Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 118 of 202
Found at i:36478468 original size:24 final size:24
Alignment explanation
Indices: 36478437--36478482 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
36478427 CATCACCTCG
36478437 ACCCTCATAGCCATCTTCATCTCC
1 ACCCTCATAGCCATCTTCATCTCC
***
36478461 ACCCTCATCTTCATCTTCATCT
1 ACCCTCATAGCCATCTTCATCT
36478483 TCATCTTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.43, G:0.02, T:0.35
Consensus pattern (24 bp):
ACCCTCATAGCCATCTTCATCTCC
Found at i:36478471 original size:18 final size:18
Alignment explanation
Indices: 36478448--36478500 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
36478438 CCCTCATAGC
36478448 CATCTTCATCTCCACCCT
1 CATCTTCATCTCCACCCT
* * *
36478466 CATCTTCATCTTCATCTT
1 CATCTTCATCTCCACCCT
36478484 CATCTTCATCTCCACCC
1 CATCTTCATCTCCACCC
36478501 CAGTTTTCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.17, C:0.45, G:0.00, T:0.38
Consensus pattern (18 bp):
CATCTTCATCTCCACCCT
Found at i:36478474 original size:6 final size:6
Alignment explanation
Indices: 36478448--36478494 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
36478438 CCCTCATAGC
* * *
36478448 CATCTT CATCTC CACCCT CATCTT CATCTT CATCTT CATCTT CATCT
1 CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCTT CATCT
36478495 CCACCCCAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.43
Consensus pattern (6 bp):
CATCTT
Found at i:36478488 original size:36 final size:36
Alignment explanation
Indices: 36478448--36478518 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
36478438 CCCTCATAGC
36478448 CATCTTCATCTCCACCCTCA-TCTTCATCTTCATCTT
1 CATCTTCATCTCCACCC-CAGTCTTCATCTTCATCTT
* *
36478484 CATCTTCATCTCCACCCCAGTTTTCGTCTTCATCT
1 CATCTTCATCTCCACCCCAGTCTTCATCTTCATCT
36478519 CCATTGCCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.15, C:0.41, G:0.03, T:0.41
Consensus pattern (36 bp):
CATCTTCATCTCCACCCCAGTCTTCATCTTCATCTT
Found at i:36478710 original size:12 final size:12
Alignment explanation
Indices: 36478693--36478722 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36478683 TGGATACGTT
36478693 GGCATTGATGTG
1 GGCATTGATGTG
*
36478705 GGCATTGATGTT
1 GGCATTGATGTG
36478717 GGCATT
1 GGCATT
36478723 AATGACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.37, T:0.37
Consensus pattern (12 bp):
GGCATTGATGTG
Found at i:36483424 original size:10 final size:10
Alignment explanation
Indices: 36483411--36483436 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
36483401 ATCGATAAAA
36483411 TAAAATAATT
1 TAAAATAATT
36483421 TAAAATAATT
1 TAAAATAATT
36483431 TAAAAT
1 TAAAAT
36483437 TTTAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATAATT
Found at i:36483674 original size:18 final size:18
Alignment explanation
Indices: 36483651--36483693 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
36483641 AAAACTAGAG
36483651 AGAGTTGAAAGAATTGAA
1 AGAGTTGAAAGAATTGAA
* *
36483669 AGAGTTGAGAGAATTGAG
1 AGAGTTGAAAGAATTGAA
36483687 AGAGTTG
1 AGAGTTG
36483694 GATTTAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (18 bp):
AGAGTTGAAAGAATTGAA
Found at i:36490253 original size:199 final size:199
Alignment explanation
Indices: 36489913--36490509 Score: 1079
Period size: 199 Copynumber: 3.0 Consensus size: 199
36489903 AAAAAGGGGA
36489913 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
* * * * *
36489978 TTTTGGTTAACAAATTTCCCATCCTCATTCTTTTCCTATCCTTTGTACATAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
* *
36490043 TGGAATTGTAAGATAATGTGTCAGTGAACATAATCTCTTTTGGGATGCCCTTTCCAAGTTTTTTC
131 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTGGGATGCCCTTTTCAAGTTTTTTC
36490108 TTGT
196 TTGT
36490112 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
36490177 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
36490242 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTAGGG-TGCCCTTTTCAAGTTTTTT
131 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTT-GGGATGCCCTTTTCAAGTTTTTT
36490306 CTTGT
195 CTTGT
*
36490311 GGATTAAAAATTTGTCAATCTAATGCTTAAGCGACAAAGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
* *
36490376 TTTTGATTAACAAATTTTCCATTCTCACTCTTTTCCTGTCCTTTGTCCCTAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
*
36490441 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTGGGATGCCTTTTTCAAGTTTTTTC
131 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTGGGATGCCCTTTTCAAGTTTTTTC
36490506 TTGT
196 TTGT
36490510 TGATAATTAG
Statistics
Matches: 385, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
198 3 0.01
199 379 0.98
200 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (199 bp):
GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTACCTAGAAAAGCCTTAATA
TGGAATTGTAAGATAATGTGTCGGTGAACATAATCTCTTTTGGGATGCCCTTTTCAAGTTTTTTC
TTGT
Found at i:36491103 original size:2 final size:2
Alignment explanation
Indices: 36491096--36491134 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
36491086 CAGTGGTTAG
36491096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36491135 TTTAAGTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36492198 original size:9 final size:9
Alignment explanation
Indices: 36492184--36492214 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36492174 GTTAAACGAA
36492184 TCGAGTTAT
1 TCGAGTTAT
*
36492193 TCGAGTTAA
1 TCGAGTTAT
36492202 TCGAGTTAT
1 TCGAGTTAT
36492211 TCGA
1 TCGA
36492215 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:36492386 original size:30 final size:30
Alignment explanation
Indices: 36492352--36492412 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
36492342 AAATCTTTTT
* *
36492352 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTTCCCCCAAAACTTTTACTCCCTCCC
*
36492382 ACTTTTCCCCCAAAGCTTTTACTCCCTCCC
1 ACTTTTCCCCCAAAACTTTTACTCCCTCCC
36492412 A
1 A
36492413 ATCCCCAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.43, G:0.02, T:0.36
Consensus pattern (30 bp):
ACTTTTCCCCCAAAACTTTTACTCCCTCCC
Found at i:36493559 original size:18 final size:17
Alignment explanation
Indices: 36493525--36493558 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36493515 TCATATTTAC
36493525 TTTTTAACATTTATATA
1 TTTTTAACATTTATATA
*
36493542 TTTTTAAC-TTTGTATA
1 TTTTTAACATTTATATA
36493558 T
1 T
36493559 AAAGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTAACATTTATATA
Found at i:36493684 original size:12 final size:13
Alignment explanation
Indices: 36493659--36493687 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
36493649 TAGTACCGAC
36493659 TAAATATGTTTTT
1 TAAATATGTTTTT
36493672 TAAATAT-TTTTT
1 TAAATATGTTTTT
36493684 TAAA
1 TAAA
36493688 ACTCATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TAAATATGTTTTT
Found at i:36501211 original size:26 final size:26
Alignment explanation
Indices: 36501151--36501212 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
36501141 GGGCCATATG
*
36501151 AGGAAGCTCACAAAGAGCCTTTAATC
1 AGGAAGCTCACAAAGAGCCTATAATC
* *
36501177 GGGAAGCTCACGAAGAGCCATATAA-C
1 AGGAAGCTCACAAAGAGCC-TATAATC
*
36501203 AGGACGCTCA
1 AGGAAGCTCA
36501213 TAAGAGCTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
AGGAAGCTCACAAAGAGCCTATAATC
Found at i:36505783 original size:8 final size:8
Alignment explanation
Indices: 36505760--36505823 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
36505750 AAATTTTAAT
*
36505760 ATTAAAAT
1 ATTAAAAA
36505768 ATTAAAAA
1 ATTAAAAA
36505776 ATTAAAAAA
1 ATT-AAAAA
36505785 ATTAAAAAA
1 ATT-AAAAA
36505794 ATTGTAAAAAA
1 A-T-T-AAAAA
*
36505805 ATAAAAAA
1 ATTAAAAA
*
36505813 ATTATAAA
1 ATTAAAAA
36505821 ATT
1 ATT
36505824 TTATAAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
8 24 0.49
9 15 0.31
10 2 0.04
11 8 0.16
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (8 bp):
ATTAAAAA
Found at i:36505784 original size:10 final size:9
Alignment explanation
Indices: 36505771--36505840 Score: 70
Period size: 9 Copynumber: 7.4 Consensus size: 9
36505761 TTAAAATATT
36505771 AAAAAATTA
1 AAAAAATTA
36505780 AAAAAATTA
1 AAAAAATTA
36505789 AAAAAATTGTA
1 AAAAAA-T-TA
36505800 AAAAAA-TA
1 AAAAAATTA
36505808 AAAAAATTA
1 AAAAAATTA
**
36505817 TAAAATTTTA
1 -AAAAAATTA
*
36505827 TAAAATATTA
1 -AAAAAATTA
36505837 AAAA
1 AAAA
36505841 TATATAGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
8 8 0.15
9 21 0.39
10 17 0.31
11 8 0.15
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAAAATTA
Found at i:36505801 original size:28 final size:27
Alignment explanation
Indices: 36505770--36505840 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 27
36505760 ATTAAAATAT
36505770 TAAAAAATTAAAAAAATTAAAAAAATTG
1 TAAAAAATTAAAAAAATT-AAAAAATTG
* * *
36505798 TAAAAAAATAAAAAAATTATAAAATTT
1 TAAAAAATTAAAAAAATTAAAAAATTG
36505825 TATAAAATATTAAAAA
1 TA-AAAA-ATTAAAAA
36505841 TATATAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 9 0.24
28 21 0.57
29 7 0.19
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (27 bp):
TAAAAAATTAAAAAAATTAAAAAATTG
Found at i:36505840 original size:36 final size:36
Alignment explanation
Indices: 36505757--36505868 Score: 111
Period size: 37 Copynumber: 3.1 Consensus size: 36
36505747 ATTAAATTTT
* * * * * *
36505757 AATATTAAAATATTAAAAAATTAAAAAAATTAAAAA
1 AATATTAAAAAATAAAAAAATTATAAAATTTTATAA
36505793 AAT-TGTAAAAAAATAAAAAAATTATAAAATTTTATAA
1 AATAT-T-AAAAAATAAAAAAATTATAAAATTTTATAA
* *
36505830 AATATTAAAAATATATAGAAA-TATAAAATTTTATAA
1 AATATTAAAAA-ATAAAAAAATTATAAAATTTTATAA
36505866 AAT
1 AAT
36505869 TTTATAAAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
35 1 0.02
36 27 0.42
37 35 0.55
38 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (36 bp):
AATATTAAAAAATAAAAAAATTATAAAATTTTATAA
Found at i:36505869 original size:10 final size:10
Alignment explanation
Indices: 36505814--36505876 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
36505804 AATAAAAAAA
36505814 TTATAAAATT
1 TTATAAAATT
*
36505824 TTATAAAATA
1 TTATAAAATT
36505834 TTA-AAAA-T
1 TTATAAAATT
*
36505842 ATATAGAAA--
1 TTATA-AAATT
36505851 -TATAAAATT
1 TTATAAAATT
36505860 TTATAAAATT
1 TTATAAAATT
36505870 TTATAAA
1 TTATAAA
36505877 GTTGTAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 3 0.07
8 6 0.13
9 5 0.11
10 31 0.69
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
TTATAAAATT
Found at i:36505982 original size:11 final size:11
Alignment explanation
Indices: 36505962--36505994 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
36505952 AGAAGCATTT
36505962 TATAATTTTTA
1 TATAATTTTTA
*
36505973 TATAAATTTTA
1 TATAATTTTTA
36505984 T-TAATTTTTA
1 TATAATTTTTA
36505994 T
1 T
36505995 TTTTTATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATAATTTTTA
Found at i:36506368 original size:87 final size:88
Alignment explanation
Indices: 36506236--36506435 Score: 264
Period size: 87 Copynumber: 2.3 Consensus size: 88
36506226 TTTTAATAAG
* * *
36506236 AGCAGGGGCTTAATTGC-TGTTTTGAAAATTTTGAGGCTTTTTTTGATGCATTTTGAAAGTTCAA
1 AGCAGGGGCTTAATTGCTTTTTTTGAAAATTTTGAGGCTCTTTTTGATGCATTTTAAAAGTTCAA
36506300 GTACCCAATTGAGTG-A-AAAAA
66 GTACCCAATTGAGTGAACAAAAA
* *
36506321 AGCAGGGACTTAATTGCTTTTTTTGAAGAATTTTGAGGGC-CTTTTTGATGCATTTTAAAAGTTG
1 AGCAGGGGCTTAATTGCTTTTTTTGAA-AATTTTGA-GGCTCTTTTTGATGCATTTTAAAAGTTC
* *
36506385 AAGTGCTCAATTGAGTGCAAACAAAAA
64 AAGTACCCAATTGAGTG--AACAAAAA
*
36506412 AGGAGGGGCTTAATTGCTTTTTTT
1 AGCAGGGGCTTAATTGCTTTTTTT
36506436 TTTTTTATGT
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
85 16 0.16
86 8 0.08
87 44 0.44
88 3 0.03
90 1 0.01
91 27 0.27
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.37
Consensus pattern (88 bp):
AGCAGGGGCTTAATTGCTTTTTTTGAAAATTTTGAGGCTCTTTTTGATGCATTTTAAAAGTTCAA
GTACCCAATTGAGTGAACAAAAA
Found at i:36512069 original size:18 final size:19
Alignment explanation
Indices: 36512046--36512081 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
36512036 CAAATGTTGA
36512046 GAAATGGAA-ATGAAATGT
1 GAAATGGAACATGAAATGT
36512064 GAAATGGAACATGAAATG
1 GAAATGGAACATGAAATG
36512082 GTGGATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.28, T:0.19
Consensus pattern (19 bp):
GAAATGGAACATGAAATGT
Found at i:36521722 original size:19 final size:18
Alignment explanation
Indices: 36521670--36521726 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 18
36521660 AAGGGGATGA
*
36521670 TTGAATA-TTTTTTATTT
1 TTGAATACTTTTTAATTT
*
36521687 TTGAAAACTTGTATTAATTT
1 TTGAATACTT-T-TTAATTT
36521707 TTGAATACTTCTTTAATTT
1 TTGAATACTT-TTTAATTT
36521726 T
1 T
36521727 AACTTTGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 9 0.27
20 16 0.48
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (18 bp):
TTGAATACTTTTTAATTT
Found at i:36522663 original size:32 final size:31
Alignment explanation
Indices: 36522618--36522713 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
36522608 CTTAGATAAT
36522618 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
36522649 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
36522681 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
36522712 TT
1 TT
36522714 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:36528291 original size:4 final size:4
Alignment explanation
Indices: 36528245--36528275 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
36528235 ATCTATCCTT
36528245 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
36528276 ACTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:36531373 original size:42 final size:42
Alignment explanation
Indices: 36531326--36531458 Score: 140
Period size: 42 Copynumber: 3.4 Consensus size: 42
36531316 ACCCCTTGGG
*
36531326 GGAATCAGCACTTAGAAACCCCCTTCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
* * * *
36531368 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAGT-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
*
36531401 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
*
36531443 GGAATCAGCACCTAGC
1 GGAATCAGCACTTAGC
36531459 TACCACCAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
33 17 0.24
34 5 0.07
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 5 0.07
42 31 0.44
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGT
Found at i:36531404 original size:102 final size:102
Alignment explanation
Indices: 36531225--36531422 Score: 306
Period size: 102 Copynumber: 1.9 Consensus size: 102
36531215 GTGATTCGGA
* * * *
36531225 GAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCA
1 GAATCAACACTTAGAAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCA
* * *
36531290 ATGAGTCTGGGAAACAGCACTTAGGAACCCCTTGGGG
66 ATGAGTCGGGGAAACAACACTTAGCAACCCCTTGGGG
* *
36531327 GAATCAGCACTTAGAAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCACCA
1 GAATCAACACTTAGAAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCA
*
36531392 ATGAGTCGGGGAATCAACACTTAGCAACCCC
66 ATGAGTCGGGGAAACAACACTTAGCAACCCC
36531423 CTTCACATTT
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 86 1.00
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (102 bp):
GAATCAACACTTAGAAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCA
ATGAGTCGGGGAAACAACACTTAGCAACCCCTTGGGG
Found at i:36531421 original size:75 final size:75
Alignment explanation
Indices: 36531324--36531497 Score: 294
Period size: 75 Copynumber: 2.3 Consensus size: 75
36531314 GAACCCCTTG
* *
36531324 GGGGAATCAGCACTTAGAAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
36531389 CCAATGAGTC
66 CCAATGAGTC
* *
36531399 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCTACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
*
36531464 CCAATGATTC
66 CCAATGAGTC
*
36531474 GAGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
36531498 TTGGGGGAAT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 92 1.00
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
CCAATGAGTC
Found at i:36531498 original size:177 final size:177
Alignment explanation
Indices: 36531189--36531527 Score: 518
Period size: 177 Copynumber: 1.9 Consensus size: 177
36531179 TCCGTTATCA
* * * *
36531189 GTGGATTCAGCACTTAGCAACCACCAGTGATTCGGAGAATCAACACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGAGTCGGAGAATCAACACTTAGCAACCCCCTTCACAT
* * * *
36531254 TTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGAGTCTGGGAAACAGCACTTAGGAACC
66 TTAAAATACGGTGGAATCAGCACCTAGCAACCACCAATGAGTCTGGGAAACAGCACTTAGCAACC
*
36531319 CCTTGGGGGAATCAGCACTTAGAAACCCCCTTCACATTTAAAATATG
131 CCTTGGGGGAATCAGAACTTAGAAACCCCCTTCACATTTAAAATATG
*
36531366 GTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCCTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGAGTCGGAGAATCAACACTTAGCAACCCCCTTCACAT
* * * *
36531431 TTAAAATATGGTGGAATCAGCACCTAGCTACCACCAATGATTC-GAGGAATCAGCACTTAGCAAC
66 TTAAAATACGGTGGAATCAGCACCTAGCAACCACCAATGAGTCTG-GGAAACAGCACTTAGCAAC
* *
36531495 CCCTTGGGGGAATCAGAACTTAGCAACTCCCTT
130 CCCTTGGGGGAATCAGAACTTAGAAACCCCCTT
36531528 TATATTCAAT
Statistics
Matches: 145, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 1 0.01
177 144 0.99
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (177 bp):
GTGGAATCAGCACTTAGCAACCACCAATGAGTCGGAGAATCAACACTTAGCAACCCCCTTCACAT
TTAAAATACGGTGGAATCAGCACCTAGCAACCACCAATGAGTCTGGGAAACAGCACTTAGCAACC
CCTTGGGGGAATCAGAACTTAGAAACCCCCTTCACATTTAAAATATG
Found at i:36538838 original size:33 final size:32
Alignment explanation
Indices: 36538791--36539071 Score: 108
Period size: 27 Copynumber: 8.5 Consensus size: 32
36538781 ATACGGTGGG
*
36538791 ATCAACACTTAGCAACCACCAATGAGTTGGGGA
1 ATCAGCACTTAGCAACCACCAATGA-TTGGGGA
36538824 ATCAGCACTTAGCAACC-CC-----TTGGGGAA
1 ATCAGCACTTAGCAACCACCAATGATTGGGG-A
* *
36538851 ATTAGCACTTAGCAACC-CC--T--TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTGGGGA
* * *
36538878 ATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAGCACTTAGCAA-CCAC--CA-A--T--GAT-TGG-GGA
* *
36538920 ATCAGCATTTAGCAACCACCAATGAGTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGA-TTGGGGA
* * *
36538953 ATCATCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGA
1 ATCAGCACTTAGCAA-CCAC--CA-A--T--GAT-TGG-GGA
*
36538995 ATCAGCACCTAGCAACCACCAATGATTCGGGGA
1 ATCAGCACTTAGCAACCACCAATGATT-GGGGA
*
36539028 ATCAGCACTTAGCAACC-CC--T--TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGATTGGGGA
*
36539055 ATCAACACTTAGCAACC
1 ATCAGCACTTAGCAACC
36539072 CCCTTTGTAT
Statistics
Matches: 199, Mismatches: 20, Indels: 64
0.70 0.07 0.23
Matches are distributed among these distances:
26 6 0.03
27 55 0.28
28 8 0.04
29 1 0.01
30 1 0.01
31 1 0.01
32 4 0.02
33 52 0.26
34 11 0.06
35 1 0.01
36 5 0.03
37 1 0.01
38 2 0.01
39 5 0.03
40 2 0.01
41 11 0.06
42 33 0.17
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (32 bp):
ATCAGCACTTAGCAACCACCAATGATTGGGGA
Found at i:36538861 original size:27 final size:26
Alignment explanation
Indices: 36538817--36538896 Score: 133
Period size: 27 Copynumber: 3.0 Consensus size: 26
36538807 CACCAATGAG
36538817 TTGGGGAATCAGCACTTAGCAACCCC
1 TTGGGGAATCAGCACTTAGCAACCCC
*
36538843 TTGGGGAAATTAGCACTTAGCAACCCC
1 TTGGGG-AATCAGCACTTAGCAACCCC
36538870 TTGGGGGAATCAGCACTTAGCAACCCC
1 TT-GGGGAATCAGCACTTAGCAACCCC
36538897 CTTCACATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
26 6 0.12
27 40 0.80
28 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.20
Consensus pattern (26 bp):
TTGGGGAATCAGCACTTAGCAACCCC
Found at i:36538934 original size:42 final size:42
Alignment explanation
Indices: 36538875--36539011 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 42
36538865 ACCCCTTGGG
36538875 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
* * * *
36538917 GGAATCAGCATTTAGCAA-CCAC--CA-A--T-GAGT-CGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
* *
36538950 GGAATCATCACTTAGCAACCCCCTTCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
*
36538992 GGAATCAGCACCTAGCAACC
1 GGAATCAGCACTTAGCAACC
36539012 ACCAATGATT
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
33 16 0.22
34 6 0.08
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 5 0.07
42 35 0.47
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
Found at i:36538976 original size:75 final size:75
Alignment explanation
Indices: 36538873--36539046 Score: 303
Period size: 75 Copynumber: 2.3 Consensus size: 75
36538863 CAACCCCTTG
**
36538873 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCATTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCA
36538938 CCAATGAGTC
66 CCAATGAGTC
* *
36538948 GGGGAATCATCACTTAGCAACCCCCTTCACATTTAAAATATGGTGGAATCAGCACCTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCA
*
36539013 CCAATGATTC
66 CCAATGAGTC
36539023 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
36539047 TTGGGGGAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 93 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (75 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACCTAGCAACCA
CCAATGAGTC
Found at i:36567782 original size:19 final size:18
Alignment explanation
Indices: 36567744--36567782 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
36567734 TATTACACAA
*
36567744 TTCAATTTCACATTAAAT
1 TTCAATTTCACACTAAAT
*
36567762 TTCAATTTTCACACTATAT
1 TTCAA-TTTCACACTAAAT
36567781 TT
1 TT
36567783 TACTTATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (18 bp):
TTCAATTTCACACTAAAT
Found at i:36568278 original size:9 final size:9
Alignment explanation
Indices: 36568260--36568314 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
36568250 TCTTTATTAT
*
36568260 TATAACATA
1 TATAATATA
36568269 TATAATATA
1 TATAATATA
36568278 TATAATA-A
1 TATAATATA
*
36568286 GT-TAACATA
1 -TATAATATA
36568295 -ATATATATA
1 TATA-ATATA
36568304 TATAATATA
1 TATAATATA
36568313 TA
1 TA
36568315 CACATGTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
8 7 0.18
9 28 0.74
10 3 0.08
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (9 bp):
TATAATATA
Found at i:36568319 original size:26 final size:25
Alignment explanation
Indices: 36568260--36568319 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 25
36568250 TCTTTATTAT
36568260 TATAACATATATAATATATATAATA
1 TATAACATATATAATATATATAATA
36568285 -AGTTAACATA-ATATATATATATAATA
1 TA--TAACATATATA-ATATATATAATA
36568311 TATACACAT
1 TATA-ACAT
36568320 GTCATAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
24 1 0.03
25 5 0.17
26 23 0.77
27 1 0.03
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (25 bp):
TATAACATATATAATATATATAATA
Found at i:36569822 original size:22 final size:22
Alignment explanation
Indices: 36569797--36569844 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
36569787 GTAATGAACG
*
36569797 AAAAAGGAGTAGAGAAAA-GAAA
1 AAAAAGGAGTA-AAAAAATGAAA
* *
36569819 AAAATGGTGTAAAAAAATGAAA
1 AAAAAGGAGTAAAAAAATGAAA
36569841 AAAA
1 AAAA
36569845 TGAGGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAAAGGAGTAAAAAAATGAAA
Found at i:36570996 original size:27 final size:27
Alignment explanation
Indices: 36570848--36571017 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
36570838 ACCACATAGA
* * *
36570848 CTATTCTTTCAGAATTCGCCATAAAGG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* *
36570875 CCATTCTTTCAAAGTTCACCAAAAAGG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* * *
36570902 CTATTCTTTCAGAGTTCGCCACAACGG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* *
36570929 CTATTCTTTCAAAGTTCACCAAAAACG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* *
36570956 CTATTATTTCAGAGTTCACCAAAAATG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
* * *
36570983 CTATTCTTTTAGAGCTCACCAGAAAGG
1 CTATTCTTTCAGAGTTCACCAAAAAGG
*
36571010 TTATTCTT
1 CTATTCTT
36571018 AGTTGTCGTG
Statistics
Matches: 119, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (27 bp):
CTATTCTTTCAGAGTTCACCAAAAAGG
Found at i:36573928 original size:19 final size:20
Alignment explanation
Indices: 36573893--36573931 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
36573883 AGAATTTCAT
36573893 AACTTAAGATAACATAAAAA
1 AACTTAAGATAACATAAAAA
36573913 AACTT-AGATTAA-ATAAAAA
1 AACTTAAGA-TAACATAAAAA
36573932 TCATGCTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (20 bp):
AACTTAAGATAACATAAAAA
Found at i:36574075 original size:27 final size:27
Alignment explanation
Indices: 36574037--36574088 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
36574027 GAAAAAAAGT
36574037 TAAAATTCATGCAAATATTCCCTTAAA
1 TAAAATTCATGCAAATATTCCCTTAAA
* * *
36574064 TAAATTTCATGCTAATATTGCCTTA
1 TAAAATTCATGCAAATATTCCCTTA
36574089 CCCCCACCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (27 bp):
TAAAATTCATGCAAATATTCCCTTAAA
Found at i:36577902 original size:14 final size:13
Alignment explanation
Indices: 36577869--36577910 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
36577859 ATCTGAAAAG
36577869 AAAATAAAAAA-A
1 AAAATAAAAAATA
*
36577881 AAACTAAAAAATA
1 AAAATAAAAAATA
*
36577894 AAGAATAAAGAATA
1 AA-AATAAAAAATA
36577908 AAA
1 AAA
36577911 TAAGAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 10 0.40
13 4 0.16
14 11 0.44
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:36581761 original size:27 final size:27
Alignment explanation
Indices: 36581672--36581823 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
36581662 ATAAAACACA
* * *
36581672 CCACAAAGACTATTCTTTTAGAGTTTG
1 CCACAAAGGCTATTCTTTCAGAGTTCG
* ** * **
36581699 CAACAAATACTATTCTTTTAGAGTTTA
1 CCACAAAGGCTATTCTTTCAGAGTTCG
*
36581726 CCAAAAAGGCTATTCTTTCAGAGTTCG
1 CCACAAAGGCTATTCTTTCAGAGTTCG
* * * *
36581753 CCACCAAGGCTATTTTTTCAGTGTTCA
1 CCACAAAGGCTATTCTTTCAGAGTTCG
* *
36581780 CCACAAAGGCTAATCTATCAGAGTTCG
1 CCACAAAGGCTATTCTTTCAGAGTTCG
36581807 CCACAAAGGCTATTCTT
1 CCACAAAGGCTATTCTT
36581824 AGCTGTCGTG
Statistics
Matches: 102, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (27 bp):
CCACAAAGGCTATTCTTTCAGAGTTCG
Found at i:36581766 original size:54 final size:55
Alignment explanation
Indices: 36581670--36581823 Score: 186
Period size: 54 Copynumber: 2.8 Consensus size: 55
36581660 ATATAAAACA
* * * * **
36581670 CACCACAAAGACTATTCTTTTAGAGTTTGCAACAAATACTATTCTTTT-AGAGTT
1 CACCACAAAGGCTATTCTTTCAGAGTTCGCCACAAAGGCTATTCTTTTCAGAGTT
* * * *
36581724 TACCAAAAAGGCTATTCTTTCAGAGTTCGCCACCAAGGCTATT-TTTTCAGTGTT
1 CACCACAAAGGCTATTCTTTCAGAGTTCGCCACAAAGGCTATTCTTTTCAGAGTT
* *
36581778 CACCACAAAGGCTAATCTATCAGAGTTCGCCACAAAGGCTATTCTT
1 CACCACAAAGGCTATTCTTTCAGAGTTCGCCACAAAGGCTATTCTT
36581824 AGCTGTCGTG
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.05
54 77 0.93
55 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (55 bp):
CACCACAAAGGCTATTCTTTCAGAGTTCGCCACAAAGGCTATTCTTTTCAGAGTT
Found at i:36584230 original size:10 final size:10
Alignment explanation
Indices: 36584197--36584231 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
36584187 ACTTGTATAC
36584197 TTTTTATTTA
1 TTTTTATTTA
*
36584207 TTCTTATTTCA
1 TTTTTATTT-A
36584218 TTTTTATTTA
1 TTTTTATTTA
36584228 TTTT
1 TTTT
36584232 CATGTCTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:36588461 original size:4 final size:4
Alignment explanation
Indices: 36588452--36588493 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
36588442 GTGCCCTAAT
* * *
36588452 TTCA TTCA TTCA TTCA TCCA TTCA TTCA CTCA TTCG TTCA TT
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TT
36588494 TGTTTATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (4 bp):
TTCA
Found at i:36596679 original size:42 final size:42
Alignment explanation
Indices: 36596469--36596720 Score: 294
Period size: 42 Copynumber: 6.1 Consensus size: 42
36596459 AAGGAAAACA
* * *
36596469 TTCATTACATTTAGAGGCCCAGGTGTCGAGCTCCATTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
36596511 TTCATTGCATTTAGAGGCTCAAGTGTGGAGGTCCATTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
36596553 TTCATTGCATTTAGAGTCCCAGGTGCGGAGGTCCATTCACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* *
36596595 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTCACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* ***
36596637 TTCATTACATTTAGAGACCCAAGTGTGGAGGTTTGTTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
36596679 TTC--TA-GTTTAAAGACCCAGGTGTGGAGGCCCGTTTACTT
1 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
36596718 TTC
1 TTC
36596721 TAGTTTACCT
Statistics
Matches: 186, Mismatches: 24, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
39 31 0.17
40 2 0.01
42 153 0.82
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TTCATTACATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
Found at i:36597651 original size:140 final size:142
Alignment explanation
Indices: 36597418--36597687 Score: 379
Period size: 140 Copynumber: 1.9 Consensus size: 142
36597408 TAGTTATTAT
* * *
36597418 AAAGAAAAGTTTAAATTTTTAAAACAAAATTTTGATTTTTTTTCAACTATTTCAAAGTAAAAGCT
1 AAAGAAAAGTTTAAAATTTTAAAACAAAAATTTGA-TTTTTTT--A-TATTTCAAAATAAAAGCT
* *
36597483 TTAATCTTTAAGAAAAATAGTGTTTTTTTTTAAA-AA-GAGAAAGTTTAGATTTTGAAAGATAAA
62 TTAATCTTTAAGAAAAATAGTG--TTTTTTTAAAGAATGAAAAAGTTTAGATTTTGAAAAATAAA
36597546 AAAAAAAGTAGTCATTTG
125 AAAAAAAGTAGTCATTTG
*
36597564 AAAGGAAAGTTTAAAATTTTAAAACAAAAATTTGA-TTTTTT-T-TTTCAAAAATAAAAGCTTTA
1 AAAGAAAAGTTTAAAATTTTAAAACAAAAATTTGATTTTTTTATATTTC-AAAATAAAAGCTTTA
*
36597626 ATTTTTAAGAAAAATAGTGTTTTTTTAAAGAATGAAAAAGTTTAGATTTTGAAAAATAAAAA
65 ATCTTTAAGAAAAATAGTGTTTTTTTAAAGAATGAAAAAGTTTAGATTTTGAAAAATAAAAA
36597688 TATGTTTTTT
Statistics
Matches: 114, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
138 10 0.09
139 6 0.05
140 60 0.53
144 6 0.05
146 32 0.28
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (142 bp):
AAAGAAAAGTTTAAAATTTTAAAACAAAAATTTGATTTTTTTATATTTCAAAATAAAAGCTTTAA
TCTTTAAGAAAAATAGTGTTTTTTTAAAGAATGAAAAAGTTTAGATTTTGAAAAATAAAAAAAAA
AGTAGTCATTTG
Found at i:36598393 original size:21 final size:22
Alignment explanation
Indices: 36598369--36598421 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
36598359 CACTTGTATA
36598369 ATTTTTATTTATTCTT-AT-TTC
1 ATTTTTATTTATT-TTCATGTTC
*
36598390 ATTTTTATTTATTTTCATGTTT
1 ATTTTTATTTATTTTCATGTTC
36598412 ATTTTTATTT
1 ATTTTTATTT
36598422 TTTACACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 2 0.07
21 15 0.52
22 12 0.41
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (22 bp):
ATTTTTATTTATTTTCATGTTC
Found at i:36603228 original size:25 final size:25
Alignment explanation
Indices: 36603182--36603229 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36603172 ATTTATTGTC
**
36603182 TTTAGTTTTTATTTCTTTTTAGATG
1 TTTAGTTTTTATTTCTAGTTAGATG
36603207 TTTA-TTTTTATTTCCTAGTTAGA
1 TTTAGTTTTTATTT-CTAGTTAGA
36603230 ATTTTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (25 bp):
TTTAGTTTTTATTTCTAGTTAGATG
Found at i:36604126 original size:32 final size:32
Alignment explanation
Indices: 36604082--36604142 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
36604072 AAAGCACATA
*
36604082 AAAGATTGCTCAAATTCTCAAAAATAAAGAGT
1 AAAGATTGCTCAAAGTCTCAAAAATAAAGAGT
* * *
36604114 AAAGTTTGCTCAAAGTCTGAAAAGTAAAG
1 AAAGATTGCTCAAAGTCTCAAAAATAAAG
36604143 GTTGAACATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (32 bp):
AAAGATTGCTCAAAGTCTCAAAAATAAAGAGT
Found at i:36612402 original size:20 final size:20
Alignment explanation
Indices: 36612379--36612482 Score: 84
Period size: 20 Copynumber: 5.2 Consensus size: 20
36612369 ACTTCAATGT
36612379 CTCTGTTTGCACTTTGGTGC
1 CTCTGTTTGCACTTTGGTGC
* * *
36612399 CTCTGTATACACTTCGGTGTC
1 CTCTGTTTGCACTTTGGTG-C
**
36612420 C-CTGTTTGCACTACGGTGC
1 CTCTGTTTGCACTTTGGTGC
* * ** *
36612439 CTCTGCTTGCTCAATCGTGC
1 CTCTGTTTGCACTTTGGTGC
* *
36612459 CTCTATTTGCACTTTAGTGC
1 CTCTGTTTGCACTTTGGTGC
36612479 CTCT
1 CTCT
36612483 ATTAGCATAT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
19 2 0.03
20 61 0.94
21 2 0.03
ACGTcount: A:0.11, C:0.30, G:0.20, T:0.39
Consensus pattern (20 bp):
CTCTGTTTGCACTTTGGTGC
Found at i:36612441 original size:40 final size:40
Alignment explanation
Indices: 36612353--36612443 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
36612343 ATTTGTAGTT
* * *
36612353 CGGTGCCTATGTATACACTTCAATGTCTCTGTTTGCACTT
1 CGGTGCCTCTGTATACACTTCAATGTCCCTGTTTGCACTA
* **
36612393 TGGTGCCTCTGTATACACTTCGGTGTCCCTGTTTGCACTA
1 CGGTGCCTCTGTATACACTTCAATGTCCCTGTTTGCACTA
36612433 CGGTGCCTCTG
1 CGGTGCCTCTG
36612444 CTTGCTCAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.13, C:0.27, G:0.22, T:0.37
Consensus pattern (40 bp):
CGGTGCCTCTGTATACACTTCAATGTCCCTGTTTGCACTA
Found at i:36613956 original size:50 final size:50
Alignment explanation
Indices: 36613844--36614084 Score: 356
Period size: 50 Copynumber: 4.8 Consensus size: 50
36613834 TAATAACATA
* * ** *
36613844 CCAAAGCCATGCCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTG
*** ** *
36613895 CCCGTGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
*
36613945 CCAACGCCATGTCCCAGACACGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
36613995 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
*
36614045 CCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36614085 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 142 0.83
51 29 0.17
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:36614456 original size:30 final size:29
Alignment explanation
Indices: 36614422--36614494 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
36614412 CCTCGATTCT
36614422 AACTTTAGCAAAATTACAATTTTGCCCCTA
1 AACTTTAGCAAAATTACAATTTTGCCCC-A
* *
36614452 AACTTTTA-CATAATTACACTTTTGCCCCA
1 AAC-TTTAGCAAAATTACAATTTTGCCCCA
*
36614481 AAGTTT-G-AAAATTA
1 AACTTTAGCAAAATTA
36614495 AACTTCATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
27 6 0.16
28 3 0.08
29 3 0.08
30 21 0.57
31 4 0.11
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.36
Consensus pattern (29 bp):
AACTTTAGCAAAATTACAATTTTGCCCCA
Found at i:36617011 original size:6 final size:6
Alignment explanation
Indices: 36617002--36617030 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
36616992 AAAACCCAAC
36617002 TTAAAA TTAAAA TTAAAA TTAAAA -TAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
36617031 GCAAGCGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TTAAAA
Found at i:36617249 original size:33 final size:33
Alignment explanation
Indices: 36617193--36617287 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 33
36617183 AGTATTAGTC
* * *
36617193 TGAGCCTAAGCCCTATACTGTAACAGTACAGTG
1 TGAGCCTTAGCCCAATACAGTAACAGTACAGTG
*
36617226 TGAGCCTTAGCCCAAAACAGTAAC---A-A-TG
1 TGAGCCTTAGCCCAATACAGTAACAGTACAGTG
* *
36617254 TGGGCCTTAGCCCAATATAGTAACCAGTACAGTG
1 TGAGCCTTAGCCCAATACAGTAA-CAGTACAGTG
36617288 CAACAATGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
28 22 0.45
29 2 0.04
30 1 0.02
32 1 0.02
33 21 0.43
34 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (33 bp):
TGAGCCTTAGCCCAATACAGTAACAGTACAGTG
Found at i:36617679 original size:27 final size:27
Alignment explanation
Indices: 36617629--36618044 Score: 353
Period size: 27 Copynumber: 15.4 Consensus size: 27
36617619 GGGTATAACA
* * *
36617629 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTTTAGGGGTATTTCG
*
36617656 GTCATTTTACCCTTTAGGGCTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * * *
36617683 ATCATTTTACCC-TTCGAGGTTATTTCA
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * *
36617710 GCCATTTTA-CCTTTCGAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* *
36617737 GTCATTTTACCCTTCAAGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
**
36617764 ACCATTTTACCCTTTAGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * ***
36617791 ATCATTTTACACTCCGGGGGTA-TTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* **
36617817 GTCATTTTA-CCTTTTGAGGGTATTTTA
1 GTCATTTTACCCTTTAG-GGGTATTTCG
**
36617844 GTCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
36617871 GTCATTTTA-TCTTTCGAGGGTATTTCG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * *
36617898 ATCATTTTACCCTTCGAGGGGTATTTCA
1 GTCATTTTACCCTT-TAGGGGTATTTCG
* **
36617926 GTCATTTTAGCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
*
36617953 GTCATTTTA-CCTTTCGGGGGTATTTCG
1 GTCATTTTACCCTTT-AGGGGTATTTCG
* ***
36617980 ATCATTTTACCCTACGGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
36618007 GTCATTTTACCCTCT-GAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
36618034 GTCA-TTTACCC
1 GTCATTTTACCC
36618045 ACGAAATGCA
Statistics
Matches: 316, Mismatches: 61, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.01
26 37 0.12
27 240 0.76
28 35 0.11
29 1 0.00
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTTTAGGGGTATTTCG
Found at i:36625436 original size:20 final size:21
Alignment explanation
Indices: 36625391--36625446 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
36625381 CAAGCTGACT
*
36625391 TTAGCTCAATTCCAGCTCCACA
1 TTAGCTC-ATTTCAGCTCCACA
36625413 --AGCTCATTTCAGCTCCA-A
1 TTAGCTCATTTCAGCTCCACA
*
36625431 TTAGCTCATTTGAGCT
1 TTAGCTCATTTCAGCT
36625447 TAAATCAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 11 0.37
20 18 0.60
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (21 bp):
TTAGCTCATTTCAGCTCCACA
Found at i:36625456 original size:20 final size:20
Alignment explanation
Indices: 36625413--36625469 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
36625403 CAGCTCCACA
* *
36625413 AGCTCATTTCAGCTCCAATT
1 AGCTCATTTCAGCTCAAATC
* *
36625433 AGCTCATTTGAGCTTAAATC
1 AGCTCATTTCAGCTCAAATC
* *
36625453 AGCTCGTTTAAGCTCAA
1 AGCTCATTTCAGCTCAA
36625470 CCTAAACTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (20 bp):
AGCTCATTTCAGCTCAAATC
Found at i:36633839 original size:24 final size:23
Alignment explanation
Indices: 36633811--36633867 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
36633801 AAAGTCGAGA
*
36633811 GAAAATTAACAAGAGAAA-AATAAT
1 GAAAATGAACAAGA-AAAGAA-AAT
*
36633835 GAAAAAGAACAAGAAAAGGAAAAT
1 GAAAATGAACAAGAAAA-GAAAAT
36633859 GAAAATGAA
1 GAAAATGAA
36633868 AAAAATTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 3 0.11
24 23 0.82
25 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.18, T:0.11
Consensus pattern (23 bp):
GAAAATGAACAAGAAAAGAAAAT
Found at i:36639174 original size:303 final size:303
Alignment explanation
Indices: 36638627--36639237 Score: 1186
Period size: 303 Copynumber: 2.0 Consensus size: 303
36638617 AAATCAATGG
*
36638627 TGATATACAAACTTTCAAGTGTGGTCACCAACTGAGTGGGAAAGGTAAGAGGAAGTCAGGGGAGA
1 TGATATACAAACTTTCAAATGTGGTCACCAACTGAGTGGGAAAGGTAAGAGGAAGTCAGGGGAGA
36638692 ATTGTAAGGAATTATTTATTTCTAACCCTCCCGAATCAAGAGAAATACTTCCTTTAATCCATGCA
66 ATTGTAAGGAATTATTTATTTCTAACCCTCCCGAATCAAGAGAAATACTTCCTTTAATCCATGCA
*
36638757 GGTCAAAAAATAGGTGCAAGGAAAGAGGTAAGCAGAAGAAGGTGGAATGGTCCGACGGGCGATGG
131 GGTCAAAAAATAGGTGCAAGGAAAGAGGTAAGCAGAAGAAGGTAGAATGGTCCGACGGGCGATGG
36638822 ACCAACACTGACAGAACCAGAGAATCATGTTAAACTAAGCCTTATTGGATAATATATTTTGATAT
196 ACCAACACTGACAGAACCAGAGAATCATGTTAAACTAAGCCTTATTGGATAATATATTTTGATAT
*
36638887 AACAAATTAAAGTATTTTTGAATAAAAGTAACGTTGAGCAATT
261 AACAAATTAAAGTATTTTTGAATAAAAGTAACGTTGAACAATT
36638930 TGATATACAAACTTTCAAATGTGGTCACCAACTGAGTGGGAAAGGTAAGAGGAAGTCAGGGGAGA
1 TGATATACAAACTTTCAAATGTGGTCACCAACTGAGTGGGAAAGGTAAGAGGAAGTCAGGGGAGA
36638995 ATTGTAAGGAATTATTTATTTCTAACCCTCCCGAATCAAGAGAAATACTTCCTTTAATCCATGCA
66 ATTGTAAGGAATTATTTATTTCTAACCCTCCCGAATCAAGAGAAATACTTCCTTTAATCCATGCA
36639060 GGTCAAAAAATAGGTGCAAGGAAAGAGGTAAGCAGAAGAAGGTAGAATGGTCCGACGGGCGATGG
131 GGTCAAAAAATAGGTGCAAGGAAAGAGGTAAGCAGAAGAAGGTAGAATGGTCCGACGGGCGATGG
36639125 ACCAACACTGACAGAACCAGAGAATCATGTTAAACTAAGCCTTATTGGATAATATATTTTGATAT
196 ACCAACACTGACAGAACCAGAGAATCATGTTAAACTAAGCCTTATTGGATAATATATTTTGATAT
*
36639190 AACAAATTAAAGTATTTTTTAATAAAAGTAACGTTGAACAATT
261 AACAAATTAAAGTATTTTTGAATAAAAGTAACGTTGAACAATT
36639233 TGATA
1 TGATA
36639238 AAATCAAGTT
Statistics
Matches: 304, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
303 304 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (303 bp):
TGATATACAAACTTTCAAATGTGGTCACCAACTGAGTGGGAAAGGTAAGAGGAAGTCAGGGGAGA
ATTGTAAGGAATTATTTATTTCTAACCCTCCCGAATCAAGAGAAATACTTCCTTTAATCCATGCA
GGTCAAAAAATAGGTGCAAGGAAAGAGGTAAGCAGAAGAAGGTAGAATGGTCCGACGGGCGATGG
ACCAACACTGACAGAACCAGAGAATCATGTTAAACTAAGCCTTATTGGATAATATATTTTGATAT
AACAAATTAAAGTATTTTTGAATAAAAGTAACGTTGAACAATT
Found at i:36640355 original size:21 final size:21
Alignment explanation
Indices: 36640326--36640376 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
36640316 CAGAGCTTGC
*
36640326 GTCGTAACACAATAACCCTAT
1 GTCGCAACACAATAACCCTAT
* *
36640347 GTCGCAACACAGTAACCCTGT
1 GTCGCAACACAATAACCCTAT
36640368 GTCGCAACA
1 GTCGCAACA
36640377 TCAAAGGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (21 bp):
GTCGCAACACAATAACCCTAT
Found at i:36657710 original size:24 final size:25
Alignment explanation
Indices: 36657650--36657712 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
36657640 ACACACCACA
* **
36657650 GCTCTTATGAGCATCCCGATATATG
1 GCTCTTATGAGCTTCAAGATATATG
*
36657675 GCTCTCCA-GAGCTTCAAGA-ATATG
1 GCTCT-TATGAGCTTCAAGATATATG
36657699 GCTCTTATGAGCTT
1 GCTCTTATGAGCTT
36657713 TTCGTTATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 16 0.52
25 13 0.42
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (25 bp):
GCTCTTATGAGCTTCAAGATATATG
Found at i:36657727 original size:25 final size:25
Alignment explanation
Indices: 36657694--36657806 Score: 84
Period size: 27 Copynumber: 4.4 Consensus size: 25
36657684 AGCTTCAAGA
** **
36657694 ATATGGCTCTTATGAGCTTTTCGTT
1 ATATGGCTCACATGAGCTTCCCGTT
36657719 ATATGGCTCACATGAGCTTCCCGTT
1 ATATGGCTCACATGAGCTTCCCGTT
* * *
36657744 ATATGGCTTGAAAGAGAGCTTCCCGTT
1 ATATGGC-TCACA-TGAGCTTCCCGTT
* * *
36657771 GTATGGCTCGAAAGAGAGCTTCCCGTT
1 ATATGGCTC-ACA-TGAGCTTCCCGTT
36657798 -TATGTGCTC
1 ATATG-GCTC
36657807 GTATTAGCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
25 28 0.37
26 8 0.11
27 39 0.52
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (25 bp):
ATATGGCTCACATGAGCTTCCCGTT
Found at i:36657770 original size:27 final size:26
Alignment explanation
Indices: 36657732--36657807 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 26
36657722 TGGCTCACAT
*
36657732 GAGCTTCCCGTTATATGGCTTGAAAGA
1 GAGCTTCCCGTT-TATGGCTCGAAAGA
36657759 GAGCTTCCCGTTGTATGGCTCGAAAGA
1 GAGCTTCCCGTT-TATGGCTCGAAAGA
36657786 GAGCTTCCCGTTTATGTGCTCG
1 GAGCTTCCCGTTTATG-GCTCG
36657808 TATTAGCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.09
27 42 0.91
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (26 bp):
GAGCTTCCCGTTTATGGCTCGAAAGA
Found at i:36660265 original size:15 final size:16
Alignment explanation
Indices: 36660245--36660277 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36660235 ACATATAACC
36660245 ATATATT-TATTACAA
1 ATATATTATATTACAA
*
36660260 ATATATTATATTTCAA
1 ATATATTATATTACAA
36660276 AT
1 AT
36660278 TATGTTTGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATTATATTACAA
Found at i:36662945 original size:46 final size:46
Alignment explanation
Indices: 36662893--36662982 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
36662883 GAAGGAAATA
* *
36662893 AAAACCTAATATAATAGAGAAAATAAGTAAAACTAAAACTCTTAAT
1 AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTCTTAAT
* *
36662939 AAAACCTGATATAGTAAAGAAAATAAATAAAACTAAAACTCTTA
1 AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTCTTA
36662983 TTGCAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (46 bp):
AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAACTCTTAAT
Found at i:36675280 original size:74 final size:75
Alignment explanation
Indices: 36675140--36675308 Score: 277
Period size: 74 Copynumber: 2.3 Consensus size: 75
36675130 AAGGAAAACC
* * *
36675140 ATGATTATTCTCTTATTAATAGAGAAGGCAAATGGAAATTTAGAAAAATGAATTATATTCTTTCC
1 ATGATTATTCCCTTATTAATAGAGAAGGAAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
36675205 AAAAGAATAT
66 AAAAGAATAT
*
36675215 ATGATTATTCCCTTTTTAATAGAGAAGGAAAAT-GAAAGTTAGAAAAATGAATTATATTCTTTCC
1 ATGATTATTCCCTTATTAATAGAGAAGGAAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
*
36675279 AAAAGGATAT
66 AAAAGAATAT
*
36675289 AAGATTATTCCCTTATTAAT
1 ATGATTATTCCCTTATTAAT
36675309 TTTGTAAAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
74 57 0.66
75 30 0.34
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (75 bp):
ATGATTATTCCCTTATTAATAGAGAAGGAAAATGGAAAGTTAGAAAAATGAATTATATTCTTTCC
AAAAGAATAT
Found at i:36682573 original size:12 final size:12
Alignment explanation
Indices: 36682550--36682583 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
36682540 TATATATTTT
36682550 AAAATT-ATATA
1 AAAATTAATATA
36682561 AAAATTAATATA
1 AAAATTAATATA
36682573 AAAATTAATAT
1 AAAATTAATAT
36682584 GGGCAGGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:36685131 original size:50 final size:50
Alignment explanation
Indices: 36685023--36685270 Score: 241
Period size: 50 Copynumber: 4.9 Consensus size: 50
36685013 ATTTGGGTAA
* *
36685023 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGAGGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
* *
36685079 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
36685129 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
36685179 AGA-ACTCCCATGTAAGACCATATCTGGGATATGTCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * * *
36685228 AAACATCCTATGTAAGACCATGTCTGGGACATGGCTTTGGCAC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
36685271 GTTATTATCA
Statistics
Matches: 164, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
49 37 0.23
50 84 0.51
52 1 0.01
53 2 0.01
55 1 0.01
56 39 0.24
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:36686880 original size:69 final size:69
Alignment explanation
Indices: 36686764--36686899 Score: 218
Period size: 69 Copynumber: 2.0 Consensus size: 69
36686754 ACTAAAATAG
36686764 AATCCATTAATTATCACTTTGTTTCTCTAGATAACAATGTATCAGCTCTTCTAGATCCTTGTACC
1 AATCCATTAATTATCACTTTGTTTCTCTAGATAACAATGTATCAGCTCTTCTAGATCCTTGTACC
36686829 ACAT
66 ACAT
* * * * * *
36686833 AATCCATTAATTATCACTTTGTTTCTTTGGATAATAATGTATTAGCTCTTTTGGATCCTTGTACC
1 AATCCATTAATTATCACTTTGTTTCTCTAGATAACAATGTATCAGCTCTTCTAGATCCTTGTACC
36686898 AC
66 AC
36686900 GAAAGATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (69 bp):
AATCCATTAATTATCACTTTGTTTCTCTAGATAACAATGTATCAGCTCTTCTAGATCCTTGTACC
ACAT
Found at i:36690783 original size:44 final size:44
Alignment explanation
Indices: 36690760--36690975 Score: 123
Period size: 44 Copynumber: 4.7 Consensus size: 44
36690750 ATTTTAATTC
* *
36690760 GCTCCACTGTAATCTCAGTGAGATAGGATTATTAGATTCAATCT
1 GCTCCACTGTAATCTCAGAGAGATAAGATTATTAGATTCAATCT
* * * *
36690804 GCTCCGCTGTAATCTCAGGGAGATAAGATT-TCTGGCTTCAATCTGAT
1 GCTCCACTGTAATCTCAGAGAGATAAGATTAT-TAGATTCAATC---T
* ** * * * *
36690851 GCGATCTACTCTACTGTAA-CTTCAAAGAGATAAGATCCTCCA-TTTTAATCC
1 --G--CT-C-C-ACTGTAATC-TCAGAGAGATAAGATTAT-TAGATTCAATCT
* * * *
36690902 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGAGAGATAAGATTATTAGATTCAATCT
* *
36690946 GCTCCGCTGTAATCTCAGGGAGATAAGATT
1 GCTCCACTGTAATCTCAGAGAGATAAGATT
36690976 TCTAGCTTCC
Statistics
Matches: 131, Mismatches: 26, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
43 2 0.02
44 89 0.68
45 2 0.02
46 1 0.01
47 3 0.02
49 2 0.02
51 2 0.02
52 1 0.01
53 2 0.02
54 25 0.19
55 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGAGAGATAAGATTATTAGATTCAATCT
Found at i:36690960 original size:142 final size:142
Alignment explanation
Indices: 36690704--36691409 Score: 1216
Period size: 142 Copynumber: 5.0 Consensus size: 142
36690694 GAGATAAGAC
** ** *
36690704 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACTG
1 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTCCATTTTAATCCGCTCCACTG
* * *
36690769 TAATCTCAGTGAGATAGGATTATTAGATTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
36690834 TCTGGCTTCAAT
131 TCTGGCTTCCAT
* *
36690846 CTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTCCATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTCCATTTTAATCCGCTCCACTG
36690911 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
36690976 TCTAGCTTCCAT
131 TCTGGCTTCCAT
*
36690988 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTCCATTTTAATCCGTTCCACTG
1 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTCCATTTTAATCCGCTCCACTG
* *
36691053 TAATCTCAGGGGGATAGGATTACTAGCTTCAATCTGTTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
36691118 TCTGGCTTCCAT
131 TCTGGCTTCCAT
36691130 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTCCATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTCCATTTTAATCCGCTCCACTG
36691195 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATC-CTAGGGAGATAAGAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTC-AGGGAGATAAGAT
36691259 TTCTGGCTTCCAT
130 TTCTGGCTTCCAT
*
36691272 CTGATGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTCCATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTCCATTTTAATCCGCTCCACTG
* * *
36691337 TAATATCAGGGAGATAGGATTGCTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
36691402 TGTGGCTT
131 TCTGGCTT
36691410 AAATCTACTT
Statistics
Matches: 538, Mismatches: 24, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 1 0.00
142 536 1.00
143 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (142 bp):
CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTCCATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCCAT
Found at i:36690981 original size:44 final size:44
Alignment explanation
Indices: 36690897--36691399 Score: 237
Period size: 44 Copynumber: 10.8 Consensus size: 44
36690887 CCTCCATTTT
* * * *
36690897 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
36690941 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* * * * * * *
36690985 CATCTGATGCGATCTACTCTATTGTAA-CTTCAGAGAGATAAGATCCTCCA-TTTT
1 AATC---TGC--TC--CGC---TGTAATC-TCAGGGAGATAAGAT-TTCTAGCTTC
* * * * * *
36691039 AATCCGTTCCACTGTAATCTCAGGGGGATAGGATTACTAGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* *
36691083 AATCTGTTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
* * * * * * *
36691127 CATCTGATGCGATCTACTCTATTGTAA-CTTCAGAGAGATAAGATCCTCCA-TTTT
1 AATC---TGC--TC--CGC---TGTAATC-TCAGGGAGATAAGAT-TTCTAGCTTC
* * * *
36691181 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
*
36691225 AATCTGCTCCGCTGTAATC-CTAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCGCTGTAATCTC-AGGGAGATAAGATTTCTAGCTTC
* * * * * * *
36691269 CATCTGATGCGATCTACTCTGTTGTAA-CTTCAGAGAGATAAGATCCTCCA-TTTT
1 AATC---T--G--CT-C-C-GCTGTAATC-TCAGGGAGATAAGAT-TTCTAGCTTC
* * * * *
36691323 AATCCGCTCCACTGTAATATCAGGGAGATAGGATTGCTAGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
36691367 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
36691400 CTTGTGGCTT
Statistics
Matches: 338, Mismatches: 77, Indels: 88
0.67 0.15 0.17
Matches are distributed among these distances:
43 7 0.02
44 212 0.63
45 3 0.01
46 1 0.00
47 12 0.04
49 10 0.03
51 9 0.03
52 1 0.00
53 4 0.01
54 71 0.21
55 8 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
Found at i:36691415 original size:44 final size:44
Alignment explanation
Indices: 36691323--36691415 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
36691313 CCTCCATTTT
* * *
36691323 AATCCGCTCCACTGTAATATCAGGGAGATAGGATTGCTAGCTTC
1 AATCTGCTCCACTGTAATATCAGGGAGATAAGATTGCTAGCTTA
* * *
36691367 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGACTTG-TGGCTTA
1 AATCTGCTCCACTGTAATATCAGGGAGATAAGA-TTGCTAGCTTA
36691411 AATCT
1 AATCT
36691416 ACTTCCTTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 39 0.93
45 3 0.07
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATATCAGGGAGATAAGATTGCTAGCTTA
Found at i:36705406 original size:13 final size:14
Alignment explanation
Indices: 36705385--36705420 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
36705375 AATTAAAATT
*
36705385 AAAGTAAAT-TTTA
1 AAAGAAAATATTTA
36705398 AAAGAAAATATTTA
1 AAAGAAAATATTTA
36705412 AAAGAAAAT
1 AAAGAAAAT
36705421 CTTCTTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (14 bp):
AAAGAAAATATTTA
Found at i:36711136 original size:3 final size:3
Alignment explanation
Indices: 36711128--36711171 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
36711118 AACCGAAATC
36711128 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36711172 GCATTCCACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36713965 original size:50 final size:50
Alignment explanation
Indices: 36713853--36714239 Score: 367
Period size: 51 Copynumber: 7.7 Consensus size: 50
36713843 TCATTCGATA
* *
36713853 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
* *
36713902 CACGTAGTAGCCTTCACATAGTACTATACACATGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
*
36713952 CCCGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
* *
36714002 CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-CGG-T
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGCT
* * * * * * * * *
36714052 ACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCATAG-TTTACCGAT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTACGGCT
* * *
36714103 ACACGTAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTT-CGG-T
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGCT
* * * * * *
36714154 ACACATAGTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTATC-GAT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGCT
* * *
36714205 ACACGTAGTAGCGTCCACACAGTACTACACACGTG
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTG
36714240 TTCATCGACA
Statistics
Matches: 281, Mismatches: 43, Indels: 26
0.80 0.12 0.07
Matches are distributed among these distances:
48 1 0.00
49 42 0.15
50 97 0.35
51 131 0.47
52 7 0.02
53 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
Found at i:36714137 original size:102 final size:102
Alignment explanation
Indices: 36713857--36714239 Score: 433
Period size: 102 Copynumber: 3.8 Consensus size: 102
36713847 TCGATACACG
* * *
36713857 TAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAG-TTCACGTAGTAGCCTTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACCGATACACGTAGTAGCCTTCACA
* * * * *
36713920 TAGTACTATACACATGATC-AAG-TTTTACGGCT-CCCG
66 CAGTACTACACACGTGACCAAAGCTTTT-CGG-TACCCA
* * *
36713956 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT-CACGTAGTAGCCTTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACCGATACACGTAGTAGCCTTCACA
* *
36714020 TAGTACTACATACGTGACCAAAGCTTTTCGGTACCCA
66 CAGTACTACACACGTGACCAAAGCTTTTCGGTACCCA
* * * * *
36714057 TTGTAGCCTTCACTTAGTACTACACATGTAACCATAG-TTTACCGATACACGTAGTAGCATTCAC
1 TAGTAGCCTTCACATAGTACTACACACGTGACCA-AGTTTTACCGATACACGTAGTAGCCTTCAC
*
36714121 ACAGTACTACACACGTG-CTCAAAGCTTTTCGGTACACA
65 ACAGTACTACACACGTGAC-CAAAGCTTTTCGGTACCCA
* * * * * *
36714159 TAGTAGCCTTCACTTAGTACTACACATGTGACC-ATTATTTATCGATACACGTAGTAGCGTCCAC
1 TAGTAGCCTTCACATAGTACTACACACGTGACCAAGT-TTTACCGATACACGTAGTAGCCTTCAC
36714223 ACAGTACTACACACGTG
65 ACAGTACTACACACGTG
36714240 TTCATCGACA
Statistics
Matches: 251, Mismatches: 23, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
99 33 0.13
100 44 0.18
101 47 0.19
102 127 0.51
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
TAGTAGCCTTCACATAGTACTACACACGTGACCAAGTTTTACCGATACACGTAGTAGCCTTCACA
CAGTACTACACACGTGACCAAAGCTTTTCGGTACCCA
Found at i:36723994 original size:23 final size:23
Alignment explanation
Indices: 36723968--36724013 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
36723958 TTGCGTCATT
36723968 TTCTTTTTAAGGAATTGTGCCTA
1 TTCTTTTTAAGGAATTGTGCCTA
36723991 TTCTTTTTAAGGAATTGTGCCTA
1 TTCTTTTTAAGGAATTGTGCCTA
36724014 ACCCTGAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (23 bp):
TTCTTTTTAAGGAATTGTGCCTA
Found at i:36732779 original size:30 final size:30
Alignment explanation
Indices: 36732745--36732810 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
36732735 GTCACACGGT
* * *
36732745 CGTGTGACACACATGGCCTGACAACATGGC
1 CGTGTGACACACACGGCCTGACAACACGCC
*
36732775 CGTGTGACACACACGGCCTGGCAACACGCC
1 CGTGTGACACACACGGCCTGACAACACGCC
36732805 CGTGTG
1 CGTGTG
36732811 TCTTTTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.33, G:0.29, T:0.15
Consensus pattern (30 bp):
CGTGTGACACACACGGCCTGACAACACGCC
Found at i:36760564 original size:27 final size:27
Alignment explanation
Indices: 36760523--36761031 Score: 521
Period size: 27 Copynumber: 18.9 Consensus size: 27
36760513 TCATCTCCTA
**
36760523 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
** * *
36760550 AAGGAATTTCTGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
36760577 GGGATATTTTAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
36760604 GAGGTATTT-TGATTATTTTACCCTATA
1 GGGGTATTTCAG-TCATTTTACCCTATG
**
36760631 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
36760658 GGGATATTTCAGTCATTTTATCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
36760685 AGGGTATTTC-GATCA-TTTACCTTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * * *
36760711 GGAGTAGTTCAGTCATTTTACCTTGTG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
36760738 GGAGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
36760765 GGGGTATTTC-GATCATTTTACTCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
*
36760792 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
36760819 GGGGATATTTCGGCCATTTTACCCTA-A
1 GGGG-TATTTCAGTCATTTTACCCTATG
* *
36760846 GGGGTATTTCGGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
**
36760873 GGGGTATTTTTGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
36760900 AGGTTATTTCAGTCATTATACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
36760927 GGGGTATTTCGGTCA-TTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
36760953 GGAGAATTTCAGTCATTTTACCTTGTG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
36760980 GGGGTATTGC-GATCATTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
*
36761007 CGGGTATTTC-GATCATTTTACCCTA
1 GGGGTATTTCAG-TCATTTTACCCTA
36761032 AATGGTCATA
Statistics
Matches: 401, Mismatches: 70, Indels: 22
0.81 0.14 0.04
Matches are distributed among these distances:
26 63 0.16
27 316 0.79
28 22 0.05
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:36760890 original size:215 final size:215
Alignment explanation
Indices: 36760532--36761031 Score: 648
Period size: 215 Copynumber: 2.3 Consensus size: 215
36760522 AGGGGTATAA
** * * **
36760532 CAGTCATTTTACCCTATGAAGGAATTTCTG-TCATTTTACCCTATGGGGATATTTTAGTCATTTT
1 CAGTCATTTTACCCTATGGGGGTATTTC-GATCATTTTACCCTATGGGGGTATTTCGGTCATTTT
* ** *
36760596 ACCCTATGGAGGTATTTTGATTATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGG
65 ACCCTATGGAGGTATTTCGACCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGG
* *
36760661 ATATTTCAGTCATTTTATCCTATAAGGGTATTTC-GATCATT-TACCTTATGGGAGTAGTTCAGT
130 ATATTTCAGTCATTTTACCCTATAAGGGTATTTCAG-TCATTATACCCTATGGGAGTAGTTCAGT
* * *
36760724 CATTTTACCTTGTGGGAGTATTT
194 CA-TTTACCCTATGGGAGAATTT
*
36760747 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACTCTATGGGGGTATTTCGGTCATTTTA
1 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
* * *
36760812 CCCTATGGGGGATATTTCGGCCATTTTACCCTA-AGGGGTATTTCGGTTATTTTACCCTATGGGG
66 CCCTATGGAGG-TATTTCGACCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGG
* ** * * * * *
36760876 GTATTTTTGTCATTTTACCCTATGAGGTTATTTCAGTCATTATACCCTATGGGGGTATTTCGGTC
130 ATATTTCAGTCATTTTACCCTATAAGGGTATTTCAGTCATTATACCCTATGGGAGTAGTTCAGTC
36760941 ATTTACCCTATGGGAGAATTT
195 ATTTACCCTATGGGAGAATTT
* * * * *
36760962 CAGTCATTTTACCTTGTGGGGGTATTGCGATCATTTTACCCTATGCGGGTATTTCGATCATTTTA
1 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
36761027 CCCTA
66 CCCTA
36761032 AATGGTCATA
Statistics
Matches: 248, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
214 1 0.00
215 209 0.84
216 38 0.15
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (215 bp):
CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
CCCTATGGAGGTATTTCGACCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGA
TATTTCAGTCATTTTACCCTATAAGGGTATTTCAGTCATTATACCCTATGGGAGTAGTTCAGTCA
TTTACCCTATGGGAGAATTT
Found at i:36760934 original size:242 final size:242
Alignment explanation
Indices: 36760535--36761031 Score: 728
Period size: 242 Copynumber: 2.1 Consensus size: 242
36760525 GGTATAACAG
* * *
36760535 TCATTTTACCCTATGAAGGAATTTCTGTCATTTTACCCTATGGGGATATTTTAGTCATTTTACCC
1 TCATTTTACCCTATGAAGGAATTTCGGTCATTTTACCCTATGGGGATATTTCAGCCATTTTACCC
* * *
36760600 TATGGAGGTATTTTGATTATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGATAT
66 TAAGGAGGTATTTCGATTATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGAGGATAT
* * * *
36760665 TTCAGTCATTTTATCCTATAAGGGTATTTCGATCATTTACCTTATGGGAGTAGTTCAGTCATTTT
131 TTCAGTCATTATACCCTATAAGGGTATTTCGATCATTTACCCTATGGGAGAAGTTCAGTCATTTT
* *
36760730 ACCTTGTGGGAGTATTTC-AGTCATTTTACCCTATGGGGGTATTTCGA
196 ACCTTGTGGGAGTATTGCGA-TCATTTTACCCTATGCGGGTATTTCGA
* ** * *
36760777 TCATTTTACTCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGATATTTCGGCCATTTTACC
1 TCATTTTACCCTATGAAGGAATTTCGGTCATTTTACCCTAT-GGGGATATTTCAGCCATTTTACC
* * * *
36760842 CTAAGG-GGTATTTCGGTTATTTTACCCTATGGGGGTATTTTTGTCATTTTACCCTATGAGGTTA
65 CTAAGGAGGTATTTCGATTATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGAGGATA
** * *
36760906 TTTCAGTCATTATACCCTATGGGGGTATTTCGGTCATTTACCCTATGGGAGAATTTCAGTCATTT
130 TTTCAGTCATTATACCCTATAAGGGTATTTCGATCATTTACCCTATGGGAGAAGTTCAGTCATTT
*
36760971 TACCTTGTGGGGGTATTGCGATCATTTTACCCTATGCGGGTATTTCGA
195 TACCTTGTGGGAGTATTGCGATCATTTTACCCTATGCGGGTATTTCGA
36761019 TCATTTTACCCTA
1 TCATTTTACCCTA
36761032 AATGGTCATA
Statistics
Matches: 226, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
242 200 0.88
243 26 0.12
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (242 bp):
TCATTTTACCCTATGAAGGAATTTCGGTCATTTTACCCTATGGGGATATTTCAGCCATTTTACCC
TAAGGAGGTATTTCGATTATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGAGGATAT
TTCAGTCATTATACCCTATAAGGGTATTTCGATCATTTACCCTATGGGAGAAGTTCAGTCATTTT
ACCTTGTGGGAGTATTGCGATCATTTTACCCTATGCGGGTATTTCGA
Found at i:36771228 original size:6 final size:6
Alignment explanation
Indices: 36771217--36771298 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
36771207 CTTTTCTTTG
* * * * *
36771217 TTTTAT TTTTAT TTTTAAT TTTTAT CTTTGT CTTTAAT TTTAAT TTTAAT
1 TTTTAT TTTTAT TTTT-AT TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT
* * * * *
36771267 CTTTAT TTTTAA TTTTAA TGTTAG TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
36771299 ATTTTAATAA
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
6 52 0.85
7 9 0.15
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (6 bp):
TTTTAT
Found at i:36771241 original size:19 final size:19
Alignment explanation
Indices: 36771217--36771283 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
36771207 CTTTTCTTTG
*
36771217 TTTTATTTTTATTTTTAAT
1 TTTTATTTTTATCTTTAAT
* *
36771236 TTTTATCTTTGTCTTTAAT
1 TTTTATTTTTATCTTTAAT
* *
36771255 TTTAATTTTAATCTTT-AT
1 TTTTATTTTTATCTTTAAT
*
36771273 TTTTAATTTTA
1 TTTTATTTTTA
36771284 ATGTTAGTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 10 0.26
19 28 0.74
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (19 bp):
TTTTATTTTTATCTTTAAT
Found at i:36771258 original size:25 final size:25
Alignment explanation
Indices: 36771218--36771285 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
36771208 TTTTCTTTGT
* * *
36771218 TTTATTTTTATTTTTAATTTTTATC
1 TTTATCTTTAATTTTAATTTTAATC
*
36771243 TTTGTCTTTAATTTTAATTTTAATC
1 TTTATCTTTAATTTTAATTTTAATC
*
36771268 TTTATTTTTAATTTTAAT
1 TTTATCTTTAATTTTAAT
36771286 GTTAGTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (25 bp):
TTTATCTTTAATTTTAATTTTAATC
Found at i:36771294 original size:19 final size:19
Alignment explanation
Indices: 36771254--36771295 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
36771244 TTGTCTTTAA
*
36771254 TTTTAATTTTAATCTTTAT
1 TTTTAATTTTAATCGTTAT
*
36771273 TTTTAATTTTAAT-GTTAG
1 TTTTAATTTTAATCGTTAT
36771291 TTTTA
1 TTTTA
36771296 TTTATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTAATTTTAATCGTTAT
Found at i:36778352 original size:16 final size:16
Alignment explanation
Indices: 36778331--36778400 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 16
36778321 TTAATCACTT
*
36778331 TAATATTAAATTAATA
1 TAATATTAAAATAATA
36778347 TAATATTTATCAAGATAAGTA
1 TAATA-TTA--AA-ATAA-TA
* * *
36778368 TTAGATTAAATTAATA
1 TAATATTAAAATAATA
36778384 TAATATTAAAATAATA
1 TAATATTAAAATAATA
36778400 T
1 T
36778401 TATTTTTGGA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
16 21 0.50
17 6 0.14
18 2 0.05
19 2 0.05
20 6 0.14
21 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (16 bp):
TAATATTAAAATAATA
Found at i:36785591 original size:16 final size:17
Alignment explanation
Indices: 36785570--36785605 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
36785560 TCAATCATCC
36785570 CTCATCCCTCATCC-CT
1 CTCATCCCTCATCCTCT
*
36785586 CTCATCTCTCATCCTCT
1 CTCATCCCTCATCCTCT
36785603 CTC
1 CTC
36785606 TCAACTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.36
Consensus pattern (17 bp):
CTCATCCCTCATCCTCT
Found at i:36795344 original size:20 final size:20
Alignment explanation
Indices: 36795297--36795370 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 20
36795287 TATCATACAT
36795297 TATTATTTTAAGTTTT--TG
1 TATTATTTTAAGTTTTCATG
36795315 TTCATATATTTTAAGTTTTCATG
1 -T-AT-TATTTTAAGTTTTCATG
*
36795338 TATTATTATTCAAGTTCATCATG
1 TATTATT-TT-AAGTT-TTCATG
*
36795361 CATTATTTTA
1 TATTATTTTA
36795371 TATATTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
19 1 0.02
20 6 0.13
21 18 0.39
22 8 0.17
23 13 0.28
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (20 bp):
TATTATTTTAAGTTTTCATG
Found at i:36797144 original size:16 final size:16
Alignment explanation
Indices: 36797123--36797156 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
36797113 TGTGTTTTGC
*
36797123 TTTGATTGCATGGCAT
1 TTTGATTGCATGACAT
36797139 TTTGATTGCATGACAT
1 TTTGATTGCATGACAT
36797155 TT
1 TT
36797157 CATCTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTGATTGCATGACAT
Found at i:36801602 original size:7 final size:7
Alignment explanation
Indices: 36801576--36801645 Score: 68
Period size: 7 Copynumber: 9.4 Consensus size: 7
36801566 GAAAAAATAG
36801576 AAAACAA
1 AAAACAA
36801583 AAAGACAA
1 AAA-ACAA
*
36801591 AAAAAAA
1 AAAACAA
*
36801598 CAAAATAA
1 -AAAACAA
*
36801606 CAAAATAA
1 -AAAACAA
36801614 CAAAACAA
1 -AAAACAA
*
36801622 ACAACAA
1 AAAACAA
36801629 AAAACAA
1 AAAACAA
36801636 AAAACAA
1 AAAACAA
36801643 AAA
1 AAA
36801646 CCTCTACCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
7 28 0.50
8 28 0.50
ACGTcount: A:0.81, C:0.14, G:0.01, T:0.03
Consensus pattern (7 bp):
AAAACAA
Found at i:36801602 original size:8 final size:8
Alignment explanation
Indices: 36801576--36801645 Score: 61
Period size: 8 Copynumber: 8.2 Consensus size: 8
36801566 GAAAAAATAG
36801576 AAAACAAA
1 AAAACAAA
*
36801584 AAGACAAAAA
1 AA-A-ACAAA
36801594 AAAACAAA
1 AAAACAAA
*
36801602 ATAACAAA
1 AAAACAAA
*
36801610 ATAACAAA
1 AAAACAAA
36801618 ACAAACAACA
1 A-AAACAA-A
36801628 AAAA-ACAA
1 AAAACA-AA
36801636 AAAACAAA
1 AAAACAAA
36801644 AA
1 AA
36801646 CCTCTACCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
8 32 0.62
9 12 0.23
10 8 0.15
ACGTcount: A:0.81, C:0.14, G:0.01, T:0.03
Consensus pattern (8 bp):
AAAACAAA
Found at i:36801607 original size:26 final size:25
Alignment explanation
Indices: 36801576--36801645 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 25
36801566 GAAAAAATAG
36801576 AAAACAAAAAGACAAAAAAA-AACAA
1 AAAACAAAAA-ACAAAAAAACAACAA
36801601 AATAACAAAATAACAAAACAAACAACAA
1 AA-AACAAAA-AACAAAA-AAACAACAA
36801629 AAAACAAAAAACAAAAA
1 AAAACAAAAAACAAAAA
36801646 CCTCTACCGA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
25 3 0.07
26 20 0.49
27 11 0.27
28 7 0.17
ACGTcount: A:0.81, C:0.14, G:0.01, T:0.03
Consensus pattern (25 bp):
AAAACAAAAAACAAAAAAACAACAA
Found at i:36801629 original size:20 final size:20
Alignment explanation
Indices: 36801576--36801637 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
36801566 GAAAAAATAG
36801576 AAAACAAAA-AGAC-AAAAA-
1 AAAACAAAACA-ACAAAAAAC
*
36801594 AAAACAAAATAACAAAATAAC
1 AAAACAAAACAACAAAA-AAC
36801615 AAAAC-AAACAACAAAAAAC
1 AAAACAAAACAACAAAAAAC
36801634 AAAA
1 AAAA
36801638 AACAAAAACC
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 11 0.28
19 11 0.28
20 12 0.31
21 5 0.13
ACGTcount: A:0.81, C:0.15, G:0.02, T:0.03
Consensus pattern (20 bp):
AAAACAAAACAACAAAAAAC
Found at i:36802203 original size:47 final size:47
Alignment explanation
Indices: 36802071--36802209 Score: 156
Period size: 48 Copynumber: 2.9 Consensus size: 47
36802061 AAAGAAGGAG
* * *
36802071 AAGAGACCAAGGTGAAAA-CATGCAAAAGGCGCTTTAAGTCCTAAAAAA
1 AAGAGACCAAGGTGAAAACCA-GC-AAAGGCACTTTGAGTCCAAAAAAA
* *
36802119 AAGAGACCAAGGCGAAAACCAACAAATGGCACTTTGAGTCCAAAAAAA
1 AAGAGACCAAGGTGAAAACCAGCAAA-GGCACTTTGAGTCCAAAAAAA
* * *
36802167 AAGAG-CCAAGGTGAAAACCCGCAAAGGACACCTTGAGACCAAA
1 AAGAGACCAAGGTGAAAACCAGCAAAGG-CACTTTGAGTCCAAA
36802210 GGGGATTTGA
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
46 2 0.03
47 33 0.42
48 41 0.53
49 2 0.03
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (47 bp):
AAGAGACCAAGGTGAAAACCAGCAAAGGCACTTTGAGTCCAAAAAAA
Found at i:36803550 original size:51 final size:51
Alignment explanation
Indices: 36803411--36804268 Score: 895
Period size: 51 Copynumber: 16.8 Consensus size: 51
36803401 AAGTCATTAT
* *
36803411 AGCGAATATTATTTCCCTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * *
36803462 AGCAAATCTTTTTTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGT
1 AGCGAATC-TTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * *
36803514 AGCGAATCTTATTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAGCC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * *
36803565 AGCGAATCTTATTTCCCTGGCATTGCAATGGAATAGATTAAAGCTAAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * * *
36803616 AGTGAATCTTTTTTCCTTGGCATTGCAATGGAACAGATTAAAGTTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * * * *
36803667 AGTGAATCTTTTTTTCCTTGGCATTGCAATGGAACAAATTAAAGCTAAAGGC
1 AGCGAATC-TTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* *
36803719 AGCGAATCTTTTTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * * *
36803770 AGCAAATCTTGTTTCCCTGGTGTTGAAGTGGAATAGATTAAAGCTAAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * *
36803821 AGCGACTCTTGTTTCCTTGGCGCTGCAGTGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * *
36803872 AGCGAATCTTATTTCCCTAGTGTTGCAGTGGAATAGATTAAAGCTAAAGGT
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * *
36803923 AGTGAATCTTATTTCCCTGGCATTCCAGTGGAGCAGATTAAAGCTAAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* *
36803974 AACGAATCTTATTTCTCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* ** *
36804025 AACGAATCTTATTTCCCTGGCGTTGCAGTGGAATGGATTAAAGCTGAAGGT
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * *** * * ***
36804076 AGCGAATCTTATTTCCCTAGCATTGGAACAGAATAGATTAAAGCTACAAAAT
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT-GAAGGC
* ** * *
36804128 ATGGCGGATCTTATCTT-CCTGAAGTTGTAGTGGAGA-AGACTAAA---G-A--C
1 A--GCGAATCTTAT-TTCCCTGGCGTTGCAGTGGA-ACAGATTAAAGCTGAAGGC
* * *
36804175 AGCGAATCTTATTTCCCTAGCCTTGTAGTGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * *
36804226 AGCAAACCTTATTTCCCTAGCGTTGCAATGGAATAGATTAAAG
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAG
36804269 AGAAAAATTA
Statistics
Matches: 680, Mismatches: 112, Indels: 30
0.83 0.14 0.04
Matches are distributed among these distances:
44 3 0.00
45 30 0.04
47 1 0.00
48 1 0.00
49 2 0.00
51 517 0.76
52 97 0.14
54 26 0.04
55 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (51 bp):
AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
Found at i:36804237 original size:150 final size:150
Alignment explanation
Indices: 36804027--36804309 Score: 415
Period size: 150 Copynumber: 1.9 Consensus size: 150
36804017 CTGAAGGCAA
* * ** * * *
36804027 CGAATCTTATTTCCCTGGCGTTGCAGTGGAATGGATTAAAGCTGAAGGTAGCGAATCTTATTTCC
1 CGAATCTTATTTCCCTAGCCTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAAACCTTATTTCC
* ** *
36804092 CTAGCATTGGAACAGAATAGATTAAAGCTACAAAA-TATGGCGGATCTTATCTTCCTGAAGTTGT
66 CTAGCATTGCAACAGAATAGATTAAAGAGA-AAAATTATGGCGGATCTTATCTTCCTGAAGTTGC
36804156 AGTGGAGAAGACTAAAGACAG
130 AGTGGAGAAGACTAAAGACAG
*
36804177 CGAATCTTATTTCCCTAGCCTTGTAGTGGAACAGATTAAAGCTGAAGGCAGCAAACCTTATTTCC
1 CGAATCTTATTTCCCTAGCCTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAAACCTTATTTCC
* **
36804242 CTAGCGTTGCAATGGAATAGATTAAAGAGAAAAATTATGGCGGATCTTATCTTCCTGAAGTTGCA
66 CTAGCATTGCAACAGAATAGATTAAAGAGAAAAATTATGGCGGATCTTATCTTCCTGAAGTTGCA
36804307 GTG
131 GTG
36804310 AAGCATATTG
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
149 4 0.03
150 113 0.97
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (150 bp):
CGAATCTTATTTCCCTAGCCTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAAACCTTATTTCC
CTAGCATTGCAACAGAATAGATTAAAGAGAAAAATTATGGCGGATCTTATCTTCCTGAAGTTGCA
GTGGAGAAGACTAAAGACAG
Found at i:36804352 original size:44 final size:44
Alignment explanation
Indices: 36804289--36804396 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
36804279 TGGCGGATCT
* * * *
36804289 TATCTTCC-TGAAGTTGCAGTGAAGCATATTGAAGCCACCAATCC
1 TATC-TCCTTGAAGTTGCAGTGAAGCATATTAAAACAACAAATCC
* *
36804333 TATCTCCTTGAAGTTGCAGTGGAGCGTATTAAAACAACAAATCC
1 TATCTCCTTGAAGTTGCAGTGAAGCATATTAAAACAACAAATCC
*
36804377 TATAC-CTTTGAAGTTGCAGT
1 TAT-CTCCTTGAAGTTGCAGT
36804397 AGGTCGAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 3 0.05
44 51 0.93
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
TATCTCCTTGAAGTTGCAGTGAAGCATATTAAAACAACAAATCC
Found at i:36809311 original size:25 final size:25
Alignment explanation
Indices: 36809282--36809332 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
36809272 GGAAATCTTG
*
36809282 ATCCAAGAAATCGAATCTTGCAACT
1 ATCCAAGAAACCGAATCTTGCAACT
36809307 ATCCAAGAAACCGAATCTTGCAACT
1 ATCCAAGAAACCGAATCTTGCAACT
36809332 A
1 A
36809333 AGGCGCATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (25 bp):
ATCCAAGAAACCGAATCTTGCAACT
Found at i:36811160 original size:7 final size:7
Alignment explanation
Indices: 36811150--36811187 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
36811140 TCCCTCATGC
36811150 CTCTCAT
1 CTCTCAT
36811157 CTCTCAT
1 CTCTCAT
36811164 CTCTCAT
1 CTCTCAT
36811171 C-CTC-T
1 CTCTCAT
*
36811176 CTCTCAA
1 CTCTCAT
36811183 CTCTC
1 CTCTC
36811188 TTACCTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 2 0.07
6 6 0.21
7 20 0.71
ACGTcount: A:0.13, C:0.47, G:0.00, T:0.39
Consensus pattern (7 bp):
CTCTCAT
Found at i:36811162 original size:16 final size:14
Alignment explanation
Indices: 36811150--36811187 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
36811140 TCCCTCATGC
36811150 CTCTCATCTCTCAT
1 CTCTCATCTCTCAT
36811164 CTCTCATC-CTC-T
1 CTCTCATCTCTCAT
*
36811176 CTCTCAACTCTC
1 CTCTCATCTCTC
36811188 TTACCTCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 8 0.36
13 6 0.27
14 8 0.36
ACGTcount: A:0.13, C:0.47, G:0.00, T:0.39
Consensus pattern (14 bp):
CTCTCATCTCTCAT
Found at i:36815326 original size:25 final size:25
Alignment explanation
Indices: 36815272--36815326 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
36815262 ACATACTAAA
*
36815272 ATAT-GTCAAAACACAAGCCAAATC
1 ATATGGTCAAAACACAAGCCAAAAC
* *
36815296 AAATGGTCATAACAACAA-CCAAAAC
1 ATATGGTCAAAAC-ACAAGCCAAAAC
36815321 ATATGG
1 ATATGG
36815327 CCAACATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 3 0.12
25 18 0.72
26 4 0.16
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (25 bp):
ATATGGTCAAAACACAAGCCAAAAC
Found at i:36822833 original size:25 final size:25
Alignment explanation
Indices: 36822800--36822854 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
36822790 ACCAAAATAT
*
36822800 GCCAAAAC-ACAAGCCAAATCAAATG
1 GCCAAAACAACAA-CCAAAACAAATG
* *
36822825 GCCATAACAACAACCAAAACATATG
1 GCCAAAACAACAACCAAAACAAATG
36822850 GCCAA
1 GCCAA
36822855 CATTAGCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.51, C:0.29, G:0.11, T:0.09
Consensus pattern (25 bp):
GCCAAAACAACAACCAAAACAAATG
Found at i:36831274 original size:30 final size:30
Alignment explanation
Indices: 36831238--36831298 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36831228 AATTAAAAAC
* * *
36831238 AATATTCAATTGAGCCCTCAATCAAGTTTA
1 AATATTCAATTAAACCCTCAATCAAATTTA
*
36831268 AATATTCAATTAAATCCTCAATCAAATTTA
1 AATATTCAATTAAACCCTCAATCAAATTTA
36831298 A
1 A
36831299 GCCCTCGTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (30 bp):
AATATTCAATTAAACCCTCAATCAAATTTA
Found at i:36831480 original size:19 final size:22
Alignment explanation
Indices: 36831456--36831499 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
36831446 TCATAAAAAT
36831456 AAAAAAT-A-TTAAAAATAATA
1 AAAAAATCATTTAAAAATAATA
*
36831476 GAAAAATCATTTAAAAATAA-A
1 AAAAAATCATTTAAAAATAATA
36831497 AAA
1 AAA
36831500 TAGAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 10 0.50
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAAATCATTTAAAAATAATA
Found at i:36832046 original size:13 final size:13
Alignment explanation
Indices: 36832028--36832059 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
36832018 TACCTCATTT
36832028 AATTTTAAAATGA
1 AATTTTAAAATGA
36832041 AATTTTAAAATGA
1 AATTTTAAAATGA
36832054 AATTTT
1 AATTTT
36832060 TATAAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (13 bp):
AATTTTAAAATGA
Found at i:36832400 original size:22 final size:22
Alignment explanation
Indices: 36832343--36832392 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
36832333 AATTGATTGT
*
36832343 TTAAATTC-AATGAGAGACTCAA
1 TTAAATTCGATTGA-AGACTCAA
36832365 TTAAATTCGATTGAAGACTCAA
1 TTAAATTCGATTGAAGACTCAA
36832387 TTAAAT
1 TTAAAT
36832393 ATTTTTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (22 bp):
TTAAATTCGATTGAAGACTCAA
Found at i:36834165 original size:16 final size:16
Alignment explanation
Indices: 36834128--36834167 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
36834118 ATTATATTTG
36834128 TATTTTTATATAAAAA
1 TATTTTTATATAAAAA
*
36834144 TGTTTTTATA-AAAAA
1 TATTTTTATATAAAAA
36834159 TTATTTTTA
1 -TATTTTTA
36834168 ATTTTCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATTTTTATATAAAAA
Found at i:36834262 original size:21 final size:20
Alignment explanation
Indices: 36834238--36834277 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
36834228 TTATTTTTAT
36834238 TATA-TTTTATTTCTATAAAAA
1 TATACTTTT-TTT-TATAAAAA
36834259 TATACTTTTTTTTATAAAA
1 TATACTTTTTTTTATAAAA
36834278 CATTATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TATACTTTTTTTTATAAAAA
Found at i:36834650 original size:6 final size:6
Alignment explanation
Indices: 36834641--36834683 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
36834631 AATTAAATTT
*
36834641 AAATAA AAATAA AAATAA AAAT-A GAAT-A AAAT-A AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
36834684 TTATTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 13 0.38
6 21 0.62
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:36834654 original size:22 final size:22
Alignment explanation
Indices: 36834624--36834686 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
36834614 CATTTTTAAT
36834624 TAAAA-AAAATTAAATTTA-AA
1 TAAAATAAAATTAAATTTAGAA
* **
36834644 TAAAAATAAAAATAAAAATAGAA
1 T-AAAATAAAATTAAATTTAGAA
*
36834667 TAAAATAAAATAAAAATTTA
1 TAAAATAAAAT-TAAATTTA
36834687 TTTAATATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 1 0.03
21 4 0.12
22 19 0.59
23 8 0.25
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAAATAAAATTAAATTTAGAA
Found at i:36835472 original size:16 final size:14
Alignment explanation
Indices: 36835461--36835489 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36835451 ATATAATTTA
36835461 ATATTAAAATAATT
1 ATATTAAAATAATT
36835475 ATATTAAAAT-ATT
1 ATATTAAAATAATT
36835488 AT
1 AT
36835490 TAAATCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATTAAAATAATT
Found at i:36835512 original size:32 final size:31
Alignment explanation
Indices: 36835476--36835583 Score: 84
Period size: 33 Copynumber: 3.5 Consensus size: 31
36835466 AAAATAATTA
36835476 TATTAAAATATTATTAAATCATATATTATTTT
1 TATTAAAATATTATTAAAT-ATATATTATTTT
* * *
36835508 TATTAAATTA-TATTTAATA-ATA--A-TAT
1 TATTAAAATATTATTAAATATATATTATTTT
*
36835534 TATTAAAAT-TTGATTAAATTATTTATTATTTAT
1 TATTAAAATATT-ATTAAA-TATATATTATTT-T
* *
36835567 TATTAAATTATTTTTAA
1 TATTAAAATATTATTAA
36835584 TAATAATCCT
Statistics
Matches: 58, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
26 11 0.19
27 6 0.10
28 2 0.03
29 5 0.09
30 1 0.02
31 8 0.14
32 10 0.17
33 13 0.22
34 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTAAAATATTATTAAATATATATTATTTT
Found at i:36835590 original size:59 final size:56
Alignment explanation
Indices: 36835464--36835604 Score: 185
Period size: 59 Copynumber: 2.4 Consensus size: 56
36835454 TAATTTAATA
36835464 TTAA-AATAATTATATTAAAATATTATTAAATCATATATTATTTTTATTAAATTATAT
1 TTAATAATAATT-TATTAAAAT-TTATTAAATCATATATTATTTTTATTAAATTATAT
* * *
36835521 TTAATAATAATATTATTAAAATTTGATTAAATTATTTATTATTTATTATTAAATTATTT
1 TTAATAATAAT-TTATTAAAATTT-ATTAAATCATATATTATTT-TTATTAAATTATAT
*
36835580 TTAATAATAATCCTATTAAAATTTA
1 TTAATAATAAT-TTATTAAAATTTA
36835605 ATAATAATAA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
57 6 0.08
58 33 0.44
59 36 0.48
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (56 bp):
TTAATAATAATTTATTAAAATTTATTAAATCATATATTATTTTTATTAAATTATAT
Found at i:36839650 original size:16 final size:16
Alignment explanation
Indices: 36839629--36839677 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
36839619 TGAATTATTG
*
36839629 ATTACAACTCTATTCC
1 ATTACAACTCTATTAC
*
36839645 ATTACAGCTCTATTAC
1 ATTACAACTCTATTAC
* *
36839661 TTTACAACTCTAGTAC
1 ATTACAACTCTATTAC
36839677 A
1 A
36839678 GCTATATTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAACTCTATTAC
Found at i:36843849 original size:38 final size:38
Alignment explanation
Indices: 36843798--36843870 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
36843788 GTAACCATCT
36843798 TGGCATTATTGGATATTCATCATTCAATTAAATAATCA
1 TGGCATTATTGGATATTCATCATTCAATTAAATAATCA
* *
36843836 TGGCATTGTTGGATATTCATCATTCAATTATATAA
1 TGGCATTATTGGATATTCATCATTCAATTAAATAA
36843871 CAACTAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (38 bp):
TGGCATTATTGGATATTCATCATTCAATTAAATAATCA
Found at i:36853344 original size:25 final size:25
Alignment explanation
Indices: 36853310--36853359 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
36853300 CGCTAGGTTG
36853310 TATATGACTATCATGCCATCTCTTT
1 TATATGACTATCATGCCATCTCTTT
36853335 TATATGACTATCATGCCATCTCTTT
1 TATATGACTATCATGCCATCTCTTT
36853360 GATCTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (25 bp):
TATATGACTATCATGCCATCTCTTT
Found at i:36861656 original size:50 final size:51
Alignment explanation
Indices: 36861509--36861842 Score: 263
Period size: 50 Copynumber: 6.6 Consensus size: 51
36861499 CGATCTCGTA
* * * ** *
36861509 TAAGACCATGTCTGGAACATGGCATCGACATC-GATTTGTGA-G--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGGTCCCA-TG
36861557 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATC--TGAG---ATGAGAGGTCCCATG
* * *
36861613 TAAGACCATGTCTAGGACATGGCGTTGGCATC-GAGATGAGAGGTCCCATA
1 TAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGGTCCCATG
* * * * **
36861663 TAAGACCATGTTTGGGATATGGCGTTGGCACCTG-GATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGGTCCCATG
* * * **
36861713 TAAGACCATGTTTGGGACATGGCATGGGCATC-GATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGGTCCCATG
* * * * * * * ** *
36861763 TAAGACCATATCTAGGATATGGCATTGGCA-GT-ACAGGAAACATCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGGTCCCATG
* *
36861812 TAAGACCATGTCTGGGACATGACTTTGGCAT
1 TAAGACCATGTCTGGGACATGGCATTGGCAT
36861843 GTTATTATCA
Statistics
Matches: 231, Mismatches: 42, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
48 29 0.13
49 37 0.16
50 119 0.52
51 3 0.01
53 3 0.01
54 4 0.02
55 1 0.00
56 32 0.14
57 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (51 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGGTCCCATG
Done.