Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 44 of 211
Found at i:12940872 original size:20 final size:19
Alignment explanation
Indices: 12940835--12940874 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12940825 GGAAGTATGA
*
12940835 TTTTTTATCTTATTTGAGT
1 TTTTTTATCTTATCTGAGT
*
12940854 TTTTTTATGTTATCCTGAGT
1 TTTTTTATCTTAT-CTGAGT
12940874 T
1 T
12940875 ATGGAATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.65
Consensus pattern (19 bp):
TTTTTTATCTTATCTGAGT
Found at i:12945579 original size:27 final size:28
Alignment explanation
Indices: 12945537--12945590 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
12945527 GCTGGACTTG
*
12945537 GACATCATTAAAAACATGTAATAAAATT
1 GACATCATTAAAAACATGCAATAAAATT
* *
12945565 GACA-CATTAATAACATGCATTAAAAT
1 GACATCATTAAAAACATGCAATAAAAT
12945591 AAAACACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (28 bp):
GACATCATTAAAAACATGCAATAAAATT
Found at i:12952408 original size:27 final size:28
Alignment explanation
Indices: 12952365--12952417 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
12952355 AAGTGCTAAA
* *
12952365 TAAAAGTAAAGTTTAAGTATTAATTAGG
1 TAAAAGTAAAATTTAAGTAATAATTAGG
12952393 TAAAAG-AAAATTTAAGTAATAATTA
1 TAAAAGTAAAATTTAAGTAATAATTA
12952418 AATGCAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (28 bp):
TAAAAGTAAAATTTAAGTAATAATTAGG
Found at i:12955976 original size:21 final size:21
Alignment explanation
Indices: 12955952--12955991 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12955942 TTATAGAAAA
*
12955952 TAAAGATGATTAATTAAAGAT
1 TAAACATGATTAATTAAAGAT
*
12955973 TAAACTTGATTAATTAAAG
1 TAAACATGATTAATTAAAG
12955992 CTAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (21 bp):
TAAACATGATTAATTAAAGAT
Found at i:12957547 original size:48 final size:47
Alignment explanation
Indices: 12957420--12957626 Score: 154
Period size: 49 Copynumber: 4.3 Consensus size: 47
12957410 CCTTAGGATC
* *
12957420 AAAACCATCATTTTCAGGCCATCCAGGATGGTAAGATATGCAAATAGTG
1 AAAACCATCATTTTCAGGTCATCTAGGATGGTAA-ATATG-AAATAGTG
* * * *
12957469 AAAACCATC-GTTTCTAAGTCA-CTCGAGATGGTAAATGTGAAAATAGTG
1 AAAACCATCATTTTC-AGGTCATCTAG-GATGGTAAATATG-AAATAGTG
* *
12957517 AAAACCATCATTGTT-GGGTCATCTAGGATGGTAGAATATCGAAATAATG
1 AAAACCATCATT-TTCAGGTCATCTAGGATGGTA-AATAT-GAAATAGTG
* * * *
12957566 GAAACCATCATTTTCGGGTCAT-TCGACATGGTAGAATAT-ACAGATAGTG
1 AAAACCATCATTTTCAGGTCATCTAG-GATGGTA-AATATGA-A-ATAGTG
*
12957615 AAAGCCATCATT
1 AAAACCATCATT
12957627 GTCGAGTCAT
Statistics
Matches: 128, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
47 1 0.01
48 43 0.34
49 81 0.63
50 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAACCATCATTTTCAGGTCATCTAGGATGGTAAATATGAAATAGTG
Found at i:12957573 original size:49 final size:49
Alignment explanation
Indices: 12957446--12957676 Score: 176
Period size: 49 Copynumber: 4.7 Consensus size: 49
12957436 GGCCATCCAG
* * **
12957446 GATGGTA-AGATATGCAAATAGTGAAAACCATCGTT-TCTAAGTCA-CTCGA
1 GATGGTAGA-ATAT-CAAATAGTGGAAACCATCATTGT-TGGGTCATCTCGA
* * * *
12957495 GATGGTA-AATGTGAAAATAGTGAAAACCATCATTGTTGGGTCATCTAG-
1 GATGGTAGAATAT-CAAATAGTGGAAACCATCATTGTTGGGTCATCTCGA
*
12957543 GATGGTAGAATATCGAAATAATGGAAACCATCATT-TTCGGGTCAT-TCGA
1 GATGGTAGAATATC-AAATAGTGGAAACCATCATTGTT-GGGTCATCTCGA
* * * *
12957592 CATGGTAGAATATACAGATAGT-GAAAGCCATCATTGTCGAGTCATC-CGA
1 GATGGTAGAATAT-CAAATAGTGGAAA-CCATCATTGTTGGGTCATCTCGA
* *
12957641 GATGGTAGAATATCAAGAT-GTGTAAACCATCGTTGT
1 GATGGTAGAATATCAA-ATAGTGGAAACCATCATTGT
12957677 CGGGCCACCC
Statistics
Matches: 150, Mismatches: 20, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
48 56 0.37
49 92 0.61
50 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (49 bp):
GATGGTAGAATATCAAATAGTGGAAACCATCATTGTTGGGTCATCTCGA
Found at i:12957694 original size:48 final size:49
Alignment explanation
Indices: 12957593--12957695 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 49
12957583 GTCATTCGAC
* *
12957593 ATGGTAGAATATACAGATAGTGAAAGCCATCATTGTCGAGTCATCCGAG
1 ATGGTAGAATATACAGATAGTGAAAGCCATCATTGTCGAGCCACCCGAG
* *
12957642 ATGGTAGAATAT-CAAGAT-GTGTAAA-CCATCGTTGTCGGGCCACCCG-G
1 ATGGTAGAATATAC-AGATAGTG-AAAGCCATCATTGTCGAGCCACCCGAG
12957689 AATGGTA
1 -ATGGTA
12957696 AAACATTTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
47 1 0.02
48 27 0.57
49 19 0.40
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
ATGGTAGAATATACAGATAGTGAAAGCCATCATTGTCGAGCCACCCGAG
Found at i:12968929 original size:16 final size:16
Alignment explanation
Indices: 12968908--12968944 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
12968898 TTGGTTCACT
12968908 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
12968924 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
12968940 GTAAT
1 GTAAT
12968945 AGATAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:12970680 original size:5 final size:5
Alignment explanation
Indices: 12970670--12970737 Score: 54
Period size: 5 Copynumber: 13.8 Consensus size: 5
12970660 ACAAGCAAGC
* *
12970670 AACAT AACAT AACA- AGCATAT AACAT AACAT AACA- AACAT AACA- AGCAT
1 AACAT AACAT AACAT A--ACAT AACAT AACAT AACAT AACAT AACAT AACAT
*
12970719 ATA-AC AACAT AACAT AACA
1 A-ACAT AACAT AACAT AACA
12970738 CTTCTCAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
4 9 0.18
5 38 0.76
6 2 0.04
7 1 0.02
ACGTcount: A:0.60, C:0.21, G:0.03, T:0.16
Consensus pattern (5 bp):
AACAT
Found at i:12970681 original size:21 final size:21
Alignment explanation
Indices: 12970657--12970719 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 21
12970647 CAAAAAGCAT
12970657 ATAACAAGCA-AGCAACATAAC
1 ATAACAAGCATA-CAACATAAC
*
12970678 ATAACAAGCATATAACATAAC
1 ATAACAAGCATACAACATAAC
*
12970699 ATAACAAACATAACAAGCATA
1 ATAACAAGCAT-ACAA-CATA
12970720 TAACAACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 28 0.78
22 4 0.11
23 4 0.11
ACGTcount: A:0.59, C:0.21, G:0.06, T:0.14
Consensus pattern (21 bp):
ATAACAAGCATACAACATAAC
Found at i:12970711 original size:30 final size:29
Alignment explanation
Indices: 12970651--12970737 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 29
12970641 ATTTTCCAAA
*
12970651 AAGCATATAACAAGCAAGCAACATAACATAAC
1 AAGCATATAACAA-C-A-TAACATAACATAAC
12970683 AAGCATATAACATAACATAACA-AACATAAC
1 AAGCATATAAC--AACATAACATAACATAAC
12970713 AAGCATATAACAACATAACATAACA
1 AAGCATATAACAACATAACATAACA
12970738 CTTCTCAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
28 9 0.18
29 4 0.08
30 19 0.37
31 4 0.08
32 12 0.24
33 1 0.02
34 2 0.04
ACGTcount: A:0.59, C:0.21, G:0.06, T:0.15
Consensus pattern (29 bp):
AAGCATATAACAACATAACATAACATAAC
Found at i:12972064 original size:23 final size:22
Alignment explanation
Indices: 12972032--12972076 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
12972022 TTGGAAGCAA
12972032 GAAATGAAACAGGAATAGAAAT
1 GAAATGAAACAGGAATAGAAAT
12972054 GAAAGTGAAACAGGAATAGAAAT
1 GAAA-TGAAACAGGAATAGAAAT
12972077 CGGGAGCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.58, C:0.04, G:0.24, T:0.13
Consensus pattern (22 bp):
GAAATGAAACAGGAATAGAAAT
Found at i:12978568 original size:21 final size:21
Alignment explanation
Indices: 12978543--12978583 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12978533 GTCATGTACC
12978543 TTTATTCTTTATATTTTTTTG
1 TTTATTCTTTATATTTTTTTG
* *
12978564 TTTATTTTTTTTATTTTTTT
1 TTTATTCTTTATATTTTTTT
12978584 ATGTTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (21 bp):
TTTATTCTTTATATTTTTTTG
Found at i:12978743 original size:19 final size:20
Alignment explanation
Indices: 12978702--12978743 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
12978692 ATTTCTATGC
* *
12978702 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
12978722 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
12978741 CAT
1 CAT
12978744 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:12983589 original size:12 final size:12
Alignment explanation
Indices: 12983572--12983628 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
12983562 TGAGGATCCG
12983572 ATACAAGGTAAA
1 ATACAAGGTAAA
* *
12983584 ATACAAAG-AAG
1 ATACAAGGTAAA
* *
12983595 CTTCAAGTGGTAAA
1 ATACAA--GGTAAA
12983609 ATACAAGGTAAA
1 ATACAAGGTAAA
12983621 ATACAAGG
1 ATACAAGG
12983629 ATCATCATAC
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
11 6 0.18
12 21 0.62
13 1 0.03
14 6 0.18
ACGTcount: A:0.53, C:0.11, G:0.19, T:0.18
Consensus pattern (12 bp):
ATACAAGGTAAA
Found at i:12988828 original size:9 final size:9
Alignment explanation
Indices: 12988816--12988876 Score: 68
Period size: 9 Copynumber: 6.7 Consensus size: 9
12988806 AAAAATTTTT
12988816 GGGTAATTC
1 GGGTAATTC
* *
12988825 GGGTATTTTT
1 GGGTA-ATTC
*
12988835 TGGTAATTC
1 GGGTAATTC
*
12988844 GGTTAATTC
1 GGGTAATTC
*
12988853 GGTTAATTC
1 GGGTAATTC
12988862 GGGTAATTC
1 GGGTAATTC
12988871 GGGTAA
1 GGGTAA
12988877 CTTTTGACCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
9 37 0.86
10 6 0.14
ACGTcount: A:0.21, C:0.08, G:0.30, T:0.41
Consensus pattern (9 bp):
GGGTAATTC
Found at i:12990480 original size:45 final size:44
Alignment explanation
Indices: 12990291--12991192 Score: 376
Period size: 44 Copynumber: 20.8 Consensus size: 44
12990281 CCAATGATCC
* * * *
12990291 TATCTCCCTGAAGTTGCAGTGGAGCTA-ATTAAAACTA-CAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGC-AGACT-AAGCAAGCAAATCT
* * * * * *
12990335 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
*
12990375 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * *
12990419 TATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAA-TATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCA-AGCAAATCT
* * * *
12990464 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAGC-CG-ATAATCCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AGCAAGCA-AAT-CT
* * * **
12990509 T-TCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AACCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC--AAATCT
* * * * * * * *
12990552 TATCTCTCTAAAGTTTCAG-AGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * * *
12990592 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * * * *
12990636 TATC-CTCTTGAAGTTGCAGTGGTGCAGACTGAA-TATGGCAAATAT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAATCT
* * *
12990681 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGC-CG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AGCAAGCA-AATCT
* * * * * *
12990725 TATCTCCCTAAAGTTACAGTGGAGCGGATTAA--AACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC--AAATCT
* ** * * * * *
12990769 TATCTCTCTGAAGTTTTAG-AGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * * * *
12990809 TATCTCCATGAAGTTACAGTGGAGTAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * *
12990853 TATC-CTCCTGAAGTTGCAGTGGTGCAGACTGAAG-ATTGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAATCT
* * * ** * *
12990898 TATCTCCCTGAGGATGAAGTGGAGCAGGTTAAAGC-CG-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAGCA-AATCT
* * * ** **
12990942 TATCCCCCTGAAATTGCAGTGGAGCAGATTAA--ATCCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGC--AAATCT
* * * * * * *
12990986 TATCTCTCTGAAGTTTCAG-AGAGCAGA-T-CGC-ATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * *
12991026 TATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
* * *
12991070 TATC-CTCCTAAAGTTGCAGTGGGGCAGACTGAAG-ATGGCAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGCA-AGCAAATCT
* *
12991115 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AAGTCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAG-C-A-AATCT
*
12991160 TATCTCCCTGAAGTTGCAATGGAGCAGACTAAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG
12991193 TAGAGCAGAT
Statistics
Matches: 641, Mismatches: 149, Indels: 134
0.69 0.16 0.15
Matches are distributed among these distances:
39 1 0.00
40 79 0.12
41 26 0.04
42 15 0.02
43 46 0.07
44 296 0.46
45 172 0.27
46 6 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAGCAAATCT
Found at i:12990668 original size:217 final size:217
Alignment explanation
Indices: 12990277--12991184 Score: 1372
Period size: 217 Copynumber: 4.2 Consensus size: 217
12990267 GAACAGATCG
* * ** * * *
12990277 AAAGCCAATGATCCTATCTCCCTGAAGTTGCAGTGGAGCTAATTAAAA-CTACAAATCCTATCTC
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCT-TAGATCTTATCTC
*
12990341 TCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
65 TCTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
* * *
12990406 AGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAG-GTAGACTGAATATGGCAAATCTTATCTC
130 AGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG-GTGCAGACTGAAGATGGCAAATCTTATCTC
*
12990470 CCTAAAGTTGCAGTGGAGCAGATT
194 CCTGAAGTTGCAGTGGAGCAGATT
* *
12990494 AGAGCCGATAATCCCT-TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTC
1 AAAGCCGATAAT-CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTC
* * *
12990558 TCTAAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTA
65 TCTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA
* * *
12990623 AGTAAGCAAGTCTTATCCTCTTGAAGTTGCAGTGGTGCAGACTGAATATGGCAAATATTATCTCC
130 AGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATGGCAAATCTTATCTCC
12990688 CTGAAGTTGCAGTGGAGCAGATT
195 CTGAAGTTGCAGTGGAGCAGATT
* * *
12990711 AGAGCCGATAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
* * * *
12990776 CTGAAGTTTTAGAGAGCAGATCGCATCTAGTCTTATCTCCATGAAGTTACAGTGGAGTAGACTAA
66 CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* *
12990841 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATTGCAAACCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATGGCAAATCTTATCTCCC
* * * *
12990906 TGAGGATGAAGTGGAGCAGGTT
196 TGAAGTTGCAGTGGAGCAGATT
* * * * *
12990928 AAAGCCGATAATCCTATCCCCCTGAAATTGCAGTGGAGCAGATTAAATCCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
*
12990993 CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAA
66 CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* *
12991058 GTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCC
131 GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATGGCAAATCTTATCTCCC
12991123 TGAAGTTGCAGTGGAGCAGATT
196 TGAAGTTGCAGTGGAGCAGATT
* *
12991145 AAAAGTCGATAATCCTATCTCCCTGAAGTTGCAATGGAGC
1 -AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGC
12991185 AGACTAAGTA
Statistics
Matches: 626, Mismatches: 60, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
216 4 0.01
217 582 0.93
218 40 0.06
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (217 bp):
AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
GTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGTGCAGACTGAAGATGGCAAATCTTATCTCCC
TGAAGTTGCAGTGGAGCAGATT
Found at i:12993136 original size:13 final size:13
Alignment explanation
Indices: 12993112--12993165 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
12993102 ACCTTTATTC
*
12993112 TTTATATTTTTTTG
1 TTTAT-TTTTTTTA
12993126 TTTATTTTTTTTA
1 TTTATTTTTTTTA
12993139 TTTATTTATGTTTTCA
1 TTTATTT-T-TTTT-A
*
12993155 TTAATTTTTTT
1 TTTATTTTTTT
12993166 ATCTTGCTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 14 0.40
14 9 0.26
15 5 0.14
16 7 0.20
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:12993304 original size:19 final size:20
Alignment explanation
Indices: 12993258--12993304 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
12993248 ATATCATTTC
* *
12993258 TATACCATTGTAATATTTAT
1 TATAGCATTGTAATATTTAA
*
12993278 TATTGCATTGT-ATATTTAA
1 TATAGCATTGTAATATTTAA
*
12993297 TGTAGCAT
1 TATAGCAT
12993305 CACATCATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (20 bp):
TATAGCATTGTAATATTTAA
Found at i:12994318 original size:30 final size:29
Alignment explanation
Indices: 12994284--12994361 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
12994274 GCTAAGTATT
12994284 GTTCTGGAAAAAATAATTTTGACAAGATGG
1 GTTCT-GAAAAAATAATTTTGACAAGATGG
* ** *
12994314 GTTCTGAAAAAATAAATTTGACGTGATGT
1 GTTCTGAAAAAATAATTTTGACAAGATGG
*
12994343 GTTCTGAAAAAATTATTTT
1 GTTCTGAAAAAATAATTTT
12994362 AAAAACGCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 37 0.88
30 5 0.12
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.36
Consensus pattern (29 bp):
GTTCTGAAAAAATAATTTTGACAAGATGG
Found at i:12994634 original size:12 final size:12
Alignment explanation
Indices: 12994619--12994651 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
12994609 GAGCTTTTTT
12994619 GAGAAATTTAGA
1 GAGAAATTTAGA
12994631 GAGAAATTTAGA
1 GAGAAATTTAGA
12994643 GAGAAATTT
1 GAGAAATTT
12994652 GGAAGAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.27
Consensus pattern (12 bp):
GAGAAATTTAGA
Found at i:12995245 original size:23 final size:24
Alignment explanation
Indices: 12995193--12995250 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
12995183 TTTAATAACG
* *
12995193 TATATATTTATTATTTAATCTAAA
1 TATATTTTTATTATTTAATATAAA
*
12995217 TTATATTTTTATTATTTATTATAAA
1 -TATATTTTTATTATTTAATATAAA
12995242 -ATATTTTTA
1 TATATTTTTA
12995251 AACACATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 9 0.30
25 21 0.70
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTTTTATTATTTAATATAAA
Found at i:12999342 original size:24 final size:24
Alignment explanation
Indices: 12999306--12999351 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
12999296 CCCATCGCCT
*
12999306 TATGAGATTCAAACACCTCCACCG
1 TATGAGATGCAAACACCTCCACCG
*
12999330 TATGTGATGCAAACACCTCCAC
1 TATGAGATGCAAACACCTCCAC
12999352 ATTCTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.22
Consensus pattern (24 bp):
TATGAGATGCAAACACCTCCACCG
Found at i:13002562 original size:13 final size:13
Alignment explanation
Indices: 13002544--13002573 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13002534 AACCCTCAAT
*
13002544 TTTTCTTTTTTTC
1 TTTTCTTTCTTTC
13002557 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
13002570 TTTT
1 TTTT
13002574 TCCTGTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:13002941 original size:17 final size:17
Alignment explanation
Indices: 13002891--13002941 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
13002881 TTTATTCCAT
*
13002891 AATATAATAATATAATTA
1 AATA-AATAATATATTTA
* *
13002909 ATATAAATTACA-ATTTA
1 A-ATAAATAATATATTTA
13002926 AATAAATAATATATTT
1 AATAAATAATATATTT
13002942 TATAATAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 8 0.31
17 9 0.35
18 6 0.23
19 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAATAATATATTTA
Found at i:13005353 original size:126 final size:125
Alignment explanation
Indices: 13005124--13005492 Score: 524
Period size: 126 Copynumber: 2.9 Consensus size: 125
13005114 TCAGGTCAAA
* * *
13005124 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGTTTTTTTCATCAATTTTGCTGATATTGT
1 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
* * *
13005189 ATCCTACTTGAAGCGTTTTTGACACTATTTGTTTAGAATTGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGTGTTTTTGACACTATTTGTTTAGAATTGTCTTCTCAAAATTA-TTTTC
13005250 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
* ** *
13005315 ATCCTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAATCATCTTCTCAAAACTATTTTC
66 ATCCTGCTTGAAGTGTTTTTGACACTATTTGTTTAGAATTGTCTTCTCAAAATTATTTTC
* * * * * * *
13005375 CAAGAACTACTGTAAAAAAAAAGCGTCCACGTGGGAGCTTTTTCCATCAATTTTGCTAACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
* * * *
13005440 ATCTTGCTTGAAGCT-TTTGTGATACTATTTGTTTAGAACTGTCTTCTCAAAAT
66 ATCCTGCTTGAAG-TGTTTTTGACACTATTTGTTTAGAATTGTCTTCTCAAAAT
13005493 AAATTGAATA
Statistics
Matches: 217, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
125 105 0.48
126 112 0.52
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (125 bp):
CAGGAACTACTGTAGAAAAAGAGCGTTCACGTGGGAGCTTTTTTCATCAATTTTGCTGATAGTGC
ATCCTGCTTGAAGTGTTTTTGACACTATTTGTTTAGAATTGTCTTCTCAAAATTATTTTC
Found at i:13005644 original size:35 final size:34
Alignment explanation
Indices: 13005569--13005698 Score: 154
Period size: 34 Copynumber: 3.8 Consensus size: 34
13005559 AACACAGTTA
* *
13005569 TTTTTAAAAAACACTAAACCTTAATTTAATTAAT
1 TTTTTTAAAAACACTAAACCCTAATTTAATTAAT
*
13005603 TTTTTTAAAAACTCTAAACCCTAATTTAATTAAT
1 TTTTTTAAAAACACTAAACCCTAATTTAATTAAT
* * *
13005637 TTATTTT-AAACCCCTAAAACCTAATTTAATTAAT
1 TT-TTTTAAAAACACTAAACCCTAATTTAATTAAT
** *
13005671 TTTTAAAAAAACCACTAAACCCTGATTT
1 TTTTTTAAAAA-CACTAAACCCTAATTT
13005699 GTTTTTTAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
33 2 0.02
34 62 0.77
35 17 0.21
ACGTcount: A:0.43, C:0.16, G:0.01, T:0.40
Consensus pattern (34 bp):
TTTTTTAAAAACACTAAACCCTAATTTAATTAAT
Found at i:13007332 original size:20 final size:19
Alignment explanation
Indices: 13007284--13007333 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
13007274 AAAATTTTTT
13007284 ATTTAATATATATTAAAATA
1 ATTTAA-ATATATTAAAATA
*
13007304 A-TTAGATATA-TAATAATTA
1 ATTTAAATATATTAA-AA-TA
13007323 ATTTAAATATA
1 ATTTAAATATA
13007334 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 6 0.24
20 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTTAAATATATTAAAATA
Found at i:13015193 original size:26 final size:25
Alignment explanation
Indices: 13015131--13015193 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
13015121 CCGGTTCATA
*
13015131 TTTTTCTATTGCTTTTGGACTGTTT
1 TTTTTCTATTGATTTTGGACTGTTT
* *
13015156 TTTTTATGTTGATTTTGGACTGTTT
1 TTTTTCTATTGATTTTGGACTGTTT
13015181 TTTTTCTTATTGA
1 TTTTTC-TATTGA
13015194 AAATTATCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 27 0.84
26 5 0.16
ACGTcount: A:0.11, C:0.08, G:0.16, T:0.65
Consensus pattern (25 bp):
TTTTTCTATTGATTTTGGACTGTTT
Found at i:13017545 original size:69 final size:69
Alignment explanation
Indices: 13017330--13017552 Score: 206
Period size: 69 Copynumber: 3.2 Consensus size: 69
13017320 GAGCTCCCAA
* * ** *
13017330 CTGTCACACTAAGGCTCGTAAGCAAAGAGT-G-TAGCCTCCAACATAGTTAGTTAGAGT-AAAGC
1 CTGTCACACTAAGGCTCGTAGGCGAAGAGTCGCT-GCCTCCAACATAGTTAGCGAGA-TCAAAAC
13017392 T-CTCAG
64 TCCT-AG
* * * * * *
13017398 CTGCCACACTAAGGCTCGTAGGCGAAGAG-CTACAGCTTCCAACACAGTTAGCGAGAGCAAAACT
1 CTGTCACACTAAGGCTCGTAGGCGAAGAGTC-GCTGCCTCCAACATAGTTAGCGAGATCAAAACT
*
13017462 CAC-AA
65 C-CTAG
* * *
13017467 TTGTTACACTAAGGCTCGCAGGCGAAGAGTCGCTGCCTCCAACATAGTTAGCGAGATCAAAACTC
1 CTGTCACACTAAGGCTCGTAGGCGAAGAGTCGCTGCCTCCAACATAGTTAGCGAGATCAAAACTC
13017532 CTAG
66 CTAG
* *
13017536 CTATCACACTAGGGCTC
1 CTGTCACACTAAGGCTC
13017553 AGATGCGACA
Statistics
Matches: 121, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
68 27 0.22
69 92 0.76
70 1 0.01
71 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (69 bp):
CTGTCACACTAAGGCTCGTAGGCGAAGAGTCGCTGCCTCCAACATAGTTAGCGAGATCAAAACTC
CTAG
Found at i:13023339 original size:9 final size:9
Alignment explanation
Indices: 13023325--13023418 Score: 64
Period size: 9 Copynumber: 10.0 Consensus size: 9
13023315 GCATAATTTT
13023325 TTATAAAAA
1 TTATAAAAA
13023334 TTATAAAAA
1 TTATAAAAA
* *
13023343 TAAT-TAAA
1 TTATAAAAA
13023351 TCTATTAAAAA
1 T-TA-TAAAAA
13023362 TTATAAAAA
1 TTATAAAAA
*
13023371 TTATTAGAAAC
1 TTA-TA-AAAA
* *
13023382 TAACTGAAAA
1 TTA-TAAAAA
**
13023392 CCATAAAAA
1 TTATAAAAA
*
13023401 TTATCAAAA
1 TTATAAAAA
13023410 TTATAAAAA
1 TTATAAAAA
13023419 AATATTAAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
8 4 0.06
9 41 0.64
10 9 0.14
11 10 0.16
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:13023350 original size:19 final size:18
Alignment explanation
Indices: 13023327--13023422 Score: 61
Period size: 19 Copynumber: 5.2 Consensus size: 18
13023317 ATAATTTTTT
13023327 ATAAAAATTATAAAAATA
1 ATAAAAATTATAAAAATA
* *
13023345 AT-TAAATCTATTAAAAATT
1 ATAAAAAT-TA-TAAAAATA
*
13023364 ATAAAAATTATTAGAAACTA
1 ATAAAAATTA-TA-AAAATA
* ** *
13023384 ACTGAAAACCATAAAAATT
1 A-TAAAAATTATAAAAATA
*
13023403 ATCAAAATTATAAAAA-A
1 ATAAAAATTATAAAAATA
13023420 ATA
1 ATA
13023423 TTAAAAACCA
Statistics
Matches: 58, Mismatches: 15, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
17 6 0.10
18 16 0.28
19 19 0.33
20 11 0.19
21 6 0.10
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAAAAATTATAAAAATA
Found at i:13023755 original size:22 final size:23
Alignment explanation
Indices: 13023699--13023756 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
13023689 CGACCCGTTT
* * *
13023699 TTAATTAAAATTAAAATTAGTTTT
1 TTAA-TAAAATTAAAACTAGATTG
13023723 TTAATAAAATTAAAACTA-ATTG
1 TTAATAAAATTAAAACTAGATTG
*
13023745 TTAGTAAAATTA
1 TTAATAAAATTA
13023757 TCAAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 13 0.43
23 13 0.43
24 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (23 bp):
TTAATAAAATTAAAACTAGATTG
Found at i:13023815 original size:66 final size:59
Alignment explanation
Indices: 13023759--13023878 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
13023749 TAAAATTATC
* * * *
13023759 AAATTAT-TAATTGTTAATTGCATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
13023817 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
13023876 AAA
1 AAA
13023879 CAAACTTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 6 0.11
59 49 0.89
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:13023973 original size:24 final size:26
Alignment explanation
Indices: 13023944--13023992 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
13023934 AAATAAACTT
*
13023944 AAAATAAAAAACTA-TT-ATATTTTA
1 AAAATAAAAAAATATTTAATATTTTA
13023968 AAAATAAAAAAATATTTAATATTTT
1 AAAATAAAAAAATATTTAATATTTT
13023993 TTGGGCCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 2 0.09
26 7 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAATAAAAAAATATTTAATATTTTA
Found at i:13027063 original size:59 final size:58
Alignment explanation
Indices: 13026970--13027119 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
13026960 GTACTTGTGG
* *
13026970 CTTGTGA-TTGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGACATGCTGGTT
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* * * *
13027027 CTTGTGACTTGTGGTTTACTTTTGGTGCCAAAACAAATTTAATCCTTGACATGCTGGTA
1 CTTGTGACTTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
* *
13027086 GTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
1 CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACA
13027120 TAGCAACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (58 bp):
CTTGTGACTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTA
Found at i:13027214 original size:26 final size:26
Alignment explanation
Indices: 13027161--13027216 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
13027151 AATGTCACAC
* *
13027161 ATTTTGAAGCTTCATTTTCTTTGATT
1 ATTTTGAAGCTTCAATTTCTATGATT
*
13027187 ATTTTGAA-CTTCAATTTCATATGCTT
1 ATTTTGAAGCTTCAATTTC-TATGATT
13027213 ATTT
1 ATTT
13027217 CAGATGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (26 bp):
ATTTTGAAGCTTCAATTTCTATGATT
Found at i:13027743 original size:120 final size:120
Alignment explanation
Indices: 13027605--13027828 Score: 439
Period size: 120 Copynumber: 1.9 Consensus size: 120
13027595 TAGTATTATA
*
13027605 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATA
1 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAATTATA
13027670 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
66 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
13027725 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAATTATA
1 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAATTATA
13027790 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
66 TATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
13027829 ATATGATTAA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 103 1.00
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAATTATA
TATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
Found at i:13027788 original size:61 final size:60
Alignment explanation
Indices: 13027605--13027793 Score: 206
Period size: 61 Copynumber: 3.1 Consensus size: 60
13027595 TAGTATTATA
13027605 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-TAAAT
* * ** ** * * * * *
13027666 TATATATTTTTATTAAATTATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTATAGTAT
1 TATATATTATGATTTTAGAAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATA-AAT
13027725 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTACTAAAT
1 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-TAAAT
13027786 TATATATT
1 TATATATT
13027794 TTTATTAAAT
Statistics
Matches: 98, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 6 0.06
59 32 0.33
60 14 0.14
61 40 0.41
62 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (60 bp):
TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAT
Found at i:13028071 original size:16 final size:16
Alignment explanation
Indices: 13028042--13028106 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
13028032 TTGATTTGCT
13028042 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
13028058 ATTACACCTTTATTCC
1 ATTACGCCTCTATTCC
13028074 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
13028090 ATTATGCTTCTATTCC
1 ATTACGCCTCTATTCC
13028106 A
1 A
13028107 ATACAGCGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:13031498 original size:80 final size:80
Alignment explanation
Indices: 13031402--13031560 Score: 318
Period size: 80 Copynumber: 2.0 Consensus size: 80
13031392 AAAAAAACCC
13031402 AATACTTATGATCTGTTTTTACAGGTCAAGGTTAAAAAAAAGCAGAAAGAAAGGAGGGAGAAGAA
1 AATACTTATGATCTGTTTTTACAGGTCAAGGTTAAAAAAAAGCAGAAAGAAAGGAGGGAGAAGAA
13031467 AGAAAAAAGCAAAAG
66 AGAAAAAAGCAAAAG
13031482 AATACTTATGATCTGTTTTTACAGGTCAAGGTTAAAAAAAAGCAGAAAGAAAGGAGGGAGAAGAA
1 AATACTTATGATCTGTTTTTACAGGTCAAGGTTAAAAAAAAGCAGAAAGAAAGGAGGGAGAAGAA
13031547 AGAAAAAAGCAAAA
66 AGAAAAAAGCAAAA
13031561 AGAAAAGGAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.52, C:0.08, G:0.23, T:0.18
Consensus pattern (80 bp):
AATACTTATGATCTGTTTTTACAGGTCAAGGTTAAAAAAAAGCAGAAAGAAAGGAGGGAGAAGAA
AGAAAAAAGCAAAAG
Found at i:13034921 original size:30 final size:30
Alignment explanation
Indices: 13034887--13035015 Score: 159
Period size: 30 Copynumber: 4.0 Consensus size: 30
13034877 CACTATTTTG
13034887 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
*
13034917 TATGAGTCATAAAAGTGAGTTTGTTTGTTGGAAAAA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTT------A
* *
13034953 TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTA
1 --TATGAGTCATAAAAGTAAGTTTGTTTGTTA
13034985 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
13035015 T
1 T
13035016 GTAAAGGAGA
Statistics
Matches: 85, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
30 57 0.67
32 1 0.01
36 1 0.01
38 26 0.31
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (30 bp):
TATGAGTCATAAAAGTAAGTTTGTTTGTTA
Found at i:13034969 original size:68 final size:68
Alignment explanation
Indices: 13034885--13035013 Score: 231
Period size: 68 Copynumber: 1.9 Consensus size: 68
13034875 TTCACTATTT
* * *
13034885 TGTATGAGTCATAAAAGTAAGTTTGTTTGTTATATGAGTCATAAAAGTGAGTTTGTTTGTTGGAA
1 TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTATATGAGTCATAAAAGTAAGTTTGTTTGTTGGAA
13034950 AAA
66 AAA
13034953 TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTATATGAGTCATAAAAGTAAGTTTGTTTGTT
1 TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTATATGAGTCATAAAAGTAAGTTTGTTTGTT
13035014 ATGTAAAGGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (68 bp):
TGTATGAGTCAAAAAAGTAAGTTTCTTTGTTATATGAGTCATAAAAGTAAGTTTGTTTGTTGGAA
AAA
Found at i:13041086 original size:48 final size:48
Alignment explanation
Indices: 13041027--13041136 Score: 184
Period size: 48 Copynumber: 2.3 Consensus size: 48
13041017 TGAGCTTATT
** *
13041027 AATGTTGTCCAAATTGGTGCTTAATTGTTGTCTATTTTTGTACAAATC
1 AATGTTGTCCAAATTGGTGCTTAATTACTGTCCATTTTTGTACAAATC
*
13041075 AATGCTGTCCAAATTGGTGCTTAATTACTGTCCATTTTTGTACAAATC
1 AATGTTGTCCAAATTGGTGCTTAATTACTGTCCATTTTTGTACAAATC
13041123 AATGTTGTCCAAAT
1 AATGTTGTCCAAAT
13041137 GTTGTTACTA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (48 bp):
AATGTTGTCCAAATTGGTGCTTAATTACTGTCCATTTTTGTACAAATC
Found at i:13050034 original size:30 final size:30
Alignment explanation
Indices: 13049983--13050103 Score: 106
Period size: 30 Copynumber: 3.9 Consensus size: 30
13049973 ATTTTGTATG
13049983 AGTCATAAAAGTAA----GTTTGTTATATA
1 AGTCATAAAAGTAAGTTTGTTTGTTATATA
* *
13050009 AGTCATAAAAGTAAGTTTTTTTGTTATAAAA
1 AGTCATAAAAGTAAGTTTGTTTGTTAT-ATA
*
13050040 AGGTACGAGTTAAAAAAGTAAGTTTGTTTGTTATATG
1 A-GT-C-A--T--AAAAGTAAGTTTGTTTGTTATATA
*
13050077 AGTCATAAAAATAAGTTTGTTTGTTAT
1 AGTCATAAAAGTAAGTTTGTTTGTTAT
13050104 GTAAAGGAGA
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
26 14 0.18
30 28 0.36
31 3 0.04
32 3 0.04
33 1 0.01
34 2 0.03
35 1 0.01
36 3 0.04
37 2 0.03
38 20 0.26
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.40
Consensus pattern (30 bp):
AGTCATAAAAGTAAGTTTGTTTGTTATATA
Found at i:13053228 original size:15 final size:15
Alignment explanation
Indices: 13053190--13053229 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13053180 AACTGGCTAA
13053190 ATTATATTAATC-AT
1 ATTATATTAATCAAT
13053204 -TTA-A-TAATCAAT
1 ATTATATTAATCAAT
13053216 ATTATATTAATCAA
1 ATTATATTAATCAA
13053230 ATTTTTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.23
12 3 0.14
13 6 0.27
14 1 0.05
15 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATATTAATCAAT
Found at i:13059852 original size:26 final size:26
Alignment explanation
Indices: 13059821--13059872 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13059811 ATTGAATCAC
13059821 TACATAATTAAAAACATTACATAAGT
1 TACATAATTAAAAACATTACATAAGT
13059847 TACATAATTAAAAACATTACATAAGT
1 TACATAATTAAAAACATTACATAAGT
13059873 CTTGAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (26 bp):
TACATAATTAAAAACATTACATAAGT
Found at i:13062749 original size:57 final size:57
Alignment explanation
Indices: 13062612--13062866 Score: 297
Period size: 57 Copynumber: 4.5 Consensus size: 57
13062602 GACATTGAAG
* * * * *
13062612 CAACA-CTTTAATTTAATTTAGGACAGCA-AAATAATACTCAATTTGAAACA-TTAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACACTAAAA
* * * *
13062667 CATCAAC-TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATACACTAAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
* * *
13062723 CACCAGCTTTAATTCAATTTATGACAGTATGAAAATGCTCAATTTGAAACACTAAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
* * *
13062780 CAACAGC-TTCATTCAATTTAAGATAGTATGAAAATGCTCAATTTGAAACACTCAAAA
1 CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACT-AAAA
* *
13062837 -AACAGCTTTAATTCAATTTATGACAACATG
1 CAACAGCTTTAATTCAATTTAAGACAGCATG
13062867 CAAACAGTAA
Statistics
Matches: 173, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
55 40 0.23
56 60 0.35
57 73 0.42
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.30
Consensus pattern (57 bp):
CAACAGCTTTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAA
Found at i:13062825 original size:113 final size:112
Alignment explanation
Indices: 13062613--13062861 Score: 324
Period size: 113 Copynumber: 2.2 Consensus size: 112
13062603 ACATTGAAGC
* * * *
13062613 AACA-CTTTAATTTAATTTAGGACAGCAAAATAATACTCAATTTGAAACATTAAACATCAACTTA
1 AACAGCTTTAATTCAATTTATGACAGCAAAATAATACTCAATTTGAAACATAAAACAACAACTTA
* *
13062677 ATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATACACT-AAAA
66 ATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTCAAAA
* * * * *
13062723 CACCAGCTTTAATTCAATTTATGACAGTATGAA-AATGCTCAATTTGAAACACTAAAACAACAGC
1 -AACAGCTTTAATTCAATTTATGACAGCA-AAATAATACTCAATTTGAAACA-TAAAACAACAAC
* * *
13062787 TTCATTCAATTTAAGATAGTATGAAAATGCTCAATTTGAAACACTCAAAA
63 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTCAAAA
13062837 AACAGCTTTAATTCAATTTATGACA
1 AACAGCTTTAATTCAATTTATGACA
13062862 ACATGCAAAC
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
111 3 0.03
112 37 0.31
113 75 0.63
114 4 0.03
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (112 bp):
AACAGCTTTAATTCAATTTATGACAGCAAAATAATACTCAATTTGAAACATAAAACAACAACTTA
ATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTCAAAA
Found at i:13063619 original size:66 final size:67
Alignment explanation
Indices: 13063543--13063673 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 67
13063533 ATAAAAATTT
13063543 ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATAT-TCTTC
1 ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATATATCTTC
13063607 AG
66 AG
13063609 ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATATATCTTC
1 ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATATATCTTC
13063674 CGAACCAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
66 59 0.92
67 5 0.08
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (67 bp):
ATACAACTCTATGGATACAAACCTCTTCATCAAGTCACTAACTACTAACATATACATATATCTTC
AG
Found at i:13064137 original size:19 final size:19
Alignment explanation
Indices: 13064113--13064151 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13064103 AAGAAAAATT
*
13064113 AGAGAAAAAGATGAGAAAA
1 AGAGAAAAAGAAGAGAAAA
13064132 AGAGAAAAAGAAGAGAAAA
1 AGAGAAAAAGAAGAGAAAA
13064151 A
1 A
13064152 TTTGTGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAGAAAAAGAAGAGAAAA
Found at i:13064797 original size:32 final size:30
Alignment explanation
Indices: 13064761--13064834 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 30
13064751 TACAAAATAA
*
13064761 TATTTTATATTAAATTATATTAAAAGATTTTT
1 TATTTTATATTAAATTAT-TTAAAAGA-TCTT
*
13064793 TATTTTTATATTAAATTATTTAAAATATCTT
1 TA-TTTTATATTAAATTATTTAAAAGATCTT
*
13064824 CATTTTATATT
1 TATTTTATATT
13064835 TTTCTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.24
31 4 0.11
32 9 0.24
33 16 0.42
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (30 bp):
TATTTTATATTAAATTATTTAAAAGATCTT
Found at i:13068303 original size:25 final size:24
Alignment explanation
Indices: 13068249--13068320 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
13068239 ATTGGCTTGT
* *
13068249 ATGAGCTTTCCATTAATGGCTCCC
1 ATGAGCTTTCCGTTAATGGCTCAC
** *
13068273 CGGAGCTTCCCGTTACATGGCTCAC
1 ATGAGCTTTCCGTTA-ATGGCTCAC
*
13068298 ATGAGCTTTCCGTTTATGTGCTC
1 ATGAGCTTTCCGTTAATG-GCTC
13068321 GTATGAGCAT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
24 14 0.38
25 23 0.62
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (24 bp):
ATGAGCTTTCCGTTAATGGCTCAC
Found at i:13069526 original size:43 final size:43
Alignment explanation
Indices: 13069477--13069560 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
13069467 GATACGAGCA
*
13069477 TGTCTCTTGACCGTGTAAACCACACGGCCTGGCCACACGGATG
1 TGTCTCTTAACCGTGTAAACCACACGGCCTGGCCACACGGATG
*
13069520 TGTCTCTTAACCGTGTGAACCACACGGCCTGGCCACACGGA
1 TGTCTCTTAACCGTGTAAACCACACGGCCTGGCCACACGGA
13069561 CTTGTGTCCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.33, G:0.25, T:0.20
Consensus pattern (43 bp):
TGTCTCTTAACCGTGTAAACCACACGGCCTGGCCACACGGATG
Found at i:13069991 original size:12 final size:12
Alignment explanation
Indices: 13069974--13070002 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
13069964 AGAAAACTTA
13069974 TTTTTTTAAAAT
1 TTTTTTTAAAAT
13069986 TTTTTTTAAAAT
1 TTTTTTTAAAAT
13069998 TTTTT
1 TTTTT
13070003 ATCTTAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTTTAAAAT
Found at i:13070890 original size:23 final size:23
Alignment explanation
Indices: 13070867--13070910 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
13070857 TTTTATATAT
13070867 TTTTTCTTT-T-TTTCTTTCTTTA
1 TTTTTCTTTCTCTTT-TTTCTTTA
13070889 TTTTTCTTTCTCTTTTTTCTTT
1 TTTTTCTTTCTCTTTTTTCTTT
13070911 TCTTCTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 8 0.40
24 3 0.15
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTCTTTCTCTTTTTTCTTTA
Found at i:13070894 original size:14 final size:13
Alignment explanation
Indices: 13070869--13070914 Score: 60
Period size: 14 Copynumber: 3.6 Consensus size: 13
13070859 TTATATATTT
13070869 TTTCT-TTTTTTC
1 TTTCTCTTTTTTC
*
13070881 TTTCTTTATTTTTC
1 TTTCTCT-TTTTTC
13070895 TTTCTCTTTTTTC
1 TTTCTCTTTTTTC
13070908 TTT-TCTT
1 TTTCTCTT
13070915 CTCTCAATGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 9 0.29
13 10 0.32
14 12 0.39
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTCTTTTTTC
Found at i:13071666 original size:57 final size:57
Alignment explanation
Indices: 13071556--13071692 Score: 186
Period size: 57 Copynumber: 2.4 Consensus size: 57
13071546 CAAAATTTCT
* *
13071556 AGGGTAAAAATATAATTTTAGGAAAAATTAAAGGCCAAAATGTAAATAGTAAAAAGTTA
1 AGGGTCAAAATGTAATTTTAGGAAAAATT--AGGCCAAAATGTAAATAGTAAAAAGTTA
* * *
13071615 GGGGTCAAAGTGTAATTTTAGGAAAAATT-GGCCCAAAATGTAAATATTAAAAAGTTA
1 AGGGTCAAAATGTAATTTTAGGAAAAATTAGG-CCAAAATGTAAATAGTAAAAAGTTA
13071672 AGGGTCAAAATGTAAATTTTA
1 AGGGTCAAAATGT-AATTTTA
13071693 AAAAGTTAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
56 2 0.03
57 35 0.51
58 7 0.10
59 25 0.36
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.28
Consensus pattern (57 bp):
AGGGTCAAAATGTAATTTTAGGAAAAATTAGGCCAAAATGTAAATAGTAAAAAGTTA
Found at i:13071709 original size:30 final size:30
Alignment explanation
Indices: 13071591--13071750 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 30
13071581 AATTAAAGGC
**
13071591 CAAAATGTAAATAGTAAAAAGTT-AGGGGT
1 CAAAATGTAAATTTTAAAAAGTTAAGGGGT
* * **
13071620 CAAAGTGT-AATTTTAGGAAAAATT---GGCC
1 CAAAATGTAAATTTTA--AAAAGTTAAGGGGT
*
13071648 CAAAATGTAAATATTAAAAAGTTAA-GGGT
1 CAAAATGTAAATTTTAAAAAGTTAAGGGGT
13071677 CAAAATGTAAATTTTAAAAAGTTAAGGGGT
1 CAAAATGTAAATTTTAAAAAGTTAAGGGGT
* * * *
13071707 CAAAATATAATTTTTTAAAAGTTAAGTGGT
1 CAAAATGTAAATTTTAAAAAGTTAAGGGGT
*
13071737 -AAAATGGAAATTTT
1 CAAAATGTAAATTTT
13071751 TTTATCAAAT
Statistics
Matches: 106, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
27 6 0.06
28 14 0.13
29 50 0.47
30 36 0.34
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (30 bp):
CAAAATGTAAATTTTAAAAAGTTAAGGGGT
Found at i:13071718 original size:29 final size:31
Alignment explanation
Indices: 13071648--13071751 Score: 110
Period size: 30 Copynumber: 3.5 Consensus size: 31
13071638 AAAATTGGCC
* *
13071648 CAAAATGTAAA-TATTAAAAAGTTAA-GGGT
1 CAAAATATAAATTTTTAAAAAGTTAAGGGGT
*
13071677 CAAAATGTAAA-TTTTAAAAAGTTAAGGGGT
1 CAAAATATAAATTTTTAAAAAGTTAAGGGGT
* *
13071707 CAAAATAT-AATTTTTTAAAAGTTAAGTGGT
1 CAAAATATAAATTTTTAAAAAGTTAAGGGGT
**
13071737 -AAAATGGAAATTTTT
1 CAAAATATAAATTTTT
13071752 TTATCAAATC
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
29 31 0.47
30 35 0.53
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (31 bp):
CAAAATATAAATTTTTAAAAAGTTAAGGGGT
Found at i:13072041 original size:77 final size:76
Alignment explanation
Indices: 13071912--13072246 Score: 361
Period size: 77 Copynumber: 4.4 Consensus size: 76
13071902 TTTTTTTATT
* * * *
13071912 TTTTTTGAAAAATAGAAATTGAAAATACCTCGGTGTGCGAACTGAGGCTCAACTCACCTATCGGA
1 TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTATCGGA
13071977 TTATAAGTTGA
66 TTATAAGTTGA
* ** * ** * * *
13071988 TTTTTTTGAAAAATAAAAATTGATCATACCTCAGCGTGCGACCCGAAAATCAACTCATCTCTCGA
1 -TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTATCGG
*
13072053 ATTGTGAA-TTGA
65 ATTAT-AAGTTGA
* *
13072065 -TGTTTGAAAAATAGAAATAGAAAATTTACCTCGGCGTGCGACCCGAAGCTCAACTCACCTATCG
1 TTTTTTGAAAAATAGAAATTGAAAA--TACCTCGGCGTGCGACCCGAAGCTCAACTCACCTATCG
**
13072129 GATTATGGGTT-A
64 GATTATAAGTTGA
* * * *
13072141 ATTTTTGAGAAAATAGAAATTGAGAATATACCTCGGCGTGCGACCAGATGCTCAACTCACCTCTC
1 TTTTTTGA-AAAATAGAAATTGA-AA-ATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTATC
*
13072206 GGATTATGAGTTGA
63 GGATTATAAGTTGA
* *
13072220 TTTTTTGAAAAACAAAAATTGAAAATA
1 TTTTTTGAAAAATAGAAATTGAAAATA
13072247 ATATTTGAAA
Statistics
Matches: 212, Mismatches: 37, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
75 19 0.09
76 4 0.02
77 106 0.50
78 72 0.34
79 10 0.05
80 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (76 bp):
TTTTTTGAAAAATAGAAATTGAAAATACCTCGGCGTGCGACCCGAAGCTCAACTCACCTATCGGA
TTATAAGTTGA
Found at i:13084824 original size:21 final size:20
Alignment explanation
Indices: 13084798--13084854 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
13084788 TTTATATTTT
13084798 TTCTTTTTTCTTTCTTTCTTC
1 TTCTTTTTTCTTTCTTTC-TC
* *
13084819 TTCTTTCTTCTTTTTTTCTC
1 TTCTTTTTTCTTTCTTTCTC
*
13084839 -TGTTTTTTCTCTTCTT
1 TTCTTTTTTCT-TTCTT
13084855 CCCTCAGTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 8 0.27
20 6 0.20
21 16 0.53
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (20 bp):
TTCTTTTTTCTTTCTTTCTC
Found at i:13084836 original size:11 final size:11
Alignment explanation
Indices: 13084794--13084854 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 11
13084784 TTTTTTTATA
13084794 TTTTTTCTT-T
1 TTTTTTCTTCT
13084804 TTTCTTTCTTTCT
1 TTT-TTTC-TTCT
13084817 TCTTCTTTCTTCT
1 T-TT-TTTCTTCT
*
13084830 TTTTTTCTCTGT
1 TTTTTTCT-TCT
13084842 TTTTTCTCTTCT
1 TTTTT-TCTTCT
13084854 T
1 T
13084855 CCCTCAGTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
10 3 0.07
11 9 0.21
12 14 0.33
13 10 0.23
14 7 0.16
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTTTCTTCT
Found at i:13084837 original size:18 final size:18
Alignment explanation
Indices: 13084794--13084834 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13084784 TTTTTTTATA
*
13084794 TTTTTTCTTTTTTCTTTC
1 TTTTTTCTTCTTTCTTTC
*
13084812 TTTCTTCTTCTTTC-TTC
1 TTTTTTCTTCTTTCTTTC
13084829 TTTTTT
1 TTTTTT
13084835 TCTCTGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTCTTCTTTCTTTC
Found at i:13084979 original size:17 final size:16
Alignment explanation
Indices: 13084936--13084979 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
13084926 CCCCTTTCTC
*
13084936 TCCTTTTGCTTTCTTTT
1 TCCTTTT-CTTTCTCTT
13084953 TCCTTCTTCTTTCTCTT
1 TCCTT-TTCTTTCTCTT
13084970 TCTCTTTTCT
1 TC-CTTTTCT
13084980 CATTCTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (16 bp):
TCCTTTTCTTTCTCTT
Found at i:13085574 original size:31 final size:30
Alignment explanation
Indices: 13085539--13085610 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
13085529 GTTGAGGCCT
* *
13085539 AAAATATAAATAGTAAAAA-TTTAGGGCGTTC
1 AAAATATAAATAGTAAAAAGTTGAAGG-G-TC
**
13085570 AAAATATAAATTTTAAAAAGTTGAAGGGTC
1 AAAATATAAATAGTAAAAAGTTGAAGGGTC
13085600 AAAATATAAAT
1 AAAATATAAAT
13085611 TTTAGATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 13 0.36
31 18 0.50
32 5 0.14
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (30 bp):
AAAATATAAATAGTAAAAAGTTGAAGGGTC
Found at i:13098911 original size:52 final size:52
Alignment explanation
Indices: 13098850--13098952 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
13098840 TGATTTAACA
13098850 AGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTACT
1 AGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTACT
13098902 AGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTAC
1 AGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTAC
13098953 ATACTGCAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (52 bp):
AGTTTCATTTGAAGTTTTGACAAAAAGAATTGCTATCAATTACTGATCTACT
Found at i:13098974 original size:52 final size:51
Alignment explanation
Indices: 13098866--13098974 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 51
13098856 ATTTGAAGTT
* * * *
13098866 TTGACAAAAAGAATTGCTATCAATTACTGATCTACTAGTTTCATTTGAAGTT
1 TTGACAAAAAGAATTGCTATCAATTACTGATCTACTAGCTGCATGTGAAG-A
13098918 TTGACAAAAAGAATTGCTATCAATTACTGATCTACATA-CTGCAATGGTGAA-A
1 TTGACAAAAAGAATTGCTATCAATTACTGATCTAC-TAGCTGC-AT-GTGAAGA
13098970 TTGAC
1 TTGAC
13098975 TTAAATTCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
52 42 0.84
53 4 0.08
54 4 0.08
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (51 bp):
TTGACAAAAAGAATTGCTATCAATTACTGATCTACTAGCTGCATGTGAAGA
Found at i:13105947 original size:15 final size:15
Alignment explanation
Indices: 13105927--13105957 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13105917 AAAAAACCTA
*
13105927 TATATATGTATATTT
1 TATATATATATATTT
13105942 TATATATATATATTT
1 TATATATATATATTT
13105957 T
1 T
13105958 TGCAACTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TATATATATATATTT
Found at i:13106606 original size:98 final size:98
Alignment explanation
Indices: 13106488--13106684 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
13106478 TAAAAAATAA
*
13106488 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
13106553 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
*
13106586 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
13106651 TTAAATCTTGTATAAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
13106684 T
1 T
13106685 TTTATTGCAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
Found at i:13107629 original size:18 final size:19
Alignment explanation
Indices: 13107602--13107640 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13107592 AATTATTTAA
* *
13107602 ATTTTATTTAACATTTTTT
1 ATTTTATTTAAAATATTTT
13107621 ATTTT-TTTAAAATATTTT
1 ATTTTATTTAAAATATTTT
13107639 AT
1 AT
13107641 ATATAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTATTTAAAATATTTT
Found at i:13107916 original size:12 final size:12
Alignment explanation
Indices: 13107884--13107916 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13107874 AAAGACTTTC
13107884 CAACTGCAATCG
1 CAACTGCAATCG
13107896 CAA-TCGCAATCG
1 CAACT-GCAATCG
13107908 CAACTGCAA
1 CAACTGCAA
13107917 CAATAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.36, C:0.33, G:0.15, T:0.15
Consensus pattern (12 bp):
CAACTGCAATCG
Found at i:13110832 original size:29 final size:29
Alignment explanation
Indices: 13110790--13110846 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
13110780 GATGTAGATG
13110790 TAGAAGTAGTGATATAATTAACAACTAAC
1 TAGAAGTAGTGATATAATTAACAACTAAC
13110819 TAGAAGTAGTGATATAATTAACAACTAA
1 TAGAAGTAGTGATATAATTAACAACTAA
13110847 ATTCAAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (29 bp):
TAGAAGTAGTGATATAATTAACAACTAAC
Found at i:13111490 original size:2 final size:2
Alignment explanation
Indices: 13111483--13111510 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13111473 TTATGGCGCA
13111483 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
13111511 TTTGAAGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13112262 original size:3 final size:3
Alignment explanation
Indices: 13112256--13112305 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
13112246 CAATGAAGGA
13112256 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
13112304 GA
1 GA
13112306 GGCCCTGATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:13112471 original size:16 final size:16
Alignment explanation
Indices: 13112450--13112483 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
13112440 GGGCGCAAGA
13112450 GAGGCACAACACCAAT
1 GAGGCACAACACCAAT
13112466 GAGGCACAACACCAAT
1 GAGGCACAACACCAAT
13112482 GA
1 GA
13112484 TTGAGGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (16 bp):
GAGGCACAACACCAAT
Found at i:13121004 original size:17 final size:16
Alignment explanation
Indices: 13120982--13121015 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13120972 GGGGATAGAG
13120982 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
13120999 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
13121015 T
1 T
13121016 CATAATATTT
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:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:13134174 original size:5 final size:5
Alignment explanation
Indices: 13134164--13134191 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13134154 GAACAAATAT
13134164 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATT
13134192 TGAATTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (5 bp):
ATTCG
Found at i:13134635 original size:27 final size:27
Alignment explanation
Indices: 13134597--13134662 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
13134587 ACCCAGTCAT
* * *
13134597 TAAACATGGGGTCGTCCACTGGGACAG
1 TAAACATGGGGTAGCCCACTGGGACAA
* *
13134624 TAAACATGGGGTAGCCCATTGGGATAA
1 TAAACATGGGGTAGCCCACTGGGACAA
*
13134651 TAAACACGGGGT
1 TAAACATGGGGT
13134663 GGAAGGGGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (27 bp):
TAAACATGGGGTAGCCCACTGGGACAA
Found at i:13140659 original size:12 final size:12
Alignment explanation
Indices: 13140642--13140669 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13140632 TAAAATGAAG
13140642 AATATTAACAAA
1 AATATTAACAAA
13140654 AATATTAACAAA
1 AATATTAACAAA
13140666 AATA
1 AATA
13140670 GCCACAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (12 bp):
AATATTAACAAA
Found at i:13145644 original size:47 final size:47
Alignment explanation
Indices: 13145587--13145890 Score: 416
Period size: 47 Copynumber: 6.4 Consensus size: 47
13145577 ATTGATGTAC
* * *
13145587 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
13145634 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
13145683 ACA-TGTGTATGTGTGATAAGGCCGAATGGTCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
13145730 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
13145777 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
13145824 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
13145871 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
13145891 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:13145768 original size:22 final size:22
Alignment explanation
Indices: 13145741--13145862 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
13145731 CATGTGTATG
13145741 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
13145763 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
13145788 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
13145810 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
13145835 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
13145857 TGTGAT
1 TGTGAT
13145863 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:13148532 original size:39 final size:40
Alignment explanation
Indices: 13148446--13148544 Score: 175
Period size: 39 Copynumber: 2.5 Consensus size: 40
13148436 AGGTCTCGAC
*
13148446 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
13148485 GATGTATCCGGGCTAAGTCCCGAAGAGCATT-ATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
13148524 GATGTATCCGGGCTAAGTCCC
1 GATGTATCCGGGCTAAGTCCC
13148545 TGTGACAGCC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
39 32 0.55
40 26 0.45
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:13150698 original size:40 final size:40
Alignment explanation
Indices: 13150574--13150784 Score: 250
Period size: 40 Copynumber: 5.3 Consensus size: 40
13150564 CATTTGAATG
* *
13150574 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * *
13150614 TTATCCGGGTTAAGA-CCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
13150653 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
13150693 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
13150733 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
13150773 ATATCC-GGCTAA
1 ATATCCGGGCTAA
13150785 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 44 0.29
40 104 0.69
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:13152199 original size:40 final size:40
Alignment explanation
Indices: 13152144--13152410 Score: 381
Period size: 40 Copynumber: 6.7 Consensus size: 40
13152134 GGGGTGTTAC
* *
13152144 AGTCCCGAAGAGCATTCATGCTAGTGATGTACCCGGGCTA
1 AGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTA
*
13152184 AGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTA
1 AGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTA
13152224 AGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTA
1 AGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTA
* *
13152264 AGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTA
1 AGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTA
* * *
13152304 AGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTA
1 AGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTA
** * * *
13152344 AACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTA
1 AGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTA
* * * *
13152384 GGTCTCGAAGAGCAATCATGCTAGTGA
1 AGTCCCGAAGAGCATTCGTGCTAGTGA
13152411 CGTGTATTCG
Statistics
Matches: 204, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 204 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTA
Found at i:13168645 original size:21 final size:22
Alignment explanation
Indices: 13168618--13168667 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
13168608 TTTATTTCTA
13168618 TTAATTTAGTAAT-TTTTTATTT
1 TTAATTTA-TAATATTTTTATTT
*
13168640 TT-ATTT-TAATATTTTTGTTT
1 TTAATTTATAATATTTTTATTT
13168660 TTAATTTA
1 TTAATTTA
13168668 ATTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 8 0.33
22 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
TTAATTTATAATATTTTTATTT
Found at i:13168660 original size:20 final size:19
Alignment explanation
Indices: 13168627--13168678 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
13168617 ATTAATTTAG
*
13168627 TAATTTTTTATTTTTATTT
1 TAATTTTTTATTTTTAATT
*
13168646 TAATATTTTTGTTTTTAATT
1 TAAT-TTTTTATTTTTAATT
13168666 TAATTTTTATATT
1 TAATTTTT-TATT
13168679 CTAATTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TAATTTTTTATTTTTAATT
Found at i:13174458 original size:26 final size:28
Alignment explanation
Indices: 13174388--13174461 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
13174378 GCAGTTTAAA
*
13174388 AATAATA-AAGTAGATTATATATTATTTT
1 AATAATATAA-TATATTATATATTATTTT
*
13174416 AATAATATTATATATTATA-ATT-TTTT
1 AATAATATAATATATTATATATTATTTT
*
13174442 AATTCATATAATA-ATTATAT
1 AA-TAATATAATATATTATAT
13174462 TAAGAATGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 12 0.31
27 11 0.28
28 15 0.38
29 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (28 bp):
AATAATATAATATATTATATATTATTTT
Found at i:13174778 original size:16 final size:16
Alignment explanation
Indices: 13174757--13174811 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
13174747 TGAATTACTG
13174757 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
13174773 ATTACAGCTCTATTCA
1 ATTACAACTCTATTCC
*
13174789 ATTAC-ATTCCTATTCC
1 ATTACAACT-CTATTCC
13174805 ATTACAA
1 ATTACAA
13174812 TGAACCAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 1 0.03
16 30 0.94
17 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:13175729 original size:15 final size:16
Alignment explanation
Indices: 13175709--13175740 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13175699 TATTTATTTG
13175709 TTTTTG-TTTTTGTTT
1 TTTTTGTTTTTTGTTT
13175724 TTTTTGTTTTTTGTTT
1 TTTTTGTTTTTTGTTT
13175740 T
1 T
13175741 ATATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (16 bp):
TTTTTGTTTTTTGTTT
Found at i:13175747 original size:21 final size:21
Alignment explanation
Indices: 13175699--13175747 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
13175689 GTTTTATATT
*
13175699 TATTTATTTGTTTTTGTTTTTG
1 TATTT-TTTGTTTTTGTTTTTA
*
13175721 TTTTTTTTGTTTTT-TGTTTTA
1 TATTTTTTGTTTTTGT-TTTTA
13175742 TATTTT
1 TATTTT
13175748 ATAGTTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (21 bp):
TATTTTTTGTTTTTGTTTTTA
Found at i:13178499 original size:27 final size:27
Alignment explanation
Indices: 13178469--13178523 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
13178459 AATATATAAT
*
13178469 AATTA-TAAAATAATTAAATTTTACTTA
1 AATTATTAAAAT-ATTAAATTTTAATTA
* *
13178496 AATTATTAACATTTTAAATTTTAATTA
1 AATTATTAAAATATTAAATTTTAATTA
13178523 A
1 A
13178524 TTTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
AATTATTAAAATATTAAATTTTAATTA
Found at i:13187420 original size:43 final size:42
Alignment explanation
Indices: 13187271--13187429 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
13187261 AATGTGACAT
* * * *
13187271 CGTGTAAGACCACGTGTGGGACATTGGCCTCGATTTGA-GATTTA
1 CGTGTAAGACCACGTTTGGGAAATTGGCATC-ATAT-ATGA-TTA
* *
13187315 CGTGTAAGACCATGTTTGGGAAATTGGCATCATATATGGTTA
1 CGTGTAAGACCACGTTTGGGAAATTGGCATCATATATGATTA
* * * *
13187357 CGTGTAAGACC-CTGTCTGGGATAGTGGCATCATTATTTGATTA
1 CGTGTAAGACCAC-GTTTGGGAAATTGGCATCA-TATATGATTA
* *
13187400 CATGTAAGACCACGTTTGGGACATTGGCAT
1 CGTGTAAGACCACGTTTGGGAAATTGGCAT
13187430 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 31 0.33
43 36 0.38
44 28 0.29
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTTTGGGAAATTGGCATCATATATGATTA
Found at i:13206085 original size:19 final size:19
Alignment explanation
Indices: 13206061--13206098 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13206051 AAGTTAATAA
*
13206061 CAAATTTGATTACAGTGGG
1 CAAATTTAATTACAGTGGG
13206080 CAAATTTAATTACAGTGGG
1 CAAATTTAATTACAGTGGG
13206099 TGACAGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
CAAATTTAATTACAGTGGG
Found at i:13224080 original size:30 final size:31
Alignment explanation
Indices: 13224028--13224086 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
13224018 TTTGACTCTT
**
13224028 TTTCAAAAAGTTGATGGTCAAATTTAACTCA
1 TTTCAAAAAGTTGATGCCCAAATTTAACTCA
*
13224059 TTTCAAATA-TTGATGCCCAAATTTAACT
1 TTTCAAAAAGTTGATGCCCAAATTTAACT
13224087 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTCAAAAAGTTGATGCCCAAATTTAACTCA
Found at i:13238204 original size:14 final size:14
Alignment explanation
Indices: 13238164--13238212 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
13238154 TAAAACTTAG
13238164 TATTTAAGGATTTAA
1 TATTTAAGG-TTTAA
* * *
13238179 GATCTAACGTTTAA
1 TATTTAAGGTTTAA
13238193 TATTTAAGGTTTAA
1 TATTTAAGGTTTAA
*
13238207 CATTTA
1 TATTTA
13238213 GGATTTAAGG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (14 bp):
TATTTAAGGTTTAA
Found at i:13238207 original size:21 final size:21
Alignment explanation
Indices: 13238165--13238225 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
13238155 AAAACTTAGT
* *
13238165 ATTTAAGGATTTAAGATCTAAC
1 ATTTAA-GATTTAAGGTTTAAC
* *
13238187 GTTTAATATTTAAGGTTTAAC
1 ATTTAAGATTTAAGGTTTAAC
*
13238208 ATTTAGGATTTAAGGTTT
1 ATTTAAGATTTAAGGTTT
13238226 TTATGTAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATTTAAGATTTAAGGTTTAAC
Found at i:13241650 original size:2 final size:2
Alignment explanation
Indices: 13241643--13241695 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
13241633 AAATCCCTCC
13241643 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
13241685 CT CT CA CT CT C
1 CT CT CT CT CT C
13241696 ATTGTTCTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.02, C:0.51, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:13247003 original size:18 final size:18
Alignment explanation
Indices: 13246980--13247022 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
13246970 ATGCAAGTAG
13246980 TTTGGTTTG-TAATGTGAA
1 TTTGGTTTGATAAT-TGAA
13246998 TTTGGTTTGATAATTGAA
1 TTTGGTTTGATAATTGAA
13247016 TTGTGGT
1 TT-TGGT
13247023 GTCAATGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (18 bp):
TTTGGTTTGATAATTGAA
Found at i:13252395 original size:41 final size:42
Alignment explanation
Indices: 13252346--13252457 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
13252336 CCGAAGGCTG
* **
13252346 AACAGAAGCTTATGAGAGCTAAACGGAAAC-CATAAGGGTTA
1 AACAGAAGCTTATGAGAGCTAAACGAAAACTCATAAGCATTA
* ** *
13252387 AATAGAAGCTTAAAAGAGCTAAACGAAAACTCATATGCATTA
1 AACAGAAGCTTATGAGAGCTAAACGAAAACTCATAAGCATTA
* * *
13252429 AACAGAAGCTCATGAAACCTAAACGAAAA
1 AACAGAAGCTTATGAGAGCTAAACGAAAA
13252458 GTAAACACGA
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
41 26 0.46
42 31 0.54
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTTATGAGAGCTAAACGAAAACTCATAAGCATTA
Found at i:13258183 original size:30 final size:29
Alignment explanation
Indices: 13258147--13258206 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 29
13258137 GTCTCTGTCT
13258147 CAGATTCAACTCTTTCTGAGTCATCAAGTA
1 CAGATTCAACTCTTTCT-AGTCATCAAGTA
13258177 CAGATTCAACTCTTTCTAGTCATCAAGTA
1 CAGATTCAACTCTTTCTAGTCATCAAGTA
13258206 C
1 C
13258207 TTTAGACTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (29 bp):
CAGATTCAACTCTTTCTAGTCATCAAGTA
Found at i:13264804 original size:9 final size:9
Alignment explanation
Indices: 13264787--13264823 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13264777 TGAGTTTTCG
13264787 AATTCGAAT
1 AATTCGAAT
*
13264796 AACTCGAAT
1 AATTCGAAT
*
13264805 AATTTGAAT
1 AATTCGAAT
13264814 AATTCGAAT
1 AATTCGAAT
13264823 A
1 A
13264824 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13264944 original size:30 final size:30
Alignment explanation
Indices: 13264882--13264944 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
13264872 ACTTTTCCCT
* *
13264882 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCCTCCCACTTCCCCCC
13264912 CAAAACTTTTACTCCCCTCCC-C-TCCCCTCC
1 CAAAACTTTTACT-CCCTCCCACTTCCCC-CC
13264942 CAA
1 CAA
13264945 CCCCTCAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.14
30 19 0.66
31 6 0.21
ACGTcount: A:0.21, C:0.51, G:0.00, T:0.29
Consensus pattern (30 bp):
CAAAACTTTTACTCCCTCCCACTTCCCCCC
Found at i:13265076 original size:30 final size:31
Alignment explanation
Indices: 13265042--13265101 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
13265032 AAACCTTTTA
*
13265042 TTTTCCCAC-AAAATTTTTACTCCC-TCCCAC
1 TTTTCCC-CTAAAACTTTTACTCCCTTCCCAC
*
13265072 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
13265102 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.04
30 20 0.77
31 5 0.19
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:13267797 original size:20 final size:22
Alignment explanation
Indices: 13267772--13267812 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13267762 TTTAATCACC
13267772 AAATAG-GGG-AAAAATTAAAA
1 AAATAGAGGGTAAAAATTAAAA
*
13267792 AAATAGAGGGTCAAAATTAAA
1 AAATAGAGGGTAAAAATTAAA
13267813 TTATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.17
Consensus pattern (22 bp):
AAATAGAGGGTAAAAATTAAAA
Found at i:13268708 original size:20 final size:21
Alignment explanation
Indices: 13268683--13268722 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13268673 CTAAACTCCA
13268683 AACCTTGAA-CTCGAAGTTTG
1 AACCTTGAATCTCGAAGTTTG
*
13268703 AACCTTGAATCTCGAGGTTT
1 AACCTTGAATCTCGAAGTTT
13268723 AAGGTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
AACCTTGAATCTCGAAGTTTG
Found at i:13277489 original size:26 final size:26
Alignment explanation
Indices: 13277422--13277494 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
13277412 TCTCATCCTT
*
13277422 ATTTTACCCTTAGAAAAATTTTGACG
1 ATTTTACCCTTAGTAAAATTTTGACG
*
13277448 ATTTTACCCTTAGTAAAATTTTGATG
1 ATTTTACCCTTAGTAAAATTTTGACG
*
13277474 ATTTTTTCCCTT-GTAAAATTT
1 A-TTTTACCCTTAGTAAAATTT
13277495 CGAGAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 34 0.79
27 9 0.21
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.47
Consensus pattern (26 bp):
ATTTTACCCTTAGTAAAATTTTGACG
Found at i:13278303 original size:89 final size:89
Alignment explanation
Indices: 13278142--13278313 Score: 299
Period size: 89 Copynumber: 1.9 Consensus size: 89
13278132 TAACTCGTGG
* * *
13278142 CCACATTTATTTTTCATCAACTATGTAATGTCAATGAGAGGATATCATTTACCTATATTTTGGGC
1 CCACATTTACTTTTCATCAACTATGTAATGCCAATGAGAGGATATCATTTACCCATATTTTGGGC
*
13278207 TATGAATTCTACTATTGTAGGTTA
66 TATGAATTCCACTATTGTAGGTTA
*
13278231 CCACGTTTACTTTTCATCAACTATGTAATGCCAATGAGAGGATATCATTTACCCATATTTTGGGC
1 CCACATTTACTTTTCATCAACTATGTAATGCCAATGAGAGGATATCATTTACCCATATTTTGGGC
13278296 TATGAATTCCACTATTGT
66 TATGAATTCCACTATTGT
13278314 GAATGAAGCT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (89 bp):
CCACATTTACTTTTCATCAACTATGTAATGCCAATGAGAGGATATCATTTACCCATATTTTGGGC
TATGAATTCCACTATTGTAGGTTA
Found at i:13281138 original size:10 final size:10
Alignment explanation
Indices: 13281123--13281184 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
13281113 TTTGAACCAT
*
13281123 TACCAATTCG
1 TACCAATTCA
*
13281133 TACCAAATACCA
1 TACC-AAT-TCA
*
13281145 TACCATTTCA
1 TACCAATTCA
13281155 TACCAATTCCA
1 TACCAATT-CA
* *
13281166 TACCATTTCG
1 TACCAATTCA
13281176 TACCAATTC
1 TACCAATTC
13281185 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:13281168 original size:21 final size:21
Alignment explanation
Indices: 13281123--13281185 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
13281113 TTTGAACCAT
* *
13281123 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
13281145 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
13281166 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
13281186 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:13282306 original size:26 final size:26
Alignment explanation
Indices: 13282257--13282307 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
13282247 GTCACACACT
* * **
13282257 CGTGTGGCTAGGCCGTGTGCCTCTCC
1 CGTGTGGCCAAGCCGTGTAACTCTCC
13282283 CGTGTGGCCAAGCCGTGTAACTCTC
1 CGTGTGGCCAAGCCGTGTAACTCTC
13282308 TAACTTGGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.25
Consensus pattern (26 bp):
CGTGTGGCCAAGCCGTGTAACTCTCC
Found at i:13282452 original size:16 final size:16
Alignment explanation
Indices: 13282433--13282464 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13282423 GGCACTAAGC
13282433 AACTCAATTACTAATT
1 AACTCAATTACTAATT
13282449 AACTCAATTACTAATT
1 AACTCAATTACTAATT
13282465 GTTTAACCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
AACTCAATTACTAATT
Found at i:13287929 original size:40 final size:40
Alignment explanation
Indices: 13287756--13287942 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
13287746 GCTACTCGTT
*
13287756 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
13287796 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
13287836 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
13287876 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
*
13287916 CAAATGCCTTC-GGATCTTAGTCCGGAT
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT
13287943 ATCATTCAAA
Statistics
Matches: 141, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:13293555 original size:19 final size:20
Alignment explanation
Indices: 13293533--13293583 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
13293523 ATAGATGACA
*
13293533 AAAAATTATATAAATTA-TT
1 AAAAATTATATAAAGTATTT
13293552 AAAAATTCA-A-AAAGTATTT
1 AAAAATT-ATATAAAGTATTT
13293571 AAAAATTAT-TAAA
1 AAAAATTATATAAA
13293584 AGAACAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
18 6 0.22
19 20 0.74
20 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATTATATAAAGTATTT
Found at i:13293620 original size:11 final size:11
Alignment explanation
Indices: 13293596--13293634 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
13293586 AACAAAATAT
13293596 AAAA-ATTATGA
1 AAAATATTAT-A
13293607 AAAATATT-TA
1 AAAATATTATA
13293617 AAAATATTATA
1 AAAATATTATA
13293628 AAAATAT
1 AAAATAT
13293635 CGAAAAGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 14 0.54
12 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATATTATA
Found at i:13294363 original size:13 final size:13
Alignment explanation
Indices: 13294345--13294413 Score: 93
Period size: 13 Copynumber: 5.3 Consensus size: 13
13294335 AAAAGCACTT
*
13294345 AGCACTTCTCAAA
1 AGCACTTTTCAAA
* *
13294358 AGCACTTTTCCAC
1 AGCACTTTTCAAA
*
13294371 ATCACTTTTCAAA
1 AGCACTTTTCAAA
*
13294384 ATCACTTTTCAAA
1 AGCACTTTTCAAA
13294397 AGCACTTTTCAAA
1 AGCACTTTTCAAA
13294410 AGCA
1 AGCA
13294414 ATGAAGAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (13 bp):
AGCACTTTTCAAA
Found at i:13299007 original size:25 final size:25
Alignment explanation
Indices: 13298979--13299046 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
13298969 TTTATATGTG
*
13298979 AGCCTGTATGCTAGTATAATATGAA
1 AGCCTATATGCTAGTATAATATGAA
* * **
13299004 AGCCTATATGTTAGTGTAATATGCG
1 AGCCTATATGCTAGTATAATATGAA
* *
13299029 AGCCTATTTGTTAGTATA
1 AGCCTATATGCTAGTATA
13299047 TGCGAGCTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.37
Consensus pattern (25 bp):
AGCCTATATGCTAGTATAATATGAA
Found at i:13299066 original size:21 final size:22
Alignment explanation
Indices: 13299004--13299093 Score: 78
Period size: 22 Copynumber: 4.0 Consensus size: 22
13298994 ATAATATGAA
*
13299004 AGCCTATATGTTAGTGTAATATGCG
1 AGCCTATTTGTTA--GT-ATATGCG
13299029 AGCCTATTTGTTAGTATATGCG
1 AGCCTATTTGTTAGTATATGCG
* *
13299051 AGCTTATTTG-TAGTATATACG
1 AGCCTATTTGTTAGTATATGCG
* *
13299072 AACCCT-TATGTTAG-ATATGCG
1 -AGCCTATTTGTTAGTATATGCG
13299093 A
1 A
13299094 ACCACTTAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
20 1 0.02
21 19 0.34
22 22 0.39
23 2 0.04
25 12 0.21
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (22 bp):
AGCCTATTTGTTAGTATATGCG
Found at i:13299541 original size:16 final size:16
Alignment explanation
Indices: 13299465--13299542 Score: 52
Period size: 16 Copynumber: 4.6 Consensus size: 16
13299455 AGCCCTAGCA
*
13299465 TATGTAAACCCTCTTG
1 TATGTGAACCCTCTTG
*
13299481 TATGAGAAACCCCCTCTTTG
1 TATGTG-AA--CCCTC-TTG
13299501 TATGTGAACCCT-TATAG
1 TATGTGAACCCTCT-T-G
* *
13299518 -GTGCGAACCCTCTTG
1 TATGTGAACCCTCTTG
13299533 TATGTGAACC
1 TATGTGAACC
13299543 ACCTGTGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
15 2 0.04
16 22 0.47
17 8 0.17
19 7 0.15
20 8 0.17
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (16 bp):
TATGTGAACCCTCTTG
Done.