAGAAA
803178 TGAC
1 TGAC
803182 GATCGAGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (33 bp):
TGACAATTGAAGAAACTAAAGACTTGAAAGAAA
Found at i:804150 original size:40 final size:40
Alignment explanation
Indices: 804095--804181 Score: 174
Period size: 40 Copynumber: 2.2 Consensus size: 40
804085 AAGGAGATGA
804095 TGAAGGGACTACCTCGCATTAACCATCCTGACCAGCTTTG
1 TGAAGGGACTACCTCGCATTAACCATCCTGACCAGCTTTG
804135 TGAAGGGACTACCTCGCATTAACCATCCTGACCAGCTTTG
1 TGAAGGGACTACCTCGCATTAACCATCCTGACCAGCTTTG
804175 TGAAGGG
1 TGAAGGG
804182 TGTCTAGTCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TGAAGGGACTACCTCGCATTAACCATCCTGACCAGCTTTG
Found at i:806842 original size:11 final size:12
Alignment explanation
Indices: 806816--806846 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
806806 ACATCAATTT
806816 AGTTAGGTGAAG
1 AGTTAGGTGAAG
806828 AGTTAGGTG-AG
1 AGTTAGGTGAAG
806839 AGTTAGGT
1 AGTTAGGT
806847 ATTTGTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.42, T:0.29
Consensus pattern (12 bp):
AGTTAGGTGAAG
Found at i:810521 original size:23 final size:24
Alignment explanation
Indices: 810470--810522 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
810460 AATATTATAT
810470 TATATTGTGAAAATTATTAATAAA
1 TATATTGTGAAAATTATTAATAAA
* *
810494 TATATT-TGAAATATTTTTATTAAA
1 TATATTGTGAAA-ATTATTAATAAA
810518 -ATATT
1 TATATT
810523 ACTAGACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (24 bp):
TATATTGTGAAAATTATTAATAAA
Found at i:810713 original size:20 final size:21
Alignment explanation
Indices: 810667--810716 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
810657 ATAATATCAT
810667 ATATTATTATAATATAACTAAG
1 ATATTATTATAATATAAC-AAG
810689 TATATTATTATAATAATAA-AA-
1 -ATATTATTATAAT-ATAACAAG
810710 ATATTAT
1 ATATTAT
810717 ATTATATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.27
22 2 0.08
23 13 0.50
24 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATTATTATAATATAACAAG
Found at i:810722 original size:22 final size:23
Alignment explanation
Indices: 810694--810773 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 23
810684 CTAAGTATAT
810694 TATTATAATAATAAAAATATT-A
1 TATTATAATAATAAAAATATTAA
* *
810716 TATTAT-ATTATTAAAATATTAA
1 TATTATAATAATAAAAATATTAA
* *
810738 TA-TATATATATATATATATATTAAA
1 TATTATA-ATA-ATAAAAATATT-AA
*
810763 TATTTTAATAA
1 TATTATAATAA
810774 GTAATATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 15 0.33
22 9 0.20
23 2 0.04
24 9 0.20
25 7 0.16
26 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTATAATAATAAAAATATTAA
Found at i:810725 original size:10 final size:11
Alignment explanation
Indices: 810689--810765 Score: 54
Period size: 12 Copynumber: 7.1 Consensus size: 11
810679 TATAACTAAG
810689 TATATTAT-TA
1 TATATTATATA
* *
810699 TA-ATAATAAA
1 TATATTATATA
*
810709 AATATTATAT-
1 TATATTATATA
810719 TATATTAT-TAA
1 TATATTATAT-A
*
810730 AATATTAATATA
1 TATATT-ATATA
810742 TATATATATATA
1 TATAT-TATATA
*
810754 TATATTAAATA
1 TATATTATATA
810765 T
1 T
810766 TTTAATAAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
9 5 0.10
10 11 0.22
11 16 0.31
12 17 0.33
13 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATATTATATA
Found at i:810739 original size:33 final size:33
Alignment explanation
Indices: 810689--810773 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
810679 TATAACTAAG
* *
810689 TATATT-ATTATAATAATAAAAATAT-TATATTA
1 TATATTAAATATATTAATAAAAATATATATA-TA
* *
810721 TATTATTAAA-ATATTAATATATATATATATATA
1 TA-TATTAAATATATTAATAAAAATATATATATA
*
810754 TATATTAAATATTTTAATAA
1 TATATTAAATATATTAATAA
810774 GTAATATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
32 9 0.21
33 29 0.67
34 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
TATATTAAATATATTAATAAAAATATATATATA
Found at i:810748 original size:55 final size:54
Alignment explanation
Indices: 810626--810757 Score: 139
Period size: 53 Copynumber: 2.4 Consensus size: 54
810616 TAAAATTTAT
* *
810626 TATTAATTTATTATATTA-T-TAAAATAAAAATATAATATCATATATTATTATAA
1 TATTAATATATTATATTATTATAAAATAAAAATATAATAT-ATATATTATTAAAA
* *
810679 TA-TAACTA-AGTATATTATTATAATAATAAAAATATTATAT-TATATTATTAAAA
1 TATTAA-TATATTATATTATTATAA-AATAAAAATATAATATATATATTATTAAAA
810732 TATTAATATATATATATATATATATA
1 TATTAATATAT-TATAT-TAT-TATA
810758 TTAAATATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
52 11 0.17
53 20 0.31
54 7 0.11
55 20 0.31
56 3 0.05
57 4 0.06
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (54 bp):
TATTAATATATTATATTATTATAAAATAAAAATATAATATATATATTATTAAAA
Found at i:810833 original size:19 final size:19
Alignment explanation
Indices: 810787--810837 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
810777 ATATTTTTAC
*
810787 TAAAATGATATTAAAATAT
1 TAAAATAATATTAAAATAT
* *
810806 TATATTAATATT-AAATAT
1 TAAAATAATATTAAAATAT
810824 ATAAAATAATATTA
1 -TAAAATAATATTA
810838 TTTTAAGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
TAAAATAATATTAAAATAT
Found at i:814264 original size:23 final size:23
Alignment explanation
Indices: 814219--814300 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 23
814209 AACTAAAAGT
814219 TGAACATATAAATGAAC-CTGTTCG
1 TGAACAT-TAAATGAACAC-GTTCG
*
814243 TGAACATTAAATGAACACGTTCA
1 TGAACATTAAATGAACACGTTCG
** * * * *
814266 CCAACATTGAACGAACATGTTTG
1 TGAACATTAAATGAACACGTTCG
*
814289 TGAACAATAAAT
1 TGAACATTAAAT
814301 ACAAATACAT
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
23 36 0.82
24 8 0.18
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (23 bp):
TGAACATTAAATGAACACGTTCG
Found at i:815369 original size:43 final size:43
Alignment explanation
Indices: 815302--815386 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
815292 TGGCCAAGTA
* *
815302 AAGAGTTTCACAGAAATTTTAAGATACAGATTTCATAATAATT
1 AAGAATTTCACAGAAATTTCAAGATACAGATTTCATAATAATT
* *
815345 AAGAATTTCACAGCAATTTCAAGATACAGATTTCATAGTAAT
1 AAGAATTTCACAGAAATTTCAAGATACAGATTTCATAATAAT
815387 AATTCATAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (43 bp):
AAGAATTTCACAGAAATTTCAAGATACAGATTTCATAATAATT
Found at i:815733 original size:2 final size:2
Alignment explanation
Indices: 815726--815763 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
815716 GATGGAGATA
815726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
815764 GCTTGGCTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:816801 original size:23 final size:21
Alignment explanation
Indices: 816764--816805 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
816754 CACATTCATG
816764 TTTTTATTTTTTTATTTTATT
1 TTTTTATTTTTTTATTTTATT
816785 TTTTATATGTTTTTTATTTTA
1 TTTT-TAT-TTTTTTATTTTA
816806 ACTGTATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTTATTTTTTTATTTTATT
Found at i:816860 original size:146 final size:147
Alignment explanation
Indices: 816664--816940 Score: 477
Period size: 146 Copynumber: 1.9 Consensus size: 147
816654 AATCATCTTT
*
816664 TATTACTAAGTCTATTCAATGGTTTTATCTTCGTATGCTTTGTTGTGTTATAATTATATTTAAAT
1 TATTACTAAGTCTATTCAATGGTTTTATCTTCGTATGCTTTATTGTGTTATAATTATATTTAAAT
816729 TATTTTAAATGTATAAATAGGAATACACATTCATGTTTTTATTTTTTTATT-T-TATTTTTTATA
66 TATTTTAAATGTATAAATAGGAATACACATTCATGTTTTTATTTTTTTATTATGT-TTTTTTATA
816792 TGTTTTTTATTTTAACTG
130 TGTTTTTTATTTTAACTG
* *
816810 TATTACTGAGTCTATTCAATGGTTTTATCTTCGTATGTTTTATTGTGTTATAATTATATTTAAAT
1 TATTACTAAGTCTATTCAATGGTTTTATCTTCGTATGCTTTATTGTGTTATAATTATATTTAAAT
* * *
816875 TATTTTTATTGTATAAATAGGAATACACATTTATGTTTTTATTTTTTTATTATGTTTTTTTATAT
66 TATTTTAAATGTATAAATAGGAATACACATTCATGTTTTTATTTTTTTATTATGTTTTTTTATAT
816940 G
131 G
816941 GGTATAATTG
Statistics
Matches: 123, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
146 110 0.89
147 12 0.10
148 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (147 bp):
TATTACTAAGTCTATTCAATGGTTTTATCTTCGTATGCTTTATTGTGTTATAATTATATTTAAAT
TATTTTAAATGTATAAATAGGAATACACATTCATGTTTTTATTTTTTTATTATGTTTTTTTATAT
GTTTTTTATTTTAACTG
Found at i:816861 original size:70 final size:73
Alignment explanation
Indices: 816664--816880 Score: 169
Period size: 70 Copynumber: 2.9 Consensus size: 73
816654 AATCATCTTT
* * *
816664 TATTACTAAGTCTATTCAATGGTTTTATCTTCGTATGCTTTGTTGTGTTATAATTATATTTAAAT
1 TATTACTGAGTCTATTCAATGGTTTTATCTTCGTATGTTTTATTGTGTTAT-ATTATATTT--AT
816729 TATTTTAAATG
63 TATTTTAAATG
* * * * * * * * * *
816740 TATAAATAGGAATACACATTC-ATGTTTTTAT-TT-TTTTATTTTATT-T-TT-TA-TATGTTTT
1 TATTACT--GAGT-C-TATTCAATGGTTTTATCTTCGTATGTTTTATTGTGTTATATTATATTTA
*
816798 TTATTTTAACTG
62 TTATTTTAAATG
816810 TATTACTGAGTCTATTCAATGGTTTTATCTTCGTATGTTTTATTGTGTTATAATTATATTTAAAT
1 TATTACTGAGTCTATTCAATGGTTTTATCTTCGTATGTTTTATTGTGTTAT-ATTATATTT--AT
816875 TATTTT
63 TATTTT
816881 TATTGTATAA
Statistics
Matches: 103, Mismatches: 24, Indels: 28
0.66 0.15 0.18
Matches are distributed among these distances:
66 4 0.04
67 10 0.10
68 5 0.05
69 9 0.09
70 17 0.17
71 2 0.02
72 7 0.07
73 2 0.02
74 7 0.07
75 2 0.02
76 13 0.13
77 7 0.07
78 4 0.04
79 10 0.10
80 4 0.04
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (73 bp):
TATTACTGAGTCTATTCAATGGTTTTATCTTCGTATGTTTTATTGTGTTATATTATATTTATTAT
TTTAAATG
Found at i:817843 original size:36 final size:37
Alignment explanation
Indices: 817768--817843 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 37
817758 TTTTTATATT
*
817768 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* *
817805 TTTAATTTT-TAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
817841 TTT
1 TTT
817844 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 13 0.37
36 13 0.37
37 9 0.26
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:823968 original size:29 final size:29
Alignment explanation
Indices: 823926--823984 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
823916 GAGCAATCAT
*
823926 TTTAACTAACTTGA-TTCTTTTTGTCTTG
1 TTTAACTAACTTGATTTCCTTTTGTCTTG
* *
823954 TTTATACTAATTTGATTTCCTTTTGTTTTG
1 TTTA-ACTAACTTGATTTCCTTTTGTCTTG
823984 T
1 T
823985 CTTGTGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 9 0.35
30 13 0.50
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.61
Consensus pattern (29 bp):
TTTAACTAACTTGATTTCCTTTTGTCTTG
Found at i:824499 original size:20 final size:21
Alignment explanation
Indices: 824474--824569 Score: 67
Period size: 22 Copynumber: 4.6 Consensus size: 21
824464 AATTCCTTTG
824474 TTGCATTTACATTTAGCAT-T
1 TTGCATTTACATTTAGCATCT
** *
824494 TTGCATTCCCATTTTTGCATCT
1 TTGCATTTACA-TTTAGCATCT
*
824516 TTGCATTTGCATTT-GCA--T
1 TTGCATTTACATTTAGCATCT
*
824534 GTGCATATT-CATATTAGCATCT
1 TTGCAT-TTACAT-TTAGCATCT
*
824556 ATGCATTGTACATT
1 TTGCATT-TACATT
824570 GCTTGACATA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
18 9 0.15
19 4 0.07
20 15 0.25
21 11 0.18
22 18 0.30
23 3 0.05
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (21 bp):
TTGCATTTACATTTAGCATCT
Found at i:825940 original size:9 final size:8
Alignment explanation
Indices: 825928--825988 Score: 52
Period size: 9 Copynumber: 7.1 Consensus size: 8
825918 AAAAAGTGAT
825928 AAAAGAAA
1 AAAAGAAA
825936 GAAAAGAGAA
1 -AAAAGA-AA
825946 AAAAGAAA
1 AAAAGAAA
825954 ACAAA-AAA
1 A-AAAGAAA
*
825962 AAGAGGAAA
1 AA-AAGAAA
825971 AAAAGCAAA
1 AAAAG-AAA
*
825980 AATAGAAA
1 AAAAGAAA
825988 A
1 A
825989 GAAAAATACT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
7 1 0.02
8 14 0.32
9 27 0.61
10 2 0.05
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAGAAA
Found at i:825940 original size:18 final size:18
Alignment explanation
Indices: 825906--825953 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
825896 GAAAAAGAGA
*
825906 AGAAAAAATATAA-AAAAG
1 AGAAAAAAGA-AAGAAAAG
* *
825924 TGATAAAAGAAAGAAAAG
1 AGAAAAAAGAAAGAAAAG
825942 AGAAAAAAGAAA
1 AGAAAAAAGAAA
825954 ACAAAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (18 bp):
AGAAAAAAGAAAGAAAAG
Found at i:825963 original size:23 final size:24
Alignment explanation
Indices: 825928--825973 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
825918 AAAAAGTGAT
* *
825928 AAAAGAAAGAAAAGA-GAAAAAAG
1 AAAACAAAAAAAAGAGGAAAAAAG
825951 AAAACAAAAAAAAGAGGAAAAAA
1 AAAACAAAAAAAAGAGGAAAAAA
825974 AGCAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (24 bp):
AAAACAAAAAAAAGAGGAAAAAAG
Found at i:826173 original size:9 final size:9
Alignment explanation
Indices: 826159--826185 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
826149 AGGGATCTAG
826159 GAAAATGAA
1 GAAAATGAA
826168 GAAAATGAA
1 GAAAATGAA
826177 GAAAATGAA
1 GAAAATGAA
826186 ACTGTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (9 bp):
GAAAATGAA
Found at i:826840 original size:28 final size:28
Alignment explanation
Indices: 826730--826826 Score: 158
Period size: 28 Copynumber: 3.5 Consensus size: 28
826720 AACCAACCAA
* *
826730 AAACATATTACCTCCCCAAATTAACCTG
1 AAACACATTACCTCCTCAAATTAACCTG
*
826758 AAACACATTTCCTCCTCAAATTAACCTG
1 AAACACATTACCTCCTCAAATTAACCTG
*
826786 ACACACATTACCTCCTCAAATTAACCTG
1 AAACACATTACCTCCTCAAATTAACCTG
826814 AAACACATTACCT
1 AAACACATTACCT
826827 TCCCAAGTCA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.38, C:0.33, G:0.03, T:0.26
Consensus pattern (28 bp):
AAACACATTACCTCCTCAAATTAACCTG
Found at i:829976 original size:36 final size:36
Alignment explanation
Indices: 829930--830104 Score: 260
Period size: 36 Copynumber: 4.9 Consensus size: 36
829920 ATTTATCCAT
* *
829930 TATCAACTTTGATACATTCGTGTACCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
*
829966 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* * * *
830002 TATTAGCTTTGGTACATTTGTGTATTAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
*
830038 TATCAGCTTTGATACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* *
830074 TATCAGCTTTGTTATATTCGTGTATCAATGT
1 TATCAGCTTTGATACATTCGTGTATCAATGT
830105 CCAGCACCGT
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 125 1.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (36 bp):
TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
Found at i:834510 original size:3 final size:3
Alignment explanation
Indices: 834493--834603 Score: 65
Period size: 3 Copynumber: 38.7 Consensus size: 3
834483 TTGGGCCTGC
* * * * *
834493 AAT AAT AGT ATT AAT AAT ATT AAT AAT ATT AA- AAT AAGA AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* **
834537 AAT AAT AAT AAT AAT -AT AAAT AA- ATT TGT -AT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
834579 AAC AAT ATT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
834604 AAAACAAACA
Statistics
Matches: 82, Mismatches: 17, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
2 12 0.15
3 66 0.80
4 4 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:835261 original size:113 final size:113
Alignment explanation
Indices: 834939--835357 Score: 443
Period size: 113 Copynumber: 3.6 Consensus size: 113
834929 GAATTAAGGC
* * * *
834939 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTC-TCATTTTTCAGATGAGTTCTTCTCATTA
1 AAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * * **
835003 TGAAC-ACTTCTGGAAATGTTGATGCTGATCTATCTCATTCTGTGAT-AGAGTCATGC-A
66 TGAACTTCCTCTGGAAA-----A-GCTGATC-A-ATCA---AGTGATGA-ATTCAAACAA
* * *
835060 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * **
835124 TGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCGAGTAA
66 TGAACTTCCTCTGGAAAAGCTGATCAATCAAGTGATGAATTCAAACAA
835172 AAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* *
835237 TGAACTTCCTCTGGAAAAGTTGATCAATCGAGTGATGAATTCAAACAA
66 TGAACTTCCTCTGGAAAAGCTGATCAATCAAGTGATGAATTCAAACAA
* * * * *
835285 AAGGTTGAACACAAATTTTTCTCGTTATGAATTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCAT
1 AAGGTT-AA-ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
835350 TATGAACT
64 TATGAACT
835358 CTACCTGGCA
Statistics
Matches: 263, Mismatches: 28, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
111 9 0.03
112 40 0.15
113 70 0.27
114 5 0.02
115 58 0.22
116 7 0.03
117 1 0.00
121 63 0.24
122 10 0.04
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (113 bp):
AAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTCCTCTGGAAAAGCTGATCAATCAAGTGATGAATTCAAACAA
Found at i:835376 original size:115 final size:112
Alignment explanation
Indices: 835059--835393 Score: 429
Period size: 115 Copynumber: 3.0 Consensus size: 112
835049 AGAGTCATGC
* * * * *
835059 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
1 AAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
* * * **
835124 TGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCGAGTA
66 TGAACTTACTCTGGAAAAGCTGATCCATCGAGTGATGAATTCAAACA
*
835171 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATT
* * *
835236 ATGAACTTCCTCTGGAAAAGTTGATCAATCGAGTGATGAATTCAAACA
65 ATGAACTTACTCTGGAAAAGCTGATCCATCGAGTGATGAATTCAAACA
* * *
835284 AAAGGTTGAACACAAATTTTTCTCGTTATGAATTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 AAAGGTT-AA-ACAAATTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCA
* * * *
835349 TTATGAACTCTAC-CTGGCAATGCTGATCCATTGAGTGATGGATTC
63 TTATGAACT-TACTCTGGAAAAGCTGATCCATCGAGTGATGAATTC
835394 GAATCTTTGC
Statistics
Matches: 196, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
112 37 0.19
113 71 0.36
114 3 0.02
115 83 0.42
116 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (112 bp):
AAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTTACTCTGGAAAAGCTGATCCATCGAGTGATGAATTCAAACA
Found at i:836583 original size:18 final size:18
Alignment explanation
Indices: 836546--836583 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
836536 TATTTGAAAG
*
836546 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCAAA
836564 AATAAATTGAATTTCAAA
1 AATAAATTGAATTTCAAA
836582 AA
1 AA
836584 GATAATCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (18 bp):
AATAAATTGAATTTCAAA
Found at i:836965 original size:5 final size:5
Alignment explanation
Indices: 836955--837017 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
836945 TATTTATCAT
* *
836955 TTTTC TTTTC TTTTC TTTTC -ATT- TTTTC TTTTC ATTTTAT TTTTC ATTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTT-C TTTTC -TTTTC
837006 ATTTT- TTTTC TT
1 -TTTTC TTTTC TT
837018 CAAGCATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 8 0.17
5 22 0.46
6 18 0.38
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:836983 original size:18 final size:18
Alignment explanation
Indices: 836951--837014 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
836941 TATATATTTA
*
836951 TCATTTT-TCTTTTCTTT
1 TCATTTTATTTTTTCTTT
836968 TC-TTTTCATTTTTTCTTT
1 TCATTTT-ATTTTTTCTTT
836986 TCATTTTA-TTTTTCATTT
1 TCATTTTATTTTTTC-TTT
837004 TCATTTT-TTTT
1 TCATTTTATTTT
837015 CTTCAAGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
16 4 0.10
17 8 0.20
18 25 0.61
19 4 0.10
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (18 bp):
TCATTTTATTTTTTCTTT
Found at i:836984 original size:23 final size:25
Alignment explanation
Indices: 836954--837004 Score: 79
Period size: 23 Copynumber: 2.1 Consensus size: 25
836944 ATATTTATCA
836954 TTTTTCTTTTC-TTTT-CTTTTCAT
1 TTTTTCTTTTCATTTTACTTTTCAT
*
836977 TTTTTCTTTTCATTTTATTTTTCAT
1 TTTTTCTTTTCATTTTACTTTTCAT
837002 TTT
1 TTT
837005 CATTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 4 0.16
25 10 0.40
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTCTTTTCATTTTACTTTTCAT
Found at i:837009 original size:13 final size:12
Alignment explanation
Indices: 836945--837011 Score: 59
Period size: 13 Copynumber: 5.6 Consensus size: 12
836935 TATATATATA
*
836945 TATTTATCATTT
1 TATTTTTCATTT
836957 T-TCTTTTC-TTT
1 TAT-TTTTCATTT
*
836968 T-CTTTTCATTT
1 TATTTTTCATTT
*
836979 TTTCTTTTCATTT
1 TAT-TTTTCATTT
836992 TATTTTTCATTT
1 TATTTTTCATTT
837004 TCATTTTT
1 T-ATTTTT
837012 TTTCTTCAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
10 5 0.11
11 9 0.20
12 15 0.33
13 17 0.37
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTTTTCATTT
Found at i:840568 original size:9 final size:9
Alignment explanation
Indices: 840538--840562 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
840528 AGAAATAATG
840538 AATGTAAAA
1 AATGTAAAA
840547 AATGTAAAA
1 AATGTAAAA
840556 AATGTAA
1 AATGTAA
840563 TGAATGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
AATGTAAAA
Found at i:848194 original size:2 final size:2
Alignment explanation
Indices: 848187--848239 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
848177 TTTATTAATT
* * *
848187 TA TA TA TA CA CA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
848229 TA TA TA GA TA T
1 TA TA TA TA TA T
848240 TTATTTACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:849898 original size:3 final size:3
Alignment explanation
Indices: 849881--849994 Score: 77
Period size: 3 Copynumber: 40.7 Consensus size: 3
849871 TTGGGCCTAC
* * *
849881 AAT AAT AGT ATT AAT AAT ATT AAT AAT AAT AA- AAT AA- AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* **
849926 -AT AAT AGT AAT -AT AA- ATAT AAAT AA- AAT GGT -AT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT
*
849967 AAT AAT AAT ATT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
849995 AAAACAAACA
Statistics
Matches: 88, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
2 18 0.20
3 67 0.76
4 2 0.02
5 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:849923 original size:7 final size:8
Alignment explanation
Indices: 849905--849996 Score: 57
Period size: 8 Copynumber: 11.2 Consensus size: 8
849895 TAATATTAAT
849905 AATAATAA
1 AATAATAA
849913 AATAA-AA
1 AATAATAA
*
849920 AATAATAT
1 AATAATAA
*
849928 AATAGT--
1 AATAATAA
849934 AAT-ATAA
1 AATAATAA
849941 ATATAAATAA
1 A-AT-AATAA
*
849951 AATGGTATAA
1 AAT--AATAA
849961 AATAATAA
1 AATAATAA
*
849969 TAATAATATT
1 -AATAATA-A
849979 AATAATAA
1 AATAATAA
*
849987 TATAATAA
1 AATAATAA
849995 AA
1 AA
849997 AACAAACAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 8 0.12
8 25 0.38
9 16 0.25
10 12 0.18
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.30
Consensus pattern (8 bp):
AATAATAA
Found at i:850637 original size:21 final size:21
Alignment explanation
Indices: 850611--850651 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
850601 TAAAATTTGT
*
850611 ATCGATGCATTGCTACAGTGC
1 ATCGATGCACTGCTACAGTGC
850632 ATCGATGCACTGCTACAGTG
1 ATCGATGCACTGCTACAGTG
850652 ATTGCTACAG
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:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTGC
Found at i:851063 original size:45 final size:45
Alignment explanation
Indices: 851000--851222 Score: 385
Period size: 45 Copynumber: 5.0 Consensus size: 45
850990 ACATGCATGT
* *
851000 CCAATAT-TTTACCATTTATCCTATAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTA
* *
851044 CCAATATACTTACCATTTATCCCATAAGTTCATAAGCTTATTTTA
1 CCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTA
851089 CCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTA
*
851134 CCAATATACTTATCATTTATCCCATAAGCTCGTAAGCTTATTTTA
1 CCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTA
*
851179 CCAATATAATTACCATTTATCCCATAAGCTCGTAAGCTTATTTT
1 CCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTT
851223 CATGGTTACC
Statistics
Matches: 169, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 7 0.04
45 162 0.96
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.40
Consensus pattern (45 bp):
CCAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTA
Found at i:851221 original size:25 final size:25
Alignment explanation
Indices: 851103--851176 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
851093 TATACTTACC
851103 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCTCGTAAGCTT
* *
851128 ATTT-TACCAATATA-CT--T-A--TC
1 ATTTAT-CCCATA-AGCTCGTAAGCTT
851148 ATTTATCCCATAAGCTCGTAAGCTT
1 ATTTATCCCATAAGCTCGTAAGCTT
851173 ATTT
1 ATTT
851177 TACCAATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
19 1 0.03
20 12 0.33
21 1 0.03
22 2 0.06
23 2 0.06
24 1 0.03
25 16 0.44
26 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (25 bp):
ATTTATCCCATAAGCTCGTAAGCTT
Found at i:851948 original size:45 final size:45
Alignment explanation
Indices: 851897--851989 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
851887 CATAATGATA
851897 CATTTGTTAGTTTTATACTAACATAAACATATCCCAAAATAACTC
1 CATTTGTTAGTTTTATACTAACATAAACATATCCCAAAATAACTC
851942 CATTTGTTAGTTTTATACTAACATAAACATATCCCAAAATAACTC
1 CATTTGTTAGTTTTATACTAACATAAACATATCCCAAAATAACTC
851987 CAT
1 CAT
851990 AATATACTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.35
Consensus pattern (45 bp):
CATTTGTTAGTTTTATACTAACATAAACATATCCCAAAATAACTC
Found at i:855287 original size:21 final size:20
Alignment explanation
Indices: 855251--855289 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
855241 CATAACTAAG
855251 AAAATCAACTTCTGATAGCC
1 AAAATCAACTTCTGATAGCC
855271 AAAACTCACACTT-TGATAG
1 AAAA-TCA-ACTTCTGATAG
855290 TTTAGCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAATCAACTTCTGATAGCC
Found at i:857929 original size:45 final size:45
Alignment explanation
Indices: 857873--858130 Score: 464
Period size: 45 Copynumber: 5.8 Consensus size: 45
857863 AAACAATATT
*
857873 TTACTATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
857918 TTACCATTTATCCCATAAGTTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
857963 TTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAATATAC
1 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
858008 TTACCATTTATCCAATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
*
858053 TTACCATTTA-CCCATAAGCTCGTAAACTTATTTTACCAATATAC
1 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
858097 TTACCATTTATCCCATAAGCTCGTAAGCTTATTT
1 TTACCATTTATCCCATAAGCTCGTAAGCTTATTT
858131 GCATGGTTAC
Statistics
Matches: 203, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
44 42 0.21
45 161 0.79
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (45 bp):
TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATAC
Found at i:859379 original size:31 final size:30
Alignment explanation
Indices: 859325--859418 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
859315 ACCCATTTGT
* *
859325 AATTTTTTTAAAATTATATTTTGGTCACTA
1 AATTTTTTTAAATTTATAATTTGGTCACTA
* * *
859355 AATTTTTTTAAATTTGTTACTTTGGTCACCA
1 AATTTTTTTAAATTT-ATAATTTGGTCACTA
* ***
859386 AACTTTACCAAATTTATAATTTGGTCACTA
1 AATTTTTTTAAATTTATAATTTGGTCACTA
859416 AAT
1 AAT
859419 AAATCCATTT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
30 28 0.55
31 23 0.45
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (30 bp):
AATTTTTTTAAATTTATAATTTGGTCACTA
Found at i:865064 original size:36 final size:36
Alignment explanation
Indices: 865023--865196 Score: 260
Period size: 36 Copynumber: 4.9 Consensus size: 36
865013 ACTTATCCAT
* *
865023 TATCAGCTTTGATACATTTGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
865059 TATCAGGTTTGGTACATTCATGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
865095 TATCAGGTTTGGTACATTCGTGTATCAATGCTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* **
865131 TATTAGCTTTAATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
865167 TA-CAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
865197 CCAGCACCGT
Statistics
Matches: 124, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 25 0.20
36 99 0.80
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:865988 original size:19 final size:19
Alignment explanation
Indices: 865964--866009 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
865954 GAGATATACT
865964 TTAAAATAGATTTTTAAAG
1 TTAAAATAGATTTTTAAAG
865983 TTAAAATAGATTTTTAAAG
1 TTAAAATAGATTTTTAAAG
866002 TTAAAATA
1 TTAAAATA
866010 AGAGTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
TTAAAATAGATTTTTAAAG
Found at i:871489 original size:11 final size:11
Alignment explanation
Indices: 871473--871506 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
871463 CTTGAAGACA
871473 TGCTAAGGACG
1 TGCTAAGGACG
*
871484 TGCTAA-GACA
1 TGCTAAGGACG
871494 TGCTAAGGACG
1 TGCTAAGGACG
871505 TG
1 TG
871507 TGTTATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (11 bp):
TGCTAAGGACG
Found at i:871493 original size:21 final size:21
Alignment explanation
Indices: 871467--871506 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
871457 ACACAACTTG
871467 AAGACATGCTAAGGACGTGCT
1 AAGACATGCTAAGGACGTGCT
871488 AAGACATGCTAAGGACGTG
1 AAGACATGCTAAGGACGTG
871507 TGTTATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (21 bp):
AAGACATGCTAAGGACGTGCT
Found at i:871499 original size:10 final size:10
Alignment explanation
Indices: 871467--871500 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
871457 ACACAACTTG
871467 AAGACATGCT
1 AAGACATGCT
*
871477 AAGGACGTGCT
1 AA-GACATGCT
871488 AAGACATGCT
1 AAGACATGCT
871498 AAG
1 AAG
871501 GACGTGTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (10 bp):
AAGACATGCT
Found at i:874498 original size:36 final size:36
Alignment explanation
Indices: 874457--874630 Score: 296
Period size: 36 Copynumber: 4.9 Consensus size: 36
874447 ATTTATCCAT
874457 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
*
874493 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* *
874529 TATCAGCTTT-TTATATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
*
874564 TATCAACTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
*
874600 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGATACATTCGTGTATCAATGT
874631 CCAGTACTGT
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
35 32 0.25
36 97 0.75
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
Found at i:874552 original size:71 final size:72
Alignment explanation
Indices: 874457--874630 Score: 296
Period size: 71 Copynumber: 2.4 Consensus size: 72
874447 ATTTATCCAT
* *
874457 TATCAGCTTTGATACATTCGTGTATCAATGTTATCATATCAGCTTTGGTACATTCGTGTATCAAT
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCATATCAACTTTGATACATTCGTGTATCAAT
874522 GTTATCA
66 GTTATCA
* *
874529 TATCAGCTTT-TTATATTCGTGTATCAATGTTATCATATCAACTTTGATACATTCGTGTATCAAT
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCATATCAACTTTGATACATTCGTGTATCAAT
874593 GTTATCA
66 GTTATCA
*
874600 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGATACATTCGTGTATCAATGT
874631 CCAGTACTGT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
71 67 0.71
72 28 0.29
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (72 bp):
TATCAGCTTTGATACATTCGTGTATCAATGTTATCATATCAACTTTGATACATTCGTGTATCAAT
GTTATCA
Found at i:878491 original size:29 final size:29
Alignment explanation
Indices: 878458--878525 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
878448 TGGTTTGATG
*
878458 GATTTTTATACTCTATGGATGTTTATTGT
1 GATTTTTATACCCTATGGATGTTTATTGT
*
878487 GATTTTTATGCCCTATGGATGTTTATTGT
1 GATTTTTATACCCTATGGATGTTTATTGT
878516 GATTTTTATA
1 GATTTTTATA
878526 ATATTTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.21, C:0.07, G:0.18, T:0.54
Consensus pattern (29 bp):
GATTTTTATACCCTATGGATGTTTATTGT
Found at i:879299 original size:21 final size:21
Alignment explanation
Indices: 879274--879333 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 21
879264 ATACTAGTCC
*
879274 AAGTATCGATACTACTTATTAT
1 AAGTATCGATACTACTT-GTAT
* *
879296 AGTAGTGTCGATACTCCTTGTAT
1 A--AGTATCGATACTACTTGTAT
879319 AAGTATCGATACTAC
1 AAGTATCGATACTAC
879334 CTTTCCCCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 12 0.39
22 1 0.03
23 4 0.13
24 14 0.45
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (21 bp):
AAGTATCGATACTACTTGTAT
Found at i:880408 original size:22 final size:21
Alignment explanation
Indices: 880373--880414 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
880363 GGATTCTATC
880373 TAAAAATAAAAAAATATATATA
1 TAAAAATAAAAAAATA-ATATA
**
880395 TAAAAATACTAAAATAATAT
1 TAAAAATAAAAAAATAATAT
880415 CATTTGATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAAATAAAAAAATAATATA
Found at i:884281 original size:21 final size:21
Alignment explanation
Indices: 884228--884281 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
884218 AGTACTCCGT
* *
884228 AACAGATGGAGCATACTCCAA
1 AACAGGTGGAGTATACTCCAA
* *
884249 AATAGGTGGAGTATACTCTAA
1 AACAGGTGGAGTATACTCCAA
884270 AACAGGTGGAGT
1 AACAGGTGGAGT
884282 TTCAGCAGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (21 bp):
AACAGGTGGAGTATACTCCAA
Found at i:887097 original size:22 final size:22
Alignment explanation
Indices: 887069--887117 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
887059 TAGCATCTCA
*
887069 CAAAGATTCACTCTTTTCCTCT
1 CAAAGATTCACTCATTTCCTCT
887091 CAAAGATTCACTCATTTCCTCT
1 CAAAGATTCACTCATTTCCTCT
*
887113 TAAAG
1 CAAAG
887118 TGTTTAAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (22 bp):
CAAAGATTCACTCATTTCCTCT
Found at i:888246 original size:27 final size:27
Alignment explanation
Indices: 888204--888257 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
888194 ATGTCCTGCA
*
888204 AAGCCAAAGTGGTACATCAATAATGGG
1 AAGCCAAAGTGATACATCAATAATGGG
*
888231 AAGCCAGAGTGATACATCAATAATGGG
1 AAGCCAAAGTGATACATCAATAATGGG
888258 GTAATAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.19
Consensus pattern (27 bp):
AAGCCAAAGTGATACATCAATAATGGG
Found at i:889029 original size:30 final size:31
Alignment explanation
Indices: 888963--889037 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 31
888953 AATGCATATG
888963 TATGTTCGTTCATTAAGAAATATAATTTATT
1 TATGTTCGTTCATTAAGAAATATAATTTATT
* * *
888994 AATGTTCGTTCATTAAG-AATATAGTTTGTT
1 TATGTTCGTTCATTAAGAAATATAATTTATT
889024 TATGTTCGTTCATT
1 TATGTTCGTTCATT
889038 TAAATGATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 24 0.60
31 16 0.40
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.49
Consensus pattern (31 bp):
TATGTTCGTTCATTAAGAAATATAATTTATT
Found at i:889887 original size:26 final size:25
Alignment explanation
Indices: 889851--889972 Score: 183
Period size: 25 Copynumber: 4.8 Consensus size: 25
889841 AGAAAAGAAA
*
889851 TTACTAAAAATTACATGAAATGGAA-T
1 TTACTAAAAATTA-ATGAAAT-AAATT
*
889877 TTACTAAAAATTAATGGAATAAATT
1 TTACTAAAAATTAATGAAATAAATT
*
889902 TTACTAAAAATTAATGGAATAAATT
1 TTACTAAAAATTAATGAAATAAATT
889927 TTACTAAAAATTAATGAAATAAATT
1 TTACTAAAAATTAATGAAATAAATT
889952 TTACTAAAAATTAAATGAAAT
1 TTACTAAAAATT-AATGAAAT
889973 GATTGCCTCC
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
24 2 0.02
25 68 0.75
26 21 0.23
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.34
Consensus pattern (25 bp):
TTACTAAAAATTAATGAAATAAATT
Found at i:893802 original size:46 final size:46
Alignment explanation
Indices: 893752--894095 Score: 508
Period size: 46 Copynumber: 7.5 Consensus size: 46
893742 AAATGAAGGA
* * * *
893752 ATAAATGAAAATGAATAACGGTGCATTATTGGCATGAAATGATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
*
893798 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
893844 ATAAATGAAAATGCATAATGGTGCATTATCGGCATGAAAGGATACC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
893890 ATAAATAAAAATGCATAATGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* *
893936 ATAAATGAAAATGCATAACGGTTCATTATCGGCATGAAAGCATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
893982 ATAAATGAAAATTCATAACGGTGTATTATCGGCATGAAAGGATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
894028 ATAAATGAAAATGCATAACGGTGCGTAATCGACATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
* * *
894074 ACAAATAAAAATACATAACGGT
1 ATAAATGAAAATGCATAACGGT
894096 ATATTGCATA
Statistics
Matches: 272, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 272 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCC
Found at i:899418 original size:46 final size:46
Alignment explanation
Indices: 899360--899795 Score: 592
Period size: 46 Copynumber: 9.5 Consensus size: 46
899350 AAATGAAGGA
* *
899360 ATAAATGAAAATGCATAATGGTGCATTATCGACATGAAAGGATGAC
1 ATAAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCC
* * *
899406 ATAAATGAAAATGCATAACGGTGCATTATC-AGTATGAAATGATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATCGA-CATGAAAGGATGCC
*
899452 ATAAATGAAAATGCATAATGGTGCATTATCGACATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCC
* * *
899498 ATAAATGGAAATACATAACGGTGCATTATC-AGCATGAAAGGATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATCGA-CATGAAAGGATGCC
*
899544 ATAAATGAAAATGCATAACGGTGCATTATCGACATGTAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCC
* *
899590 ATAAATGAAAATGCATAACGGTGCCTAATC-AGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGA-CATGAAAGGATGCC
* *
899636 ATAAATGAAAATTCATAACGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCC
* * *
899682 ATAAATGAAAATACATAACGGTGCATTATCGGCGTGAAAGGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCC
* * * *
899728 ATAAATGAAAATGCATAATGGTGTC-TAATCGGCATGAAAGGATACC
1 ATAAATGAAAATGCATAACGGTG-CATTATCGACATGAAAGGATGCC
* * *
899774 ACAAATAAAAATACATAACGGT
1 ATAAATGAAAATGCATAACGGT
899796 ATATTAATGG
Statistics
Matches: 349, Mismatches: 34, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
45 3 0.01
46 343 0.98
47 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACGGTGCATTATCGACATGAAAGGATGCC
Found at i:899464 original size:92 final size:92
Alignment explanation
Indices: 899360--899795 Score: 658
Period size: 92 Copynumber: 4.7 Consensus size: 92
899350 AAATGAAGGA
* *
899360 ATAAATGAAAATGCATAATGGTGCATTATCGACATGAAAGGATGACATAAATGAAAATGCATAAC
1 ATAAATGAAAATGCATAATGGTGCATTATCGACATGAAAGGATGCCATAAATGAAAATACATAAC
* * *
899425 GGTGCATTATCAGTATGAAATGATGTC
66 GGTGCATTATCAGCATGAAAGGATGCC
*
899452 ATAAATGAAAATGCATAATGGTGCATTATCGACATGAAAGGATGCCATAAATGGAAATACATAAC
1 ATAAATGAAAATGCATAATGGTGCATTATCGACATGAAAGGATGCCATAAATGAAAATACATAAC
*
899517 GGTGCATTATCAGCATGAAAGGATGTC
66 GGTGCATTATCAGCATGAAAGGATGCC
* * *
899544 ATAAATGAAAATGCATAACGGTGCATTATCGACATGTAAGGATGCCATAAATGAAAATGCATAAC
1 ATAAATGAAAATGCATAATGGTGCATTATCGACATGAAAGGATGCCATAAATGAAAATACATAAC
* *
899609 GGTGCCTAATCAGCATGAAAGGATGCC
66 GGTGCATTATCAGCATGAAAGGATGCC
* * *
899636 ATAAATGAAAATTCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATACATAAC
1 ATAAATGAAAATGCATAATGGTGCATTATCGACATGAAAGGATGCCATAAATGAAAATACATAAC
* *
899701 GGTGCATTATCGGCGTGAAAGGATGCC
66 GGTGCATTATCAGCATGAAAGGATGCC
* * * * *
899728 ATAAATGAAAATGCATAATGGTGTC-TAATCGGCATGAAAGGATACCACAAATAAAAATACATAA
1 ATAAATGAAAATGCATAATGGTG-CATTATCGACATGAAAGGATGCCATAAATGAAAATACATAA
899792 CGGT
65 CGGT
899796 ATATTAATGG
Statistics
Matches: 317, Mismatches: 26, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
92 316 1.00
93 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (92 bp):
ATAAATGAAAATGCATAATGGTGCATTATCGACATGAAAGGATGCCATAAATGAAAATACATAAC
GGTGCATTATCAGCATGAAAGGATGCC
Found at i:900553 original size:24 final size:24
Alignment explanation
Indices: 900520--900624 Score: 122
Period size: 24 Copynumber: 4.4 Consensus size: 24
900510 GAGTCAAGAG
900520 TTCTACGTGGTCCTTCAGGACAAA
1 TTCTACGTGGTCCTTCAGGACAAA
* * * *
900544 ATCTATGTGGTCATTCGGGAC-AA
1 TTCTACGTGGTCCTTCAGGACAAA
* * * *
900567 TTGTATGTGGTCCTTCAAGATAAA
1 TTCTACGTGGTCCTTCAGGACAAA
*
900591 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTACGTGGTCCTTCAGGACAAA
900615 TTCTACGTGG
1 TTCTACGTGG
900625 CACTTTGGTG
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
23 17 0.26
24 48 0.74
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (24 bp):
TTCTACGTGGTCCTTCAGGACAAA
Found at i:915863 original size:90 final size:89
Alignment explanation
Indices: 915726--915894 Score: 259
Period size: 90 Copynumber: 1.9 Consensus size: 89
915716 TGATAAATAC
*
915726 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTAT-
1 AAATAAGCTCACGAGCTTATGGAATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
915790 GGATAAATAGTAAGTATATTGGTA
66 GGATAAATAGTAAGTATATTGGTA
* * * *
915814 AAATAAGCTCACGATCTTATGGGATTATATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTTA
1 AAATAAGCTCACGAGCTTAT-GGAATA-ATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTA
*
915879 TGGGATAAATGGTAAG
64 TGGGATAAATAGTAAG
915895 AGATTTTATC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
88 18 0.25
89 5 0.07
90 36 0.50
91 13 0.18
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (89 bp):
AAATAAGCTCACGAGCTTATGGAATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
GGATAAATAGTAAGTATATTGGTA
Found at i:915901 original size:46 final size:45
Alignment explanation
Indices: 915726--915894 Score: 252
Period size: 44 Copynumber: 3.8 Consensus size: 45
915716 TGATAAATAC
* *
915726 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
915770 AAATAAGCTTACGAGCTTAT-GGATAAATAGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* * * *
915814 AAATAAGCTCACGATCTTATGGGATTATATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGGA-TAAATGGTAAGTATATTGGTA
915860 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
915895 AGATTTTATC
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
43 3 0.03
44 55 0.50
45 13 0.12
46 40 0.36
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:916193 original size:13 final size:13
Alignment explanation
Indices: 916177--916203 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
916167 TGTTCATGGG
916177 TACTATTCACTAT
1 TACTATTCACTAT
916190 TACTATTCACTAT
1 TACTATTCACTAT
916203 T
1 T
916204 CATAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (13 bp):
TACTATTCACTAT
Found at i:916478 original size:23 final size:23
Alignment explanation
Indices: 916447--916513 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
916437 GGTTATACGC
*
916447 GGTCATTCAGGATAATTCTATGT
1 GGTCATTCAGGACAATTCTATGT
*
916470 GGTCTTTCAGGACAATTCTATGT
1 GGTCATTCAGGACAATTCTATGT
* *
916493 GGTCCTTCGGGACAAATTCTA
1 GGTCATTCAGGAC-AATTCTA
916514 CACGGTCCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 32 0.82
24 7 0.18
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
GGTCATTCAGGACAATTCTATGT
Found at i:916548 original size:24 final size:24
Alignment explanation
Indices: 916460--916555 Score: 113
Period size: 24 Copynumber: 4.0 Consensus size: 24
916450 CATTCAGGAT
* * *
916460 AATTCTATGTGGTCTTTCAGGAC-
1 AATTCTACGTGGTCCTTCGGGACA
*
916483 AATTCTATGTGGTCCTTCGGGACA
1 AATTCTACGTGGTCCTTCGGGACA
**
916507 AATTCTACACGGTCCTTCGGGACA
1 AATTCTACGTGGTCCTTCGGGACA
* *
916531 AATTCTACGTGGTACTTCGGTACA
1 AATTCTACGTGGTCCTTCGGGACA
916555 A
1 A
916556 TTTATATAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
23 21 0.33
24 42 0.67
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (24 bp):
AATTCTACGTGGTCCTTCGGGACA
Found at i:922296 original size:84 final size:85
Alignment explanation
Indices: 922136--922456 Score: 260
Period size: 84 Copynumber: 3.8 Consensus size: 85
922126 CATAAATTAT
* * **
922136 TTATCTAATTTGAATGGAAATTATTTCAGTTTATCTAAGTTGATGTGATATGTCAATGAAAAGCA
1 TTATCTAATTTGAATGGAAATTATTTCAGTTTATCTAAGCTGATGTGAAATCACAATGAAAAGCA
* *
922201 AATGACGTGAATAGTGTAGA
66 AAGGACATGAATAGTGTAGA
* *
922221 TTATCTGATTTGAATGGAAATTATTTCAG-TTATC-AGAGCTGATGTTAAATCACAATGAAAAGC
1 TTATCTAATTTGAATGGAAATTATTTCAGTTTATCTA-AGCTGATGTGAAATCACAATGAAAAGC
* *
922284 AAAGGATATGAATAGTGTAGT
65 AAAGGACATGAATAGTGTAGA
* * * * * * * * *** * *
922305 TTCTCTAATTCT--CT--AAAATATTTTAGTTTATCCATGTTGATGTGATATGTTAATAAAAAGT
1 TTATCTAATT-TGAATGGAAATTATTTCAGTTTATCTAAGCTGATGTGAAATCACAATGAAAAGC
* * *
922366 AAA-TACTTGAATAGTGTACA
65 AAAGGACATGAATAGTGTAGA
* * * * ** * **
922386 TTCTATGATTTGAATGGAAATTATTTCAGTTTATCTGATTTGGTGTGAAATGTCAATGAAAAGCA
1 TTATCTAATTTGAATGGAAATTATTTCAGTTTATCTAAGCTGATGTGAAATCACAATGAAAAGCA
922451 AAGGAC
66 AAGGAC
922457 CTTAATTATG
Statistics
Matches: 183, Mismatches: 44, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
80 1 0.01
81 30 0.16
82 27 0.15
83 3 0.02
84 91 0.50
85 31 0.17
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.37
Consensus pattern (85 bp):
TTATCTAATTTGAATGGAAATTATTTCAGTTTATCTAAGCTGATGTGAAATCACAATGAAAAGCA
AAGGACATGAATAGTGTAGA
Found at i:922452 original size:166 final size:166
Alignment explanation
Indices: 922157--922455 Score: 429
Period size: 166 Copynumber: 1.8 Consensus size: 166
922147 GAATGGAAAT
* * *
922157 TATTTCAGTTTATCTAAGTTGATGTGATATGTCAATGAAAAGCAAATGACGTGAATAGTGTAGAT
1 TATTTCAGTTTATCCAAGTTGATGTGATATGTCAATAAAAAGCAAATGACGTGAATAGTGTACAT
* *
922222 TATCTGATTTGAATGGAAATTATTTCAGTTATCAGAGCTGATGTTAAATCACAATGAAAAGCAAA
66 TATATGATTTGAATGGAAATTATTTCAGTTATCAGAGCTGATGTGAAATCACAATGAAAAGCAAA
922287 GGATATGAATAGTGTAGTTTCTCTAATTCTCTAAAA
131 GGATATGAATAGTGTAGTTTCTCTAATTCTCTAAAA
* * * * *
922323 TATTTTAGTTTATCCATGTTGATGTGATATGTTAATAAAAAGTAAAT-ACTTGAATAGTGTACAT
1 TATTTCAGTTTATCCAAGTTGATGTGATATGTCAATAAAAAGCAAATGACGTGAATAGTGTACAT
* * ** * **
922387 TCTATGATTTGAATGGAAATTATTTCAGTTTATCTGATTTGGTGTGAAATGTCAATGAAAAGCAA
66 TATATGATTTGAATGGAAATTATTTCAG-TTATCAGAGCTGATGTGAAATCACAATGAAAAGCAA
922452 AGGA
130 AGGA
922456 CCTTAATTAT
Statistics
Matches: 115, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
165 41 0.36
166 74 0.64
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (166 bp):
TATTTCAGTTTATCCAAGTTGATGTGATATGTCAATAAAAAGCAAATGACGTGAATAGTGTACAT
TATATGATTTGAATGGAAATTATTTCAGTTATCAGAGCTGATGTGAAATCACAATGAAAAGCAAA
GGATATGAATAGTGTAGTTTCTCTAATTCTCTAAAA
Found at i:933537 original size:192 final size:191
Alignment explanation
Indices: 933229--933658 Score: 571
Period size: 194 Copynumber: 2.2 Consensus size: 191
933219 AAGTAATATG
* * * **
933229 AAATTT-TGTTTCAAAGGAAATAACCTCAAGTGAGATAAAAAAAATTCTTGTTTCGAGTGAAATG
1 AAATTTGTGTTTC-AAGGAAATTATCTCAAGTGAGAT---AAAATTTCTTGTTTCGAGTGAAACA
*
933293 ATTTTAAAATTGTATTTCAAGAGAAAATGTTTCAAGTGGGATAAAAATTTGAATG-ATGATTGAA
62 ATTTTAAAATTGTATTTCAAGAGAAAATGTCTCAAGTGGGATAAAAATTTGAATGAATGATTGAA
*
933357 AATTCATATATCAAGAGAAAATATCC-CTAGTGAGATAAAAACTTTATTTCGAGTGAAACAATTT
127 AATTCATATATCAAGAGAAAATA-CCTCAAGTGAGATAAAAACTTTATTTCGAGTGAAAC-ATTT
933421 CA
190 CA
*
933423 AAATTTGTGTTTCAAGGAAATTATCTCAAGTGAGATAAAATTTCTTGTTTTGAGTGAAACAATTT
1 AAATTTGTGTTTCAAGGAAATTATCTCAAGTGAGATAAAATTTCTTGTTTCGAGTGAAACAATTT
* * **
933488 TAAAAATTTTATTTCAAGAGAAAGTGTCTCAAGTGGGATAAAAATTTGAATGAAATGATTTCAAA
66 T-AAAATTGTATTTCAAGAGAAAATGTCTCAAGTGGGATAAAAATTTGAATG-AATGATTGAAAA
* * * * *
933553 TTCGTATTTCAAGAGAAAATACCTCAAGTGAGATATAAATTTTGTTTCGAGTGAAACATTTCA
129 TTCATATATCAAGAGAAAATACCTCAAGTGAGATAAAAACTTTATTTCGAGTGAAACATTTCA
* * *
933616 AAATTTGT-TTTCAAGGGAAACTGTCTCAAGTGAGATGAAATTT
1 AAATTTGTGTTTCAA-GGAAATTATCTCAAGTGAGATAAAATTT
933659 GTTTTAAGAA
Statistics
Matches: 210, Mismatches: 20, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
191 26 0.12
192 53 0.25
193 41 0.20
194 84 0.40
195 6 0.03
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (191 bp):
AAATTTGTGTTTCAAGGAAATTATCTCAAGTGAGATAAAATTTCTTGTTTCGAGTGAAACAATTT
TAAAATTGTATTTCAAGAGAAAATGTCTCAAGTGGGATAAAAATTTGAATGAATGATTGAAAATT
CATATATCAAGAGAAAATACCTCAAGTGAGATAAAAACTTTATTTCGAGTGAAACATTTCA
Found at i:933542 original size:61 final size:60
Alignment explanation
Indices: 933471--933594 Score: 133
Period size: 60 Copynumber: 2.0 Consensus size: 60
933461 AATTTCTTGT
* * * ** *
933471 TTTGAGTGAAACAATTTTAAAAATT-TTATTTCAAGAGAAAGTGTCTCAAGTGGGATAAAAA
1 TTTGAATGAAACAA-TTT-AAAATTCGTATTTCAAGAGAAAATACCTCAAGTGAGATAAAAA
** * *
933532 TTTGAATGAAATGATTTCAAATTCGTATTTCAAGAGAAAATACCTCAAGTGAGATATAAA
1 TTTGAATGAAACAATTTAAAATTCGTATTTCAAGAGAAAATACCTCAAGTGAGATAAAAA
933592 TTT
1 TTT
933595 TGTTTCGAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
59 5 0.10
60 36 0.69
61 11 0.21
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (60 bp):
TTTGAATGAAACAATTTAAAATTCGTATTTCAAGAGAAAATACCTCAAGTGAGATAAAAA
Found at i:933608 original size:127 final size:126
Alignment explanation
Indices: 933417--933647 Score: 317
Period size: 125 Copynumber: 1.8 Consensus size: 126
933407 GAGTGAAACA
* * * * *
933417 ATTTCAAAATTTGTGTTTCAAGGAAATTATCTCAAGTGAGATAAAATTTCTTGTTTTGAGTGAAA
1 ATTTCAAAATTCGTATTTCAAGGAAAATACCTCAAGTGAGATAAAATTTCTTGTTTCGAGTGAAA
*
933482 CAATTTTAAAAATTT-TATTTCAAGAGAAAGTGTCTCAAGTGGGATAAAAATTTGAATGAAATG
66 C-A-TTTAAAAATTTGT-TTTCAAGAGAAACTGTCTCAAGTGGGATAAAAATTTGAATGAAATG
933545 ATTTC-AAATTCGTATTTCAAGAGAAAATACCTCAAGTGAGATATAAA-TT-TTGTTTCGAGTGA
1 ATTTCAAAATTCGTATTTCAAG-GAAAATACCTCAAGTGAGATA-AAATTTCTTGTTTCGAGTGA
* *
933607 AACATTTCAAAATTTGTTTTCAAGGGAAACTGTCTCAAGTG
64 AACATTTAAAAATTTGTTTTCAAGAGAAACTGTCTCAAGTG
933648 AGATGAAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
125 32 0.35
126 2 0.02
127 29 0.32
128 26 0.28
129 3 0.03
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (126 bp):
ATTTCAAAATTCGTATTTCAAGGAAAATACCTCAAGTGAGATAAAATTTCTTGTTTCGAGTGAAA
CATTTAAAAATTTGTTTTCAAGAGAAACTGTCTCAAGTGGGATAAAAATTTGAATGAAATG
Found at i:933684 original size:35 final size:37
Alignment explanation
Indices: 933615--933696 Score: 114
Period size: 35 Copynumber: 2.3 Consensus size: 37
933605 GAAACATTTC
* **
933615 AAAATTTGTTTTCAAGGGAAACTGTCTCAAGTGAGAT
1 AAAATTTGTTTTCAAGGAAAACAATCTCAAGTGAGAT
*
933652 GAAATTTGTTTT-AA-GAAAACAATCTCAAGTGAGAT
1 AAAATTTGTTTTCAAGGAAAACAATCTCAAGTGAGAT
933687 AAAATTTGTT
1 AAAATTTGTT
933697 ATTTGCTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 27 0.68
36 2 0.05
37 11 0.28
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (37 bp):
AAAATTTGTTTTCAAGGAAAACAATCTCAAGTGAGAT
Found at i:937050 original size:19 final size:18
Alignment explanation
Indices: 937028--937073 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
937018 CAAAGATGTG
* *
937028 AATGCAATTGCAAACTCAA
1 AATGCAAATGCAAACGC-A
937047 AATGCAAAATGCAAACGCA
1 AATGC-AAATGCAAACGCA
937066 AATGCAAA
1 AATGCAAA
937074 AAAGGTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 11 0.46
20 10 0.42
ACGTcount: A:0.52, C:0.20, G:0.13, T:0.15
Consensus pattern (18 bp):
AATGCAAATGCAAACGCA
Found at i:937073 original size:26 final size:26
Alignment explanation
Indices: 936983--937074 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 26
936973 ATGTAGAGAT
936983 GCAAATGCACAAATGCAAAGATG-AGAAC
1 GCAAATGCA-AAATGCAAA-ATGCA-AAC
* ** **
937011 GCCAATGCAAAGATG-TGAATGCAATT
1 GCAAATGCAAA-ATGCAAAATGCAAAC
937037 GCAAACT-CAAAATGCAAAATGCAAAC
1 GCAAA-TGCAAAATGCAAAATGCAAAC
937063 GCAAATGCAAAA
1 GCAAATGCAAAA
937075 AAGGTATTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
25 4 0.08
26 29 0.59
27 5 0.10
28 11 0.22
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.14
Consensus pattern (26 bp):
GCAAATGCAAAATGCAAAATGCAAAC
Found at i:937075 original size:20 final size:20
Alignment explanation
Indices: 937036--937074 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
937026 TGAATGCAAT
*
937036 TGCAAACTCAAAATGCAAAA
1 TGCAAACGCAAAATGCAAAA
937056 TGCAAACGC-AAATGCAAAA
1 TGCAAACGCAAAATGCAAAA
937075 AAGGTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.13
Consensus pattern (20 bp):
TGCAAACGCAAAATGCAAAA
Found at i:941381 original size:19 final size:18
Alignment explanation
Indices: 941350--941407 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
941340 AAACCAGAAT
941350 CCTAGGGGTATCGATTCC
1 CCTAGGGGTATCGATTCC
* *
941368 CCTAGGGGGAATCGGTTCC
1 CCTA-GGGGTATCGATTCC
*
941387 CTTCAAGGGGTATCGATTCC
1 C--CTAGGGGTATCGATTCC
941407 C
1 C
941408 TCTGCCTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 13 0.41
21 2 0.06
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (18 bp):
CCTAGGGGTATCGATTCC
Found at i:941401 original size:20 final size:19
Alignment explanation
Indices: 941353--941408 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
941343 CCAGAATCCT
*
941353 AGGGGTATCGATTCCCCTA
1 AGGGGTATCGATTCCCTTA
* * *
941372 GGGGGAATCGGTTCCCTTCA
1 AGGGGTATCGATTCCCTT-A
941392 AGGGGTATCGATTCCCT
1 AGGGGTATCGATTCCCT
941409 CTGCCTATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (19 bp):
AGGGGTATCGATTCCCTTA
Found at i:948843 original size:19 final size:19
Alignment explanation
Indices: 948821--948859 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
948811 GGGTTCAATC
*
948821 TAAAAACTAAGATAACTAA
1 TAAAAACTAAGAAAACTAA
* *
948840 TAAAAATTTAGAAAACTAA
1 TAAAAACTAAGAAAACTAA
948859 T
1 T
948860 TTAATAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAAAACTAAGAAAACTAA
Found at i:949344 original size:21 final size:22
Alignment explanation
Indices: 949309--949365 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 22
949299 ATAAAGTTAC
*
949309 AAGGATAAAA-AAAAAACAAGA-A
1 AAGGA-AAAAGAAAAGA-AAGAGA
949331 AAGGAAAAAGAAAAGAAAGAGA
1 AAGGAAAAAGAAAAGAAAGAGA
*
949353 AA-GAGAAAGAAAA
1 AAGGAAAAAGAAAA
949366 CTAAAAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (22 bp):
AAGGAAAAAGAAAAGAAAGAGA
Found at i:955911 original size:321 final size:320
Alignment explanation
Indices: 955293--955934 Score: 1211
Period size: 321 Copynumber: 2.0 Consensus size: 320
955283 CTTTGGTTAA
955293 TGCTTACACTCCATGAAATTATTTAGGACTGTTCATATCATAGCTCTAAAACCTGAGCTTAATCC
1 TGCTTACACTCCATGAAATTATTTAGGACTGTTCATATCATAGCTCTAAAACCTGAGCTTAATCC
955358 CATTTTACCTAAGTAGGGAGAAACATCACACCTCATGAGGAGCATTGGGCTTCCTGTGTGGGTAT
66 CATTTTACCTAAGTAGGGAGAAACATCACACCTCATGAGGAGCATTGGGCTTCCTGTGTGGGTAT
955423 GATAAAGAATCTCTGGAAAACATCCTAAGTTGCATGTCCGGATGTTAGTTTTGAGACACGCTTTT
131 GATAAAGAATCTCTGGAAAACATCCTAAGTTGCATGTCCGGATGTTAGTTTTGAGACACGCTTTT
955488 AGATGTATGATCCCCTGGTCTGAATCTGATTCTCAAGTCTACAATGAGATAGAATCCGAGTGAAC
196 AGATGTATGATCCCCTGGTCTGAATCTGATTCTCAAGTCTACAATGAGATAGAATCCGAGTGAAC
955553 CTTAGTAGGTTATGAAGATGGCTCGGGAACATTTCTAGAACCCATCCACGTGTAGAGAAT
261 CTTAGTAGGTTATGAAGATGGCTCGGGAACATTTCTAGAACCCATCCACGTGTAGAGAAT
955613 TGCTTACACTTCCATGAAATTATTTAGGACTGTTGCATATCATAGCTCT-AAACCTGAGCTTAAT
1 TGCTTACAC-TCCATGAAATTATTTAGGACTGTT-CATATCATAGCTCTAAAACCTGAGCTTAAT
955677 CCCATTTTACCTAAGTAGGGAGAAACATCACACCTCATGAGGAGCATTGGGCTTCCTTGTGTGGG
64 CCCATTTTACCTAAGTAGGGAGAAACATCACACCTCATGAGGAGCATTGGGCTTCC-TGTGTGGG
955742 TATGATAAAGAATCTCTGGAAAACATCCTAAGTTGCATGTCCGGATGTTAGTTTTGAGACACGCT
128 TATGATAAAGAATCTCTGGAAAACATCCTAAGTTGCATGTCCGGATGTTAGTTTTGAGACACGCT
955807 TTTAGATGTATGAT-CCCTGGTCTGAAT-TGATTCTCAAGTCTACAAATGAGATAGAATCCGAGT
193 TTTAGATGTATGATCCCCTGGTCTGAATCTGATTCTCAAGTCTAC-AATGAGATAGAATCCGAGT
955870 GAACCTTAGTAGG-TATGAAGATGGCTCGGGAACATTTTCTAGAACCCATCCACGTGTAGAGAAT
257 GAACCTTAGTAGGTTATGAAGATGGCTCGGGAACA-TTTCTAGAACCCATCCACGTGTAGAGAAT
955934 T
1 T
955935 AGTAAACCTA
Statistics
Matches: 317, Mismatches: 0, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
320 46 0.15
321 170 0.54
322 101 0.32
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (320 bp):
TGCTTACACTCCATGAAATTATTTAGGACTGTTCATATCATAGCTCTAAAACCTGAGCTTAATCC
CATTTTACCTAAGTAGGGAGAAACATCACACCTCATGAGGAGCATTGGGCTTCCTGTGTGGGTAT
GATAAAGAATCTCTGGAAAACATCCTAAGTTGCATGTCCGGATGTTAGTTTTGAGACACGCTTTT
AGATGTATGATCCCCTGGTCTGAATCTGATTCTCAAGTCTACAATGAGATAGAATCCGAGTGAAC
CTTAGTAGGTTATGAAGATGGCTCGGGAACATTTCTAGAACCCATCCACGTGTAGAGAAT
Found at i:963790 original size:4 final size:4
Alignment explanation
Indices: 963781--963857 Score: 53
Period size: 4 Copynumber: 20.8 Consensus size: 4
963771 AAATAATAGA
* * *
963781 AAAG AAAG AAAG AAA- AAA- ATAG ATAA- AAGG AAA- AAAG AAAA AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG
963826 AAA- AAA- AATA- AAAG AAAG AAAG -AAG AAAG AAA
1 AAAG AAAG AA-AG AAAG AAAG AAAG AAAG AAAG AAA
963858 ACATATCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
3 18 0.30
4 41 0.68
5 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:963792 original size:8 final size:7
Alignment explanation
Indices: 963785--963858 Score: 62
Period size: 7 Copynumber: 10.1 Consensus size: 7
963775 AATAGAAAAG
963785 AAAGAAA
1 AAAGAAA
963792 GAAA-AAA
1 -AAAGAAA
*
963799 ATAGATAA
1 AAAGA-AA
*
963807 AAGGAAA
1 AAAGAAA
963814 AAAGAAAA
1 AAAG-AAA
963822 AAAGAAA
1 AAAGAAA
963829 AAA-AATA
1 AAAGAA-A
963836 AAAGAAA
1 AAAGAAA
*
963843 GAAAGAAG
1 -AAAGAAA
963851 AAAGAAA
1 AAAGAAA
963858 A
1 A
963859 CATATCAAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
6 4 0.07
7 27 0.50
8 23 0.43
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (7 bp):
AAAGAAA
Found at i:963813 original size:26 final size:25
Alignment explanation
Indices: 963770--963824 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
963760 TGAAAAAATT
963770 AAAATAATAGAAAAGAAAGAAAGAAA
1 AAAATAATAGAAAAGAAA-AAAGAAA
*
963796 AAAATAGATA-AAAGGAAAAAAGAAA
1 AAAATA-ATAGAAAAGAAAAAAGAAA
963821 AAAA
1 AAAA
963825 GAAAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 11 0.41
26 13 0.48
27 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (25 bp):
AAAATAATAGAAAAGAAAAAAGAAA
Found at i:963814 original size:15 final size:15
Alignment explanation
Indices: 963795--963848 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
963785 AAAGAAAGAA
963795 AAAAATAGATAAAAGG
1 AAAAA-AGATAAAAGG
* *
963811 AAAAAAGAAAAAAAG
1 AAAAAAGATAAAAGG
*
963826 AAAAAAAATAAAA-G
1 AAAAAAGATAAAAGG
963840 AAAGAAAGA
1 AAA-AAAGA
963849 AGAAAGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 4 0.12
15 23 0.72
16 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (15 bp):
AAAAAAGATAAAAGG
Found at i:963817 original size:33 final size:30
Alignment explanation
Indices: 963780--963858 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
963770 AAAATAATAG
963780 AAAAGAAAGAAAGAAAAAAATAGATAAAAGGAA
1 AAAAGAAAGAAAGAAAAAAA-A-ATAAAA-GAA
*
963813 AAAAGAAAAAAAG-AAAAAAAATAAAAGAA
1 AAAAGAAAGAAAGAAAAAAAAATAAAAGAA
963842 AGAAAG-AAGAAAGAAAA
1 A-AAAGAAAGAAAGAAAA
963859 CATATCAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 10 0.24
30 13 0.31
31 1 0.02
32 6 0.14
33 12 0.29
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (30 bp):
AAAAGAAAGAAAGAAAAAAAAATAAAAGAA
Found at i:963833 original size:25 final size:25
Alignment explanation
Indices: 963780--963846 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
963770 AAAATAATAG
* *
963780 AAAAGAAAGAAAGAAAAAAATAGATA
1 AAAAGAAAGAAAGAAAAAAAGA-AAA
*
963806 AAAGGAAA-AAAGAAAAAAAGAAAA
1 AAAAGAAAGAAAGAAAAAAAGAAAA
*
963830 AAAATAAAAGAAAGAAA
1 AAAA-GAAAGAAAGAAA
963847 GAAGAAAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 5 0.15
25 15 0.44
26 14 0.41
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (25 bp):
AAAAGAAAGAAAGAAAAAAAGAAAA
Found at i:966017 original size:57 final size:56
Alignment explanation
Indices: 965938--966140 Score: 238
Period size: 57 Copynumber: 3.6 Consensus size: 56
965928 GCGTTTTTTT
* * *
965938 AGAAACTAAGCTTGATTTTTAGGGTTTCTTGATGATTATTTCCAAATAATTTTTAAA
1 AGAAGCTAAGCCTAATTTTTAGGGTTTCTTGATGATTATTTCCAAATAATTTTT-AA
* **
965995 AGAAGCTAACCCTAATTTTTAGGGATTTCTTGATG-TT-TTT--AAATGAGCTTTT--
1 AGAAGCTAAGCCTAATTTTTAGGG-TTTCTTGATGATTATTTCCAAAT-AATTTTTAA
* * *
966047 AGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATAATTTTTAA
1 AGAAGCTAAGCCTAATTTT-TAGGGTTTCTTGATGATTATTTCCAAATAATTTTTAA
966104 AGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGAT
1 AGAAGCTAAGCCTAATTTTTA-GGGTTTCTTGATGAT
966141 AATTGAAAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 20
0.78 0.10 0.13
Matches are distributed among these distances:
52 26 0.21
53 6 0.05
54 7 0.06
55 10 0.08
56 8 0.07
57 54 0.45
58 10 0.08
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (56 bp):
AGAAGCTAAGCCTAATTTTTAGGGTTTCTTGATGATTATTTCCAAATAATTTTTAA
Found at i:966118 original size:109 final size:109
Alignment explanation
Indices: 965880--966197 Score: 406
Period size: 109 Copynumber: 2.8 Consensus size: 109
965870 AACAAACTTA
* * * * * * *
965880 TAAAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGTTTTCAAATGCGTTTTTTTAGAAACT
1 TAAAAGAAGCTAAGCCTAATTTT-TAGGGTTTCTTGATGTTTTAAAATGAG--ATTTTAGAAACT
*
965945 AAGCTTGATTTT-TAGGGTTTCTTGATGATTATTTCCAAATAATTTT
63 AAGCTTGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATAATTTT
* * *
965991 TAAAAGAAGCTAACCCTAATTTTTAGGGATTTCTTGATGTTTTTAAATGAGCTTTTAGAAACTAA
1 TAAAAGAAGCTAAGCCTAATTTTTAGGG-TTTCTTGATGTTTTAAAATGAGATTTTAGAAACTAA
*
966056 GCCTGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATAATTTT
65 GCTTGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATAATTTT
*
966101 T-AAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATAATTGAAAATGAAAGATTTTAAGA
1 TAAAAGAAGCTAAGCCTAATTTTTA-GGGTTTCTTGATG-T--TTTAAAATG--AGATTTT-AGA
966165 AACTAAGCTTGATTTTCAAGGGTTTCTTGATGA
59 AACTAAGCTTGATTTTCAAGGGTTTCTTGATGA
966198 GTAAGTCATT
Statistics
Matches: 183, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
109 54 0.30
110 42 0.23
111 39 0.21
112 7 0.04
114 6 0.03
115 35 0.19
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (109 bp):
TAAAAGAAGCTAAGCCTAATTTTTAGGGTTTCTTGATGTTTTAAAATGAGATTTTAGAAACTAAG
CTTGATTTTCAAGGGTTTCTTGATGATTATTTCCAAATAATTTT
Found at i:966443 original size:39 final size:39
Alignment explanation
Indices: 966389--966556 Score: 241
Period size: 39 Copynumber: 4.3 Consensus size: 39
966379 AGGGGTCAAC
* *
966389 ATCTCGCTTGAGATAGTTTCACAAGAAACATAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTAGAAACAGAAGATTTT
*
966428 ATCTCGCTTGAGATAGTTTCACTCA-AAACAGAATATTTT
1 ATCTCGCTTGAGATAGTTTCACT-AGAAACAGAAGATTTT
* * *
966467 ATCTCGCTTGAGATAGTTTTACTCGAAACAAAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTAGAAACAGAAGATTTT
* *
966506 ATCTCGCTTGAGATAGTTTCACTTGAAAAAGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTAGAAACAGAAGATTTT
966544 ATCTCGCTTGAGA
1 ATCTCGCTTGAGA
966557 ATGAAAGATG
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
38 16 0.14
39 99 0.85
40 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTAGAAACAGAAGATTTT
Found at i:978013 original size:16 final size:16
Alignment explanation
Indices: 977994--978051 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
977984 TATTACGCCT
*
977994 AAGAAAGAAAAGAGAA
1 AAGAAAGAAAAAAGAA
978010 AAGAAAAAGAAAAAATAGAA
1 AAG--AAAG-AAAAA-AGAA
*
978030 AAGAAAAAAAAAAGAA
1 AAGAAAGAAAAAAGAA
978046 AAGAAA
1 AAGAAA
978052 AAAGGTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 13 0.36
17 5 0.14
18 7 0.19
19 4 0.11
20 7 0.19
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AAGAAAGAAAAAAGAA
Found at i:978014 original size:5 final size:5
Alignment explanation
Indices: 978006--978052 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
977996 GAAAGAAAAG
* *
978006 AGAAA AGAAAA AGAAA A-AAT AGAAA AGAAAA AAAAA AGAAA AGAAA A
1 AGAAA AG-AAA AGAAA AGAAA AGAAA AG-AAA AGAAA AGAAA AGAAA A
978053 AAGGTTAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 3 0.09
5 23 0.66
6 9 0.26
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (5 bp):
AGAAA
Found at i:978029 original size:20 final size:18
Alignment explanation
Indices: 978001--978054 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 18
977991 CCTAAGAAAG
*
978001 AAAAGAGAAAAGAAAAAGA
1 AAAAAAGAAAAGAAAAA-A
978020 AAAAATAGAAAAG--AAAA
1 AAAAA-AGAAAAGAAAAAA
978037 AAAAAAGAAAAGAAAAAA
1 AAAAAAGAAAAGAAAAAA
978055 GGTTAAAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 7 0.23
17 6 0.19
18 7 0.23
19 4 0.13
20 7 0.23
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAAAGAAAAAA
Found at i:978031 original size:15 final size:15
Alignment explanation
Indices: 978008--978054 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
977998 AAGAAAAGAG
978008 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
*
978023 AATAG-AAAAGAAAA
1 AAAAGAAAAAGAAAA
*
978037 AAAAAAGAAAAGAAAA
1 AAAAGA-AAAAGAAAA
978053 AA
1 AA
978055 GGTTAAAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 12 0.44
15 4 0.15
16 11 0.41
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAGAAAA
Found at i:979237 original size:136 final size:136
Alignment explanation
Indices: 978989--979816 Score: 939
Period size: 136 Copynumber: 6.1 Consensus size: 136
978979 AACATAAATC
* * * ** *
978989 AATGACAAGAACTCATATGACA-ACAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAGCTA
1 AATGAGAAGAACTCATCTGACAGA-GGGAGAAGAAGTTCATAATGAGAAGAACTTGTTTGACCTA
** * * *
979053 TTGCTCGATTCTTGACATTTCAAATCAGCAATGCCTTGCTTGAGGGATCAACATTTCTAATAGAG
65 TTGCTCGATTCACGACATTTCAAATCAGCAAAGCCTCGCTTGAGGGATCAACATTTCTAATGGAG
979118 AGTTCAT
130 AGTTCAT
* *
979125 AATGAGAAGAACTCATCTGACAGAGGGAGAAGAAATTCATAATAAGAAGAACTTGTTTGACCTAT
1 AATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTTGACCTAT
* * * * * *
979190 TGCTCGATTCACGACATTTCGAATTAGCAAAGCCTGGCCTGATGGATCAACATTTCCAATGGAGA
66 TGCTCGATTCACGACATTTCAAATCAGCAAAGCCTCGCTTGAGGGATCAACATTTCTAATGGAGA
979255 GTTCAT
131 GTTCAT
* * * *
979261 AATGAGAATAACTCATATGACAGAGGGAGAAGAAATTCGTAATGAGAAGAACTTGTTTGACCTAT
1 AATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTTGACCTAT
* * * * * * *
979326 TGCTCGATTCACGACATATAAAATCAGCAAAGCCTGGCCTCATGGATCAACATTTCCAATGGAGA
66 TGCTCGATTCACGACATTTCAAATCAGCAAAGCCTCGCTTGAGGGATCAACATTTCTAATGGAGA
979391 GTTCAT
131 GTTCAT
* * *
979397 AATAAGAAGAACTCAT-TCGACAGAGGGAAAAGAAGTTCATAATGAGAAGAACTTGTTAGACCTA
1 AATGAGAAGAACTCATCT-GACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTTGACCTA
** * * * * *
979461 TTGCTCGATTCACGACATTTTGAATCAGTAACGCCTCACTTGAGGGATTAACATTTCCT-GTGGA
65 TTGCTCGATTCACGACATTTCAAATCAGCAAAGCCTCGCTTGAGGGATCAACATTT-CTAATGGA
*
979525 TAGATT-AT
129 GAG-TTCAT
* * * *
979533 AATGAGAAGAATTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTATTCGACCTAT
1 AATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTTGACCTAT
* * * * *
979598 TGCTCGATTCACGACATTTCAAATTAGTAACA-CATCGCTTGAGAGATTAACATTTCTAATGGAG
66 TGCTCGATTCACGACATTTCAAATCAGCAA-AGCCTCGCTTGAGGGATCAACATTTCTAATGGAG
979662 AGTTCAT
130 AGTTCAT
* * * * * *
979669 AATGAGAAGAACTAATCCGATAGAGGGAGAAGAAGTTAATAATGACAAGAACTTATTTGACCTAT
1 AATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTTGACCTAT
* * ** * * * * * * *
979734 TCCTCGATTCATGGGATTTCAAATTAGTAATGCCTCACTTAAGGGATAAACATTTCCAATAGGA-
66 TGCTCGATTCACGACATTTCAAATCAGCAAAGCCTCGCTTGAGGGATCAACATTTCTAAT-GGAG
*
979798 AGATCAT
130 AGTTCAT
*
979805 GATGAGAAGAAC
1 AATGAGAAGAAC
979817 CCGTAACTTG
Statistics
Matches: 601, Mismatches: 81, Indels: 20
0.86 0.12 0.03
Matches are distributed among these distances:
135 5 0.01
136 589 0.98
137 7 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (136 bp):
AATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTTGACCTAT
TGCTCGATTCACGACATTTCAAATCAGCAAAGCCTCGCTTGAGGGATCAACATTTCTAATGGAGA
GTTCAT
Found at i:980035 original size:18 final size:18
Alignment explanation
Indices: 980011--980061 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
980001 GCCCCAGACC
980011 CAAAACCCAACCAAAACA
1 CAAAACCCAACCAAAACA
* * *
980029 TAAAACCCAACCAGAACC
1 CAAAACCCAACCAAAACA
980047 CAAAACCCAATCCAA
1 CAAAACCCAA-CCAA
980062 GGCCCAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.55, C:0.39, G:0.02, T:0.04
Consensus pattern (18 bp):
CAAAACCCAACCAAAACA
Found at i:984497 original size:16 final size:16
Alignment explanation
Indices: 984476--984508 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
984466 CCCATTTATC
984476 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
984492 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
984508 A
1 A
984509 AAACCACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTTTAAAACACACTT
Found at i:986603 original size:20 final size:20
Alignment explanation
Indices: 986566--986604 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
986556 AGATTGAGTG
* * *
986566 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
986586 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
986605 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:986808 original size:23 final size:21
Alignment explanation
Indices: 986782--986840 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
986772 TTCCCCTATG
986782 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
986805 GGGGGAATCGGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
* *
986825 GGGGGGATCGATTCCC
1 GGGGGAATCGGTTCCC
986841 TCTGCACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.39
21 4 0.12
22 3 0.09
23 13 0.39
ACGTcount: A:0.19, C:0.25, G:0.36, T:0.20
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:986841 original size:20 final size:22
Alignment explanation
Indices: 986759--986842 Score: 77
Period size: 21 Copynumber: 3.9 Consensus size: 22
986749 ACAGAACCCT
* *
986759 AGGGGGGTATCGATTCCC-CTA
1 AGGGGGGAATCGATTCCCTCAA
* *
986780 TGGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGGAATCGATT-CCC-TCAA
*
986804 A-GGGGGAATCGGTTCCCTC-A
1 AGGGGGGAATCGATTCCCTCAA
986824 AGGGGGG-ATCGATTCCCTC
1 AGGGGGGAATCGATTCCCTC
986843 TGCACCAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
20 13 0.25
21 19 0.36
22 6 0.11
23 13 0.25
24 2 0.04
ACGTcount: A:0.18, C:0.25, G:0.35, T:0.23
Consensus pattern (22 bp):
AGGGGGGAATCGATTCCCTCAA
Found at i:999233 original size:2 final size:2
Alignment explanation
Indices: 999226--999298 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
999216 AACATGTCTC
999226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
999268 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
999299 ACACCTTACA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:999448 original size:36 final size:37
Alignment explanation
Indices: 999365--999477 Score: 120
Period size: 36 Copynumber: 3.1 Consensus size: 37
999355 CATGTGGTTG
* * * * *
999365 TTAGAATTACCATCTCGATGAGATGAACCAGTCGGTAG
1 TTAGAATTATCATCCCAATG-GATGAACCAGTCAGTAA
* * ** *
999403 TTGGAATTATCTTCGTAATGGATGAA-CAGTTAGTAA
1 TTAGAATTATCATCCCAATGGATGAACCAGTCAGTAA
999439 TTAGAATTATCATCCCAATGGATGAACCAGTCAGTAA
1 TTAGAATTATCATCCCAATGGATGAACCAGTCAGTAA
999476 TT
1 TT
999478 CAGTCACTTC
Statistics
Matches: 60, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
36 29 0.48
37 17 0.28
38 14 0.23
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (37 bp):
TTAGAATTATCATCCCAATGGATGAACCAGTCAGTAA
Found at i:1001094 original size:46 final size:45
Alignment explanation
Indices: 1001016--1001128 Score: 149
Period size: 46 Copynumber: 2.5 Consensus size: 45
1001006 ATTTATTAAT
* *
1001016 CATAAGCTCGTAAGCTTA-TTTTACCAAAATACTTACCATT-TATC
1 CATAAGATCATAAGCTTATTTTTACCAAAATACTTACCATTAT-TC
* *
1001060 CATAAGATCCATAAGCTTATTTTTACCAATATACTTGCCATTATTC
1 CATAAGAT-CATAAGCTTATTTTTACCAAAATACTTACCATTATTC
*
1001106 CATAAGCTCATAAGCTTATTTTT
1 CATAAGATCATAAGCTTATTTTT
1001129 CCAGTTTATC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 7 0.11
45 24 0.39
46 29 0.48
47 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (45 bp):
CATAAGATCATAAGCTTATTTTTACCAAAATACTTACCATTATTC
Found at i:1003323 original size:13 final size:11
Alignment explanation
Indices: 1003282--1003366 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
1003272 ATAATCTGTC
1003282 CATCACCATTAT
1 CATCACCA-TAT
*
1003294 CA-CGCCTATAT
1 CATCACC-ATAT
1003305 CATCACCATAGT
1 CATCACCATA-T
1003317 CCATCACCATTAT
1 -CATCACCA-TAT
*
1003330 CA-CGCCTATAT
1 CATCACC-ATAT
1003341 CATCACCATATT
1 CATCACCATA-T
1003353 CCATCACCATAT
1 -CATCACCATAT
1003365 CA
1 CA
1003367 CGCCAATAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:1003326 original size:36 final size:36
Alignment explanation
Indices: 1003279--1003380 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
1003269 GATATAATCT
1003279 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
1003315 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
1003351 TTCCATCACCA-TATCACGCCAATAACATCA
1 GTCCATCACCATTATCACGCCTATATCATCA
1003381 TCCTTCCATT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 17 0.27
36 46 0.73
ACGTcount: A:0.32, C:0.36, G:0.05, T:0.26
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:1003395 original size:33 final size:34
Alignment explanation
Indices: 1003280--1003396 Score: 130
Period size: 36 Copynumber: 3.4 Consensus size: 34
1003270 ATATAATCTG
* *
1003280 TCCATCACCATTATCACGCCTATATCATCACCAT
1 TCCATCACCATTATCACGCCAATAACATCACCAT
* *
1003314 AGTCCATCACCATTATCACGCCTATATCATCACCATAT
1 --TCCATCACCATTATCACGCCAATAACATCACC--AT
1003352 TCCATCACCA-TATCACGCCAATAACATCATCC-T
1 TCCATCACCATTATCACGCCAATAACATCA-CCAT
*
1003385 TCCATTACCATT
1 TCCATCACCATT
1003397 TCATCACCAT
Statistics
Matches: 74, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
33 10 0.14
34 1 0.01
35 17 0.23
36 44 0.59
38 2 0.03
ACGTcount: A:0.31, C:0.37, G:0.03, T:0.29
Consensus pattern (34 bp):
TCCATCACCATTATCACGCCAATAACATCACCAT
Found at i:1003414 original size:33 final size:33
Alignment explanation
Indices: 1003280--1003419 Score: 88
Period size: 36 Copynumber: 4.1 Consensus size: 33
1003270 ATATAATCTG
* * *
1003280 TCCATCACCATTATCACGCCTATATCATCA-CCAT
1 TCCATCACCA-TATCACACCAATAACATCATCC-T
* * *
1003314 AGTCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 --TCCATCACCA-TATCACACCAATAACATCATCC---T
*
1003352 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACACCAATAACATCATCCT
* * *
1003385 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CACCAATAACATCATCCT
1003418 TC
1 TC
1003420 ATTCATCAAC
Statistics
Matches: 94, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
33 24 0.26
34 7 0.07
35 17 0.18
36 44 0.47
38 2 0.02
ACGTcount: A:0.31, C:0.36, G:0.03, T:0.30
Consensus pattern (33 bp):
TCCATCACCATATCACACCAATAACATCATCCT
Found at i:1003785 original size:12 final size:11
Alignment explanation
Indices: 1003753--1003801 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
1003743 TGCTGCAACA
*
1003753 AAAACAAAAAG
1 AAAAGAAAAAG
1003764 CAACAAGAAAGAAG
1 -AA-AAGAAA-AAG
1003778 AAAAGAAAAGAG
1 AAAAGAAAA-AG
1003790 AAAAGAAAAAG
1 AAAAGAAAAAG
1003801 A
1 A
1003802 CTCCTACATC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
11 4 0.12
12 19 0.58
13 7 0.21
14 3 0.09
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:1007826 original size:13 final size:11
Alignment explanation
Indices: 1007785--1007869 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
1007775 ACAATCTGTC
1007785 CATCACCATTAT
1 CATCACCA-TAT
*
1007797 CA-CGCCTATAT
1 CATCACC-ATAT
1007808 CATCACCATAGT
1 CATCACCATA-T
1007820 CCATCACCATTAT
1 -CATCACCA-TAT
*
1007833 CA-CGCCTATAT
1 CATCACC-ATAT
1007844 CATCACCATATT
1 CATCACCATA-T
1007856 CCATCACCATAT
1 -CATCACCATAT
1007868 CA
1 CA
1007870 CGCCAATAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Done.