Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 26
Found at i:6524648 original size:21 final size:20
Alignment explanation
Indices: 6524624--6524690 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 20
6524614 AAATTAAATA
6524624 AATATTTTAAATAATTTCTAT
1 AATATTTTAAATAATTT-TAT
* *
6524645 AATATTATAAATATATTTTTAG
1 AATATTTTAAATA-A-TTTTAT
*
6524667 AATAATTTAATATAAATTTTAT
1 AATATTTTAA-AT-AATTTTAT
6524689 AA
1 AA
6524691 AAAAATCGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 12 0.32
22 18 0.49
23 6 0.16
24 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
AATATTTTAAATAATTTTAT
Found at i:6532698 original size:17 final size:18
Alignment explanation
Indices: 6532676--6532709 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6532666 TTGAAAGGTC
*
6532676 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
6532693 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
6532710 ACAGAATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:6534484 original size:80 final size:80
Alignment explanation
Indices: 6534351--6534797 Score: 727
Period size: 80 Copynumber: 5.6 Consensus size: 80
6534341 CTGTATGTCA
* * *
6534351 CTACGGACCTAAGGATATCTTGTGTAGGTCCCAAGATATATCCTTAGGTTGGTTCCCTTTGTTGT
1 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGCTGT
6534416 GTGCATAAGGTAACC
66 GTGCATAAGGTAACC
*
6534431 CTACGGACTTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGCTGT
1 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGCTGT
6534496 GTGCATAAGGTAACC
66 GTGCATAAGGTAACC
*
6534511 CTACGGACATAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGCTGT
1 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGCTGT
6534576 GTGCATAAGGTAACC
66 GTGCATAAGGTAACC
* *
6534591 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTACCTTTGTTGT
1 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGCTGT
6534656 GTGCATAAGGTAACC
66 GTGCATAAGGTAACC
* *
6534671 CTACGGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCC-TAGGTTGGTTCCCTTAGCTGT
1 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGCTGT
*
6534735 GTGCTTAAGGTAACC
66 GTGCATAAGGTAACC
* * * ** *
6534750 CTACGGATCTAAGAATGTCCTTGGGTAAAT-ACAAGGTATATCCTTAGG
1 CTACGGACCTAAGGATAT-CTTGGGTAGGTCCCAAGGTATATCCTTAGG
6534798 ATGCCTCCCC
Statistics
Matches: 345, Mismatches: 20, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
79 59 0.17
80 286 0.83
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (80 bp):
CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGCTGT
GTGCATAAGGTAACC
Found at i:6538010 original size:15 final size:15
Alignment explanation
Indices: 6537990--6538025 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
6537980 GAATAAGAAA
6537990 GTACTTTGAGGATTT
1 GTACTTTGAGGATTT
6538005 GTACTTTGAGGATTT
1 GTACTTTGAGGATTT
6538020 GTACTT
1 GTACTT
6538026 AACTCAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.47
Consensus pattern (15 bp):
GTACTTTGAGGATTT
Found at i:6538206 original size:17 final size:18
Alignment explanation
Indices: 6538184--6538217 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6538174 TTTGAAGGTC
*
6538184 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
6538201 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
6538218 ACAGAATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:6539995 original size:80 final size:80
Alignment explanation
Indices: 6539862--6540232 Score: 557
Period size: 80 Copynumber: 4.6 Consensus size: 80
6539852 CTGTAAGTCA
* * * *
6539862 CTACGAACCTAAGAATATCTTGGGTAGGTCCCAAGATATATCCTTAGGTTGGTTCCCTTTACTAT
1 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTACTGT
6539927 GTGCATAAGGTAACC
66 GTGCATAAGGTAACC
**
6539942 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTGTTGT
1 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTACTGT
6540007 GTGCATAAGGTAACC
66 GTGCATAAGGTAACC
* * * *
6540022 TTACAGACCTAAGGATATCTTGGGTAGGTCCCAAGTTATATCCTTAGGTTGGTTCCCTTTTGCTG
1 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCC-TTTACTG
6540087 TGTGCATAAGGTAACC
65 TGTGCATAAGGTAACC
* *
6540103 CTACAGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTCCC-TTAGCTG
1 CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTA-CTG
*
6540167 TGTGCTTAAGGTAACC
65 TGTGCATAAGGTAACC
* * *
6540183 CTACGGATCTAAGGATGTCCTTGGGTAGAT-CCAAGGTATATCCTTAGGTT
1 CTACGGACCTAAGGATAT-CTTGGGTAGGTCCCAAGGTATATCCTTAGGTT
6540233 AGCTCCCCTT
Statistics
Matches: 268, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
79 2 0.01
80 181 0.68
81 85 0.32
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (80 bp):
CTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTCCCTTTACTGT
GTGCATAAGGTAACC
Found at i:6540140 original size:161 final size:161
Alignment explanation
Indices: 6539868--6540254 Score: 580
Period size: 161 Copynumber: 2.4 Consensus size: 161
6539858 GTCACTACGA
* * *
6539868 ACCTAAGAATATCTTGGGTAGGTCCCAAGATATATCCTTAGGTTGGTTCCC-TTTACTATGTGCA
1 ACCTAAGGATATCTTGGGTAGGTCCCAAGATATATCCTTAGGTTGGTTCCCTTTTGCTGTGTGCA
* *
6539932 TAAGGTAACCCTACGGACCTAAGGATATCTTGGGTAGGTCCCAAGGTATATCCTTAGGTTGGTTC
66 TAAGGTAACCCTACAGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTC
* * *
6539997 CCTTTGTTGTGTGCATAAGGTAACCTTACAG
131 CCTTAGCTGTGTGCATAAGGTAACCCTACAG
*
6540028 ACCTAAGGATATCTTGGGTAGGTCCCAAGTTATATCCTTAGGTTGGTTCCCTTTTGCTGTGTGCA
1 ACCTAAGGATATCTTGGGTAGGTCCCAAGATATATCCTTAGGTTGGTTCCCTTTTGCTGTGTGCA
6540093 TAAGGTAACCCTACAGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTC
66 TAAGGTAACCCTACAGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTC
* *
6540158 CCTTAGCTGTGTGCTTAAGGTAACCCTACGG
131 CCTTAGCTGTGTGCATAAGGTAACCCTACAG
* * * * * *
6540189 ATCTAAGGATGTCCTTGGGTAGAT-CCAAGGTATATCCTTAGGTTAGCTCCCCTTTTTGCTGTGT
1 ACCTAAGGATAT-CTTGGGTAGGTCCCAAGATATATCCTTAGGTT-GGTTCCC-TTTTGCTGTGT
6540253 GC
63 GC
6540255 TGAGGGCAAG
Statistics
Matches: 206, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
160 49 0.24
161 129 0.63
162 15 0.07
163 13 0.06
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (161 bp):
ACCTAAGGATATCTTGGGTAGGTCCCAAGATATATCCTTAGGTTGGTTCCCTTTTGCTGTGTGCA
TAAGGTAACCCTACAGACCTAAGGATATCTTGGGTAGGCCCCAAGGTATATCCTTAGGTTGGTTC
CCTTAGCTGTGTGCATAAGGTAACCCTACAG
Found at i:6541805 original size:26 final size:26
Alignment explanation
Indices: 6541774--6541842 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
6541764 AGTTTATATG
6541774 GTGGGCACGACCTTATGTGTATTATA
1 GTGGGCACGACCTTATGTGTATTATA
*
6541800 GTGGGCACAGA-CTTATGTGTATTATG
1 GTGGGCAC-GACCTTATGTGTATTATA
*
6541826 GTGGGCATGACCTTATG
1 GTGGGCACGACCTTATG
6541843 AGTAAGCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 2 0.05
26 35 0.90
27 2 0.05
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.33
Consensus pattern (26 bp):
GTGGGCACGACCTTATGTGTATTATA
Found at i:6545353 original size:18 final size:18
Alignment explanation
Indices: 6545330--6545380 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
6545320 TAGAGTCGTA
*
6545330 TTTAATTTTAATTTTAAT
1 TTTAATTTTAATTATAAT
6545348 TTTAATTTTAATTATAAT
1 TTTAATTTTAATTATAAT
*
6545366 TTT--TTATAATTATAA
1 TTTAATTTTAATTATAA
6545381 ACTAAGAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.35
18 20 0.65
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAATTTTAATTATAAT
Found at i:6545380 original size:6 final size:6
Alignment explanation
Indices: 6545330--6545368 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
6545320 TAGAGTCGTA
*
6545330 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TATAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTT
6545369 TTATAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:6564861 original size:342 final size:342
Alignment explanation
Indices: 6564233--6564872 Score: 1156
Period size: 342 Copynumber: 1.9 Consensus size: 342
6564223 CAAGTTGCCC
* *
6564233 GTGATATATTTTCTATTATGTAAGAATGAAAAATCCTATCTTAATCATACATACCCACTACATAT
1 GTGATATATTTTCTATTATGTAAGAAGGAAAAATCCTATCTTAATCATACACACCCACTACATAT
* * *
6564298 ATCGAGATATATTCAATAGCAATCTTTATAGAGAAACCATTTACGTAACATGTTTAACCGCTTCA
66 ATCGAGATATATTCAATAACAATCTTTATAGAGAAACCATTTACGTAACATATTTAACCGCATCA
6564363 AAACATACAACAATATATGTTAGGTTAACATTGATCTCAAGTCTGAGGATCATACATATAGTCAT
131 AAACATACAACAATATATGTTAGGTTAACATTGATCTCAAGTCTGAGGATCATACATATAGTCAT
6564428 CACCATAAGCAATGTTATGACTGTTACATAATAATCCAAGACATATGCTCATGGTGGGTCAATCC
196 CACCATAAGCAATGTTATGACTGTTACATAATAATCCAAGACATATGCTCATGGTGGGTCAATCC
6564493 AATACATTGTTCTCTAACAATATAATCATGTATAAATTTGAGCATGGCCATGCATTTATAGTCTC
261 AATACATTGTTCTCTAACAATATAATCATGTATAAATTTGAGCATGGCCATGCATTTATAGTCTC
6564558 ACTCAATCAAGTGGCTT
326 ACTCAATCAAGTGGCTT
* * *
6564575 GTGATATATTTTCTATTATGTAGGAAGGACAAATCCTGTCTTAATCATACACACCCACTACATAT
1 GTGATATATTTTCTATTATGTAAGAAGGAAAAATCCTATCTTAATCATACACACCCACTACATAT
*
6564640 ATCGAGATATATTCAATAACAATCTTTATAGAGCAACCATTTACGTAACATATTTAACCGCATCA
66 ATCGAGATATATTCAATAACAATCTTTATAGAGAAACCATTTACGTAACATATTTAACCGCATCA
*
6564705 AAACATACAACAATATATGTTGGGTTAACATTGATCTCAAGTCTGAGGATCATACATATAGTCAT
131 AAACATACAACAATATATGTTAGGTTAACATTGATCTCAAGTCTGAGGATCATACATATAGTCAT
*
6564770 CACCATAAGCAATGTTATGATTGTTACATAATAATCCAAGACATATGCTCATGGTGGGTCAATCC
196 CACCATAAGCAATGTTATGACTGTTACATAATAATCCAAGACATATGCTCATGGTGGGTCAATCC
*
6564835 AATACATTGTTCTCTAA-AAGTATAATCATGTATCAATT
261 AATACATTGTTCTCTAACAA-TATAATCATGTATAAATT
6564873 CCGATATCTC
Statistics
Matches: 285, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
341 2 0.01
342 283 0.99
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (342 bp):
GTGATATATTTTCTATTATGTAAGAAGGAAAAATCCTATCTTAATCATACACACCCACTACATAT
ATCGAGATATATTCAATAACAATCTTTATAGAGAAACCATTTACGTAACATATTTAACCGCATCA
AAACATACAACAATATATGTTAGGTTAACATTGATCTCAAGTCTGAGGATCATACATATAGTCAT
CACCATAAGCAATGTTATGACTGTTACATAATAATCCAAGACATATGCTCATGGTGGGTCAATCC
AATACATTGTTCTCTAACAATATAATCATGTATAAATTTGAGCATGGCCATGCATTTATAGTCTC
ACTCAATCAAGTGGCTT
Found at i:6565066 original size:66 final size:66
Alignment explanation
Indices: 6564994--6565127 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
6564984 TAATAATAAT
6564994 TATTATGTTATTATATGGACTCTATTATCTTTCAGTTTATGTTAAACACATATATATAACTAAAA
1 TATTATGTTATTATATGGACTCTATTATCTTTCAGTTTATGTTAAACACATATATATAACTAAAA
6565059 A
66 A
* *
6565060 TATTATGTTATTATATGGACTTTATTATCTTTCAGTTTATGTTAAACACATATATATAACTGAAA
1 TATTATGTTATTATATGGACTCTATTATCTTTCAGTTTATGTTAAACACATATATATAACTAAAA
6565125 A
66 A
6565126 TA
1 TA
6565128 ACAATTGCAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (66 bp):
TATTATGTTATTATATGGACTCTATTATCTTTCAGTTTATGTTAAACACATATATATAACTAAAA
A
Found at i:6566581 original size:17 final size:18
Alignment explanation
Indices: 6566559--6566593 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6566549 GTCATGTATA
6566559 TTTTCA-ACTACTTTAGT
1 TTTTCAGACTACTTTAGT
*
6566576 TTTTCAGGCTACTTTAGT
1 TTTTCAGACTACTTTAGT
6566594 AGAAGAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTTCAGACTACTTTAGT
Found at i:6568258 original size:19 final size:20
Alignment explanation
Indices: 6568234--6568273 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
6568224 TTTATATATC
6568234 TCATTTC-ATATTCTT-CATT
1 TCATTTCTAT-TTCTTCCATT
6568253 TCATTTCTATTTCTTCCATT
1 TCATTTCTATTTCTTCCATT
6568273 T
1 T
6568274 TCTCTCCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (20 bp):
TCATTTCTATTTCTTCCATT
Found at i:6572639 original size:42 final size:42
Alignment explanation
Indices: 6572584--6572670 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
6572574 TTGGGTAGAT
* * * * *
6572584 TATCGATATTACCCTTACAGTATCAATACTTAGGGTACCTGG
1 TATCGATACTACCCTTACAGTATAAATACATAGGATACATGG
6572626 TATCGATACTACCCTTACAGTATAAATACATAGGATACATGG
1 TATCGATACTACCCTTACAGTATAAATACATAGGATACATGG
6572668 TAT
1 TAT
6572671 TGGTATTGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (42 bp):
TATCGATACTACCCTTACAGTATAAATACATAGGATACATGG
Found at i:6574416 original size:19 final size:19
Alignment explanation
Indices: 6574392--6574440 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
6574382 TTGTAAAACT
6574392 ATAAAAAATAAAACAGTGA
1 ATAAAAAATAAAACAGTGA
* **
6574411 ATAAAAAGTAAAATGGTGA
1 ATAAAAAATAAAACAGTGA
6574430 ATAAATAAATA
1 ATAAA-AAATA
6574441 TAAAGTAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.12, T:0.20
Consensus pattern (19 bp):
ATAAAAAATAAAACAGTGA
Found at i:6575734 original size:12 final size:13
Alignment explanation
Indices: 6575732--6575877 Score: 108
Period size: 12 Copynumber: 11.2 Consensus size: 13
6575722 TATATAAAAT
*
6575732 AATTTATATGATATA
1 AATTAATAT-ATA-A
* *
6575747 AATTAAATATCTAT
1 AATT-AATATATAA
*
6575761 AATATAATATTAAAA
1 AAT-TAATA-TATAA
6575776 AATTAATAT-TAA
1 AATTAATATATAA
* *
6575788 AATTAATATCTAT
1 AATTAATATATAA
6575801 AATATAATAT-TAAA
1 AAT-TAATATAT-AA
*
6575815 AATTAATATTAAAA
1 AATTAATA-TATAA
6575829 AATTAATAT-TAA
1 AATTAATATATAA
6575841 AATTAA-A-ATAA
1 AATTAATATATAA
6575852 AATTAA-ATATAA
1 AATTAATATATAA
6575864 AATTAA-ATATAA
1 AATTAATATATAA
6575876 AA
1 AA
6575878 CCTCTTTTAA
Statistics
Matches: 110, Mismatches: 11, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
11 11 0.10
12 37 0.34
13 13 0.12
14 33 0.30
15 12 0.11
16 4 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (13 bp):
AATTAATATATAA
Found at i:6575782 original size:14 final size:14
Alignment explanation
Indices: 6575765--6575842 Score: 101
Period size: 14 Copynumber: 5.8 Consensus size: 14
6575755 ATCTATAATA
6575765 TAATATTAAAAAAT
1 TAATATTAAAAAAT
6575779 TAATATT--AAAAT
1 TAATATTAAAAAAT
* *
6575791 TAATATCTATAATA-
1 TAATAT-TAAAAAAT
6575805 TAATATT-AAAAAT
1 TAATATTAAAAAAT
6575818 TAATATTAAAAAAT
1 TAATATTAAAAAAT
6575832 TAATATTAAAA
1 TAATATTAAAA
6575843 TTAAAATAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
12 14 0.25
13 9 0.16
14 30 0.54
15 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATTAAAAAAT
Found at i:6575806 original size:40 final size:40
Alignment explanation
Indices: 6575718--6575837 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
6575708 TAAAATTTTA
*
6575718 ATAATATATAAAATAATTTATATGATATAAATTAAATATCTATAAT
1 ATAATAT-TAAAA-AATTAATAT--TA-AAATT-AATATCTATAAT
6575764 ATAATATTAAAAAATTAATATTAAAATTAATATCTATAAT
1 ATAATATTAAAAAATTAATATTAAAATTAATATCTATAAT
6575804 ATAATATT-AAAAATTAATATTAAAAAATTAATAT
1 ATAATATTAAAAAATTAATATT--AAAATTAATAT
6575838 TAAAATTAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 9
0.88 0.01 0.11
Matches are distributed among these distances:
39 13 0.18
40 20 0.28
41 16 0.23
42 2 0.03
44 8 0.11
45 5 0.07
46 7 0.10
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (40 bp):
ATAATATTAAAAAATTAATATTAAAATTAATATCTATAAT
Found at i:6575823 original size:27 final size:26
Alignment explanation
Indices: 6575746--6575877 Score: 123
Period size: 26 Copynumber: 5.0 Consensus size: 26
6575736 TATATGATAT
*
6575746 AAATTAAATATCTATAATATAATATTAAA
1 AAATT-AATAT-TAAAAT-TAATATTAAA
*
6575775 AAATTAATATTAAAATTAATATCTATA
1 AAATTAATATTAAAATTAATAT-TAAA
*
6575802 ATA-TAATATTAAAAATTAATATTAAA
1 AAATTAATATT-AAAATTAATATTAAA
*
6575828 AAATTAATATTAAAATTAA-A--ATA
1 AAATTAATATTAAAATTAATATTAAA
6575851 AAATTAA-ATATAAAATTAA-ATATAAA
1 AAATTAATAT-TAAAATTAATAT-TAAA
6575877 A
1 A
6575878 CCTCTTTTAA
Statistics
Matches: 89, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.02
23 19 0.21
25 1 0.01
26 29 0.33
27 28 0.31
28 5 0.06
29 5 0.06
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
AAATTAATATTAAAATTAATATTAAA
Found at i:6575854 original size:5 final size:6
Alignment explanation
Indices: 6575774--6575870 Score: 72
Period size: 6 Copynumber: 15.5 Consensus size: 6
6575764 ATAATATTAA
* * * * *
6575774 AAAATT AATATT AAAATT AATATCT ATAATAT AATATT AAAAATT AATATT
1 AAAATT AAAATT AAAATT AAAAT-T AAAAT-T AAAATT -AAAATT AAAATT
*
6575825 AAAAAATT AATATT AAAATT AAAA-T AAAATT -AAATAT AAAATT AAA
1 --AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT-T AAAATT AAA
6575871 TATAAAACCT
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
5 9 0.13
6 40 0.56
7 17 0.24
8 5 0.07
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (6 bp):
AAAATT
Found at i:6579354 original size:16 final size:16
Alignment explanation
Indices: 6579333--6579368 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6579323 GAAAGTTCTG
6579333 AAAAGAATATGAAAAT
1 AAAAGAATATGAAAAT
*
6579349 AAAAGAATATGATAAT
1 AAAAGAATATGAAAAT
6579365 AAAA
1 AAAA
6579369 TATGAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.19
Consensus pattern (16 bp):
AAAAGAATATGAAAAT
Found at i:6585076 original size:17 final size:17
Alignment explanation
Indices: 6585056--6585089 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6585046 GATTCGGGAT
6585056 CTGTTTTAAAAGCTATA
1 CTGTTTTAAAAGCTATA
6585073 CTGTTTTAAAAGCTATA
1 CTGTTTTAAAAGCTATA
6585090 TAGTAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
CTGTTTTAAAAGCTATA
Found at i:6587534 original size:49 final size:48
Alignment explanation
Indices: 6587442--6587547 Score: 110
Period size: 49 Copynumber: 2.2 Consensus size: 48
6587432 TACATTGGGC
* * *
6587442 TATGATAAT-AAATGTGAAATTTTGAAAAATATCTGAAAAGAAAAG-A
1 TATGATAATGAAATATAAAATTTTGAAAAATATATGAAAAGAAAAGTA
* * **
6587488 GTATGATAATGAAATATAAAAGTTTTGAAAAGTGTATGAATGGAAAAGTA
1 -TATGATAATGAAATATAAAA-TTTTGAAAAATATATGAAAAGAAAAGTA
6587538 TATGA-AATGA
1 TATGATAATGA
6587548 TTATTTTGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
47 9 0.18
48 13 0.27
49 26 0.53
50 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.19, T:0.29
Consensus pattern (48 bp):
TATGATAATGAAATATAAAATTTTGAAAAATATATGAAAAGAAAAGTA
Found at i:6589521 original size:20 final size:20
Alignment explanation
Indices: 6589496--6589535 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6589486 AAAAAATAGG
6589496 GAAGAGAGGAAACAAAAAAA
1 GAAGAGAGGAAACAAAAAAA
6589516 GAAGAGAGGAAACAAAAAAA
1 GAAGAGAGGAAACAAAAAAA
6589536 TGATATCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (20 bp):
GAAGAGAGGAAACAAAAAAA
Found at i:6591077 original size:20 final size:21
Alignment explanation
Indices: 6591043--6591084 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
6591033 CCCGTTATCC
6591043 AATAAAAACCTAAAAT-TCCT
1 AATAAAAACCTAAAATCTCCT
6591063 AATAATAAACC-AAAATCTCCT
1 AATAA-AAACCTAAAATCTCCT
6591084 A
1 A
6591085 TCCCATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (21 bp):
AATAAAAACCTAAAATCTCCT
Found at i:6598474 original size:12 final size:12
Alignment explanation
Indices: 6598457--6598481 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6598447 TCTAAAAAGA
6598457 AAGAAAAATAAT
1 AAGAAAAATAAT
6598469 AAGAAAAATAAT
1 AAGAAAAATAAT
6598481 A
1 A
6598482 CTAATAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAGAAAAATAAT
Found at i:6599025 original size:30 final size:29
Alignment explanation
Indices: 6598991--6599055 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
6598981 TAAATTTGGT
*
6598991 AAAGTTT-GGTGACCAAAGTATAAACTTTAA
1 AAAGTTTAGG-GACCAAAATAT-AACTTTAA
* *
6599021 AAAGTTTAGGGACCAAAATGTAATTTTAA
1 AAAGTTTAGGGACCAAAATATAACTTTAA
6599050 AAAGTT
1 AAAGTT
6599056 ACATATGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.42
30 16 0.52
31 2 0.06
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.31
Consensus pattern (29 bp):
AAAGTTTAGGGACCAAAATATAACTTTAA
Found at i:6601029 original size:45 final size:45
Alignment explanation
Indices: 6600927--6601189 Score: 395
Period size: 45 Copynumber: 5.9 Consensus size: 45
6600917 TGTAATCATG
* *
6600927 AAAATAAGCTTACGAGCTTATGGAGT-AATGGCAAGTATATTAGT
1 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTAGT
* * * *
6600971 AAAATAAGTTTACGAGCTTATGGATTAAATAGTAAGTGTATTTGT
1 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTAGT
* * *
6601016 AAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTAGT
* *
6601060 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTGTATTTGT
1 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTAGT
*
6601105 AAAATAAGCTTATGAGCTTATGGAATTAAATGGTAAGTATATTAGT
1 AAAATAAGCTTACGAGCTTATGG-ATTAAATGGTAAGTATATTAGT
6601151 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTAT
1 AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTAT
6601190 TTTGGATATG
Statistics
Matches: 196, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
44 63 0.32
45 91 0.46
46 42 0.21
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTAGT
Found at i:6601078 original size:89 final size:89
Alignment explanation
Indices: 6600927--6601187 Score: 450
Period size: 89 Copynumber: 2.9 Consensus size: 89
6600917 TGTAATCATG
* *
6600927 AAAATAAGCTTACGAGCTTATGGAGTAATGGCAAGTATATTAGTAAAATAAGTTTACGAGCTTAT
1 AAAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
*
6600992 GGATTAAATAGTAAGTGTATTTGT
66 GGATTAAATGGTAAGTGTATTTGT
*
6601016 AAAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
6601081 GGATTAAATGGTAAGTGTATTTGT
66 GGATTAAATGGTAAGTGTATTTGT
* *
6601105 AAAATAAGCTTATGAGCTTATGGAATTAAATGGTAAGTATATTAGTAAAATAAGCTTACGAGCTT
1 AAAATAAGCTTACGAGCTTATGGAA-T-AATGGCAAGTATATTAGTAAAATAAGCTTACGAGCTT
6601170 ATGGATTAAATGGTAAGT
64 ATGGATTAAATGGTAAGT
6601188 ATTTTGGATA
Statistics
Matches: 163, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
89 109 0.67
90 1 0.01
91 53 0.33
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (89 bp):
AAAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTAGTAAAATAAGCTTACGAGCTTAT
GGATTAAATGGTAAGTGTATTTGT
Found at i:6604850 original size:21 final size:21
Alignment explanation
Indices: 6604826--6604865 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6604816 CACTTTTCAG
* *
6604826 GAAGGGGTTGATCCTTTTTGA
1 GAAGGGATCGATCCTTTTTGA
6604847 GAAGGGATCGATCCTTTTT
1 GAAGGGATCGATCCTTTTT
6604866 CTGAAAAAGT
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:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (21 bp):
GAAGGGATCGATCCTTTTTGA
Found at i:6605580 original size:16 final size:16
Alignment explanation
Indices: 6605559--6605596 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
6605549 GTAAATCAAA
6605559 GCTCCTATATGCATTC
1 GCTCCTATATGCATTC
6605575 GCTCCTATATGCATTC
1 GCTCCTATATGCATTC
6605591 GCTCCT
1 GCTCCT
6605597 CACTTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.16, C:0.34, G:0.13, T:0.37
Consensus pattern (16 bp):
GCTCCTATATGCATTC
Found at i:6607543 original size:22 final size:23
Alignment explanation
Indices: 6607504--6607548 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
6607494 TGGTTAAACA
* *
6607504 CAAATATCCTTT-TTTTTTCAAT
1 CAAATATCCTTTAGTTTTACAAT
6607526 CAAATATCCTTTAGTTTTACAAT
1 CAAATATCCTTTAGTTTTACAAT
6607549 ATATCAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49
Consensus pattern (23 bp):
CAAATATCCTTTAGTTTTACAAT
Found at i:6607663 original size:16 final size:16
Alignment explanation
Indices: 6607642--6607676 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6607632 AATATATAAA
6607642 TATATAAAAGAAATTT
1 TATATAAAAGAAATTT
* *
6607658 TATATAAATGTAATTT
1 TATATAAAAGAAATTT
6607674 TAT
1 TAT
6607677 TTTAACTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (16 bp):
TATATAAAAGAAATTT
Found at i:6608697 original size:26 final size:26
Alignment explanation
Indices: 6608668--6608720 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
6608658 GTAATATAAA
*
6608668 CTCAAAACGACTCAACCCAAACAACC
1 CTCAAAACGACCCAACCCAAACAACC
** *
6608694 CTCAAAGTGGCCCAACCCAAACAACC
1 CTCAAAACGACCCAACCCAAACAACC
6608720 C
1 C
6608721 GTTTACACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.43, G:0.08, T:0.08
Consensus pattern (26 bp):
CTCAAAACGACCCAACCCAAACAACC
Found at i:6613087 original size:20 final size:20
Alignment explanation
Indices: 6613041--6613088 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
6613031 ACTTATAGAG
* *
6613041 AAAAATATATTTAATATGTT
1 AAAAATATAATTAATATATT
** *
6613061 ATTAATATAATTATTATATT
1 AAAAATATAATTAATATATT
6613081 AAAAATAT
1 AAAAATAT
6613089 TTGAAAATTT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AAAAATATAATTAATATATT
Found at i:6618933 original size:55 final size:55
Alignment explanation
Indices: 6618798--6619145 Score: 493
Period size: 55 Copynumber: 6.3 Consensus size: 55
6618788 TTTATTAAGA
* * * * *
6618798 TGCACACGTAGTGCCTATACGG-TAGTTCATAAACTCATAATGAATTCCGTGG-GT
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATT
* * ** *
6618852 TGCACATATCGTGCCTGTACAATTATTCATCAACTCATGATGAATTCCATGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
6618907 TGCACACATAGTGCCTGTACGGTTATTCATAAACTCACGATGAATTTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
6618962 TGCACACCTAGTGCCTGTACAGTTATTCATCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
6619017 TGCATACATAGTTCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
6619072 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
6619127 TGCACACATAGTGCCTGTA
1 TGCACACATAGTGCCTGTA
6619146 GTACACTTAG
Statistics
Matches: 258, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
54 40 0.16
55 218 0.84
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:6621525 original size:26 final size:25
Alignment explanation
Indices: 6621496--6621561 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
6621486 TTTTTAATAC
6621496 TATATATTTATTTTCAAACTATATT
1 TATATATTTATTTTCAAACTATATT
* *
6621521 ATATATATGTT-TTCTAAAACTATATT
1 -TATATAT-TTATTTTCAAACTATATT
*
6621547 TATATATATATTTTC
1 TATATATTTATTTTC
6621562 CAAAACATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
24 1 0.03
25 10 0.30
26 20 0.61
27 2 0.06
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.55
Consensus pattern (25 bp):
TATATATTTATTTTCAAACTATATT
Found at i:6621555 original size:27 final size:27
Alignment explanation
Indices: 6621496--6621573 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
6621486 TTTTTAATAC
*
6621496 TATATATTTATTTT-C-AAACTATA-T
1 TATATATATATTTTCCAAAACTATATT
* *
6621520 TATATATATGTTTTCTAAAACTATATT
1 TATATATATATTTTCCAAAACTATATT
6621547 TATATATATATTTTCCAAAAC-ATATT
1 TATATATATATTTTCCAAAACTATATT
6621573 T
1 T
6621574 CTAAAACTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 12 0.26
26 14 0.30
27 20 0.43
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (27 bp):
TATATATATATTTTCCAAAACTATATT
Found at i:6621624 original size:36 final size:36
Alignment explanation
Indices: 6621535--6621709 Score: 138
Period size: 36 Copynumber: 4.6 Consensus size: 36
6621525 ATATGTTTTC
**
6621535 TAAAACTATATTTATATATATATTTTCCAAAACATATTT
1 TAAAACTATA-TTATATATAT-TTTTCC-AAAGTTATTT
6621574 CTAAAACTATATTATATATATTTTTCCAAAGTTATTT
1 -TAAAACTATATTATATATATTTTTCCAAAGTTATTT
* * *
6621611 TCAAACTATATTATAT-TTTTTTTTCAAAGATATACATATTTT
1 TAAAACTATATTATATATATTTTTCCAAAG---T---TA-TTT
* * *
6621653 TAAAACCATATTATTATATATTTTT-GAAAATTATTT
1 TAAAACTATATTA-TATATATTTTTCCAAAGTTATTT
*
6621689 TCAAACTATATATATATATAT
1 TAAAACTATAT-TATATATAT
6621710 ATATATATAT
Statistics
Matches: 113, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
35 11 0.10
36 34 0.30
37 12 0.11
38 7 0.06
39 10 0.09
40 11 0.10
41 2 0.02
42 14 0.12
43 6 0.05
44 6 0.05
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.49
Consensus pattern (36 bp):
TAAAACTATATTATATATATTTTTCCAAAGTTATTT
Found at i:6621643 original size:22 final size:24
Alignment explanation
Indices: 6621608--6621653 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
6621598 TCCAAAGTTA
* *
6621608 TTTTCAAACTATAT-TATATTTTT
1 TTTTCAAACGATATACATATTTTT
6621631 TTTTCAAA-GATATACATATTTTT
1 TTTTCAAACGATATACATATTTTT
6621654 AAAACCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTCAAACGATATACATATTTTT
Found at i:6621722 original size:78 final size:78
Alignment explanation
Indices: 6621566--6621713 Score: 199
Period size: 78 Copynumber: 1.9 Consensus size: 78
6621556 ATTTTCCAAA
* * * *
6621566 ACATATTTCTAAAACTATATTATATATATTTTTCCAAAGTTATTTTCAAACTATATTATATTTTT
1 ACATATTTCTAAAACCATATTATATATATTTTTCCAAAATTATTTTCAAACTATATTATATATAT
* *
6621631 TTTTCAAAGATAT
66 ATATCAAAGATAT
* *
6621644 ACATATTTTTAAAACCATATTATTATATATTTTT-GAAAATTATTTTCAAACTATATATATATAT
1 ACATATTTCTAAAACCATATTA-TATATATTTTTCCAAAATTATTTTCAAACTATAT-TATATAT
6621708 ATATAT
64 ATATAT
6621714 ATATATATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 40 0.67
79 20 0.33
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (78 bp):
ACATATTTCTAAAACCATATTATATATATTTTTCCAAAATTATTTTCAAACTATATTATATATAT
ATATCAAAGATAT
Found at i:6621745 original size:44 final size:44
Alignment explanation
Indices: 6621686--6621794 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 44
6621676 TTGAAAATTA
* *
6621686 TTTTCAAA-CTATATATATATATATATA-TATATATATATATATAT
1 TTTTCAAAGCTATATATATATATA-AAACCATAT-TATATATATAT
* *
6621730 TATTTCAAAGCTATATATATTTTTAAAACCATATTATATATATAT
1 T-TTTCAAAGCTATATATATATATAAAACCATATTATATATATAT
6621775 TTTTCAAAGCTATATATATA
1 TTTTCAAAGCTATATATATA
6621795 ACAAAAACAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
44 19 0.33
45 21 0.37
46 17 0.30
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (44 bp):
TTTTCAAAGCTATATATATATATAAAACCATATTATATATATAT
Found at i:6621749 original size:2 final size:2
Alignment explanation
Indices: 6621695--6621729 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6621685 ATTTTCAAAC
6621695 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 T
6621730 TATTTCAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6621763 original size:18 final size:20
Alignment explanation
Indices: 6621722--6621768 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
6621712 ATATATATAT
* *
6621722 ATATATATTATTTCAAAGCT
1 ATATATATTATTTCAAAACC
6621742 ATATATATT-TTT-AAAACC
1 ATATATATTATTTCAAAACC
6621760 ATATTATAT
1 ATA-TATAT
6621769 ATATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.29
19 8 0.33
20 9 0.38
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATATATTATTTCAAAACC
Found at i:6621774 original size:25 final size:23
Alignment explanation
Indices: 6621741--6621794 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 23
6621731 ATTTCAAAGC
6621741 TATATATATTTTTAAAACCATATTA
1 TATATATATTTTTAAAACC-TA-TA
* *
6621766 TATATATATTTTTCAAAGCTATA
1 TATATATATTTTTAAAACCTATA
6621789 TATATA
1 TATATA
6621795 ACAAAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 2 0.07
25 17 0.63
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (23 bp):
TATATATATTTTTAAAACCTATA
Found at i:6621802 original size:44 final size:46
Alignment explanation
Indices: 6621714--6621802 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 46
6621704 ATATATATAT
****
6621714 ATATATATATATATATTATTTCAAAGCTATATATATTTTTAAAACC
1 ATATATATATATATATTATTTCAAAGCTATATATATAACAAAAACC
6621760 ATAT-TATATATATATT-TTTCAAAGCTATATATATAACAAAAAC
1 ATATATATATATATATTATTTCAAAGCTATATATATAACAAAAAC
6621803 AAAACAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 23 0.59
45 12 0.31
46 4 0.10
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (46 bp):
ATATATATATATATATTATTTCAAAGCTATATATATAACAAAAACC
Found at i:6622434 original size:180 final size:179
Alignment explanation
Indices: 6622025--6622572 Score: 724
Period size: 180 Copynumber: 3.0 Consensus size: 179
6622015 CAGATATGAT
** ** * **
6622025 AAATTTTGATTTACTTCACTGCTCTTCAGGGAAGATTGAATCAAGATTGATTTGCTTCACT-TCT
1 AAATTTTGATCCACTTTGCTGCTCTTCAGGGAAGATTGAATCGACCTTGATTTGCTTCACTAT-T
* * * * * * *
6622089 CTTT-AGGAAGATCAAATCTGGAAAATGATGATATGCTCTGCTACTATTTAGTAGAGACCATATC
65 -TTTCAAGAAGATCAAATCTGGAAAATGATGATCTGCTCTGCTAATCTTTAGGAGAGATCAGATC
* *
6622153 TAAAGGAAAATGGGTATGCTCCACTACTCTTTAGGGGAGATCAGATTCGAGAA
129 T-AAGGAAGATGGGTATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAG-A
* * *
6622206 AAATTTTGATCCA-TTTCGCTGCTCTTCAGGGAAAATTAAATTGACCTTGATTTGCTTCACTATT
1 AAATTTTGATCCACTTT-GCTGCTCTTCAGGGAAGATTGAATCGACCTTGATTTGCTTCACTATT
*
6622270 TTTCAAGAAGATCAAATCTGGAAAATGATGATCTGCTCTGCTATTCTTTAGGAGAGATCAGATCT
65 TTTCAAGAAGATCAAATCTGGAAAATGATGATCTGCTCTGCTAATCTTTAGGAGAGATCAGATCT
*
6622335 AAGGAAGATGGGTATGCTCCACTACTCTTTAGGGGATATCAGACTCGAGA
130 AAGGAAGATGGGTATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
*
6622385 GAAATTTTGATCCACTTTGCTGCTCTTCAGGGAAGATTGAATCGACCTTGATTTGCTTCACTACT
1 -AAATTTTGATCCACTTTGCTGCTCTTCAGGGAAGATTGAATCGACCTTGATTTGCTTCACTATT
* * * * ** *
6622450 CTTCATGATGATCAAATATGGAAAATGACAATCTGTTCTGCTAATCTTTAGGAGAGATCAGATCT
65 TTTCAAGAAGATCAAATCTGGAAAATGATGATCTGCTCTGCTAATCTTTAGGAGAGATCAGATCT
* **
6622515 AAGGGAAGATGGGTCTGCTCCACTACTCTTTAAAGGAGATCAGACTCGAGA
130 AA-GGAAGATGGGTATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
6622566 AAATTTT
1 AAATTTT
6622573 TGAACATCTA
Statistics
Matches: 325, Mismatches: 36, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
179 1 0.00
180 173 0.53
181 150 0.46
182 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (179 bp):
AAATTTTGATCCACTTTGCTGCTCTTCAGGGAAGATTGAATCGACCTTGATTTGCTTCACTATTT
TTCAAGAAGATCAAATCTGGAAAATGATGATCTGCTCTGCTAATCTTTAGGAGAGATCAGATCTA
AGGAAGATGGGTATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGA
Found at i:6631670 original size:17 final size:17
Alignment explanation
Indices: 6631648--6631693 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
6631638 TTGCTAGTGC
*
6631648 CCCTTGAGCCTCCCAGA
1 CCCTTGATCCTCCCAGA
6631665 CCCTTGATCCTCCCAGA
1 CCCTTGATCCTCCCAGA
6631682 CCCTTGATCCTC
1 CCCTTGATCCTC
6631694 ACCCATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.15, C:0.48, G:0.13, T:0.24
Consensus pattern (17 bp):
CCCTTGATCCTCCCAGA
Found at i:6634247 original size:26 final size:25
Alignment explanation
Indices: 6634183--6634259 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
6634173 TTTTTAATAC
* *
6634183 TATATATTTATTT-TCAAACTATAT
1 TATATATATATTTCTAAAACTATAT
* *
6634207 TATATATATGTTTTCTAAAATTATAT
1 TATATATAT-ATTTCTAAAACTATAT
6634233 ATATATATATATTTCCTAAAAC-ATAT
1 -TATATATATATTT-CTAAAACTATAT
6634259 T
1 T
6634260 TTCTAAAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
24 8 0.19
25 4 0.09
26 16 0.37
27 15 0.35
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (25 bp):
TATATATATATTTCTAAAACTATAT
Found at i:6634251 original size:27 final size:26
Alignment explanation
Indices: 6634202--6634253 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
6634192 ATTTTCAAAC
* *
6634202 TATATTATATATATGTTTTCTAAAAT
1 TATATTATATATATATTTCCTAAAAT
6634228 TATATATATATATATATTTCCTAAAA
1 TATAT-TATATATATATTTCCTAAAA
6634254 CATATTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (26 bp):
TATATTATATATATATTTCCTAAAAT
Found at i:6634273 original size:15 final size:15
Alignment explanation
Indices: 6634240--6634274 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6634230 TATATATATA
6634240 TATATTTCCTAAAAC
1 TATATTTCCTAAAAC
*
6634255 -ATATTTTCTAAAAC
1 TATATTTCCTAAAAC
6634269 TATATT
1 TATATT
6634275 ATATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATTTCCTAAAAC
Found at i:6634300 original size:40 final size:42
Alignment explanation
Indices: 6634217--6634326 Score: 131
Period size: 40 Copynumber: 2.7 Consensus size: 42
6634207 TATATATATG
*
6634217 TTTTCTAAAATTATA-TATATATATATATTTCCTAAAACATA
1 TTTTCTAAAACTATATTATATATATATATTTCCTAAAACATA
* *
6634258 TTTTCTAAAACTATATTATATATATATTTTTCC-AAAA-TTA
1 TTTTCTAAAACTATATTATATATATATATTTCCTAAAACATA
*
6634298 TTTTC--AAACTATTATATATATGTATATAT
1 TTTTCTAAAACTA-TAT-TATATATATATAT
6634327 ATATATATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
38 6 0.10
39 3 0.05
40 18 0.30
41 18 0.30
42 16 0.26
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (42 bp):
TTTTCTAAAACTATATTATATATATATATTTCCTAAAACATA
Found at i:6634347 original size:23 final size:22
Alignment explanation
Indices: 6634321--6634383 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
6634311 ATATATATGT
*
6634321 ATATATATATATATTTCAAAGC
1 ATATATATATATATTTCAAAAC
6634343 -TATATATAT-T-TTT-AAAACC
1 ATATATATATATATTTCAAAA-C
6634362 ATATTATATATATATTTCAAAA
1 ATA-TATATATATATTTCAAAA
6634384 TTATTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
20 3 0.09
21 16 0.47
22 1 0.03
23 3 0.09
24 4 0.12
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATATATATATATTTCAAAAC
Found at i:6634348 original size:19 final size:20
Alignment explanation
Indices: 6634323--6634374 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
6634313 ATATATGTAT
* *
6634323 ATATATATATATTTCAAAGC
1 ATATATATATATTTAAAACC
*
6634343 -TATATATATTTTTAAAACC
1 ATATATATATATTTAAAACC
6634362 ATATTATATATAT
1 ATA-TATATATAT
6634375 ATTTCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 16 0.62
20 2 0.08
21 8 0.31
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (20 bp):
ATATATATATATTTAAAACC
Found at i:6634370 original size:44 final size:44
Alignment explanation
Indices: 6634322--6634474 Score: 189
Period size: 44 Copynumber: 3.7 Consensus size: 44
6634312 TATATATGTA
6634322 TATATATATATATTTCAAAGCTATATATATTTTTAAAACCATA-
1 TATATATATATATTTCAAAGCTATATATATTTTTAAAACCATAT
**
6634365 T-TATATATATATTTC-AA---A-AT-TATTTTT-AAAGTATAT
1 TATATATATATATTTCAAAGCTATATATATTTTTAAAACCATAT
* * *
6634401 TATATATATTTTTTTCAAAGATATATATATTTTTAAAACCATAT
1 TATATATATATATTTCAAAGCTATATATATTTTTAAAACCATAT
*
6634445 TATATATATATTTTTCAAAGCTATATATAT
1 TATATATATATATTTCAAAGCTATATATAT
6634475 ATAACCAAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
35 6 0.06
36 8 0.09
37 14 0.15
38 3 0.03
41 3 0.03
42 16 0.17
43 8 0.09
44 35 0.38
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.49
Consensus pattern (44 bp):
TATATATATATATTTCAAAGCTATATATATTTTTAAAACCATAT
Found at i:6634386 original size:19 final size:19
Alignment explanation
Indices: 6634324--6634387 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
6634314 TATATGTATA
**
6634324 TATATATATATTTCAAAGC
1 TATATATATATTTCAAAAT
* *
6634343 TATATATATTTTTAAAACCATAT
1 TATATATATATTT-CAA--A-AT
6634366 TATATATATATTTCAAAAT
1 TATATATATATTTCAAAAT
6634385 TAT
1 TAT
6634388 TTTTAAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 17 0.49
20 3 0.09
22 3 0.09
23 12 0.34
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (19 bp):
TATATATATATTTCAAAAT
Found at i:6634425 original size:21 final size:21
Alignment explanation
Indices: 6634401--6634474 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 21
6634391 TAAAGTATAT
6634401 TATATATATTTTTTTCAAAGA
1 TATATATATTTTTTTCAAAGA
* *
6634422 TATATATA--TTTTTAAAACCA
1 TATATATATTTTTTTCAAA-GA
*
6634442 TATTATATATATATTTTTCAAAGC
1 TA-TATATAT-T-TTTTTCAAAGA
6634466 TATATATAT
1 TATATATAT
6634475 ATAACCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
19 8 0.19
20 3 0.07
21 14 0.33
23 7 0.17
24 2 0.05
25 8 0.19
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.50
Consensus pattern (21 bp):
TATATATATTTTTTTCAAAGA
Found at i:6634429 original size:25 final size:23
Alignment explanation
Indices: 6634387--6634477 Score: 75
Period size: 25 Copynumber: 4.0 Consensus size: 23
6634377 TTCAAAATTA
6634387 TTTTT-AAAGTATATTATATATATT
1 TTTTTCAAAGTATA-TATATATA-T
6634411 TTTTTCAAAG---ATATATATA-
1 TTTTTCAAAGTATATATATATAT
* **
6634430 TTTTTAAAACCATATTATATATAT
1 TTTTTCAAAGTATA-TATATATAT
6634454 ATTTTTCAAAGCTATATATATATA
1 -TTTTTCAAAG-TATATATATATA
6634478 ACCAAAATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
19 8 0.15
21 8 0.15
22 2 0.04
23 8 0.15
24 5 0.09
25 20 0.37
26 3 0.06
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (23 bp):
TTTTTCAAAGTATATATATATAT
Found at i:6635042 original size:45 final size:45
Alignment explanation
Indices: 6634960--6635045 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
6634950 TCATCAGCAT
** *
6634960 CTCCCAAGTATCTCAAGCGAGGTTTGGGTAACATAGCATCGTCAC
1 CTCCCAAGTATCTCAAGCGAGGTACGAGTAACATAGCATCGTCAC
* * * *
6635005 CTCCCAAGTATCTCAGGTGAGGTACGAGTCACCTAGCATCG
1 CTCCCAAGTATCTCAAGCGAGGTACGAGTAACATAGCATCG
6635046 ACGCTTCACC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (45 bp):
CTCCCAAGTATCTCAAGCGAGGTACGAGTAACATAGCATCGTCAC
Found at i:6636059 original size:209 final size:211
Alignment explanation
Indices: 6635699--6636116 Score: 813
Period size: 209 Copynumber: 2.0 Consensus size: 211
6635689 CACTCTTATC
6635699 ATACTTCTCCTAATATCTCTTGAAGTAGTGGGATAACTTATCCATTTTCGGTTCACTAACCTTCT
1 ATACTTCTCCTAATATCTCTTGAAGTAGTGGGATAACTTATCCATTTTCGGTTCACTAACCTTCT
6635764 CGAAGCACCAAGCTCTTCGTCGATATTGAATCTGACATGTTTATTGTACCTCTCATCGGGTATCT
66 CGAAGCACCAAGCTCTTCGTCGATATTGAATCTGACATGTTTATTGTACCTCTCATCGGGTATCT
6635829 CATGTACTGATCCTCATTTCCAACTATTTCTATAGGTCCTCG-TTGAATATACTTTA-GAATTAT
131 CATGTACTGATCCTCATTTCCAACTATTTCTATAGGTCCTCGATTGAATATACTTTAGGAATTAT
6635892 GCTTAATATGGTTCTT
196 GCTTAATATGGTTCTT
6635908 ATACTTCTCCTAATATCTCTTGAAGTAGTGGGATAACTTATCCATTTTCGGTTCACTAACCTTCT
1 ATACTTCTCCTAATATCTCTTGAAGTAGTGGGATAACTTATCCATTTTCGGTTCACTAACCTTCT
6635973 CGAAGCACCAAGCTCTTCGTCGATATTGAATCTGACATGTTTATTGTACCTCTCATCGGGTATCT
66 CGAAGCACCAAGCTCTTCGTCGATATTGAATCTGACATGTTTATTGTACCTCTCATCGGGTATCT
6636038 CATGTACTGATCCTCATTTCCAACTATTTCTATAGGTCCTCGATTGAATATACTTTAGTGAATTA
131 CATGTACTGATCCTCATTTCCAACTATTTCTATAGGTCCTCGATTGAATATACTTTAG-GAATTA
6636103 TGCTTAATATGGTT
195 TGCTTAATATGGTT
6636117 ACACTCGATG
Statistics
Matches: 206, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
209 172 0.83
210 14 0.07
212 20 0.10
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (211 bp):
ATACTTCTCCTAATATCTCTTGAAGTAGTGGGATAACTTATCCATTTTCGGTTCACTAACCTTCT
CGAAGCACCAAGCTCTTCGTCGATATTGAATCTGACATGTTTATTGTACCTCTCATCGGGTATCT
CATGTACTGATCCTCATTTCCAACTATTTCTATAGGTCCTCGATTGAATATACTTTAGGAATTAT
GCTTAATATGGTTCTT
Found at i:6640791 original size:45 final size:45
Alignment explanation
Indices: 6640715--6640820 Score: 158
Period size: 45 Copynumber: 2.4 Consensus size: 45
6640705 GGTCACACAA
* * * *
6640715 CATCAACATCTCCCAAGTATCTCAGGTGAGGTCCGGGTAACATAG
1 CATCGACACCTCCCAAGTATCTCAGGTGAGGTACAGGTAACATAG
* *
6640760 CATCGACACCTTCCAAGTATCTCAGGTGAGGTACAGGTCACATAG
1 CATCGACACCTCCCAAGTATCTCAGGTGAGGTACAGGTAACATAG
6640805 CATCGACACCTCCCAA
1 CATCGACACCTCCCAA
6640821 TACCTTAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CATCGACACCTCCCAAGTATCTCAGGTGAGGTACAGGTAACATAG
Found at i:6642398 original size:21 final size:20
Alignment explanation
Indices: 6642370--6642408 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6642360 CACTACAGGA
6642370 ATTTATGGCCTCAACAAAAT
1 ATTTATGGCCTCAACAAAAT
*
6642390 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCCTCAACAAA
6642409 GACTTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAT
Found at i:6653359 original size:3 final size:3
Alignment explanation
Indices: 6653353--6653419 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
6653343 AAAAAGAATA
* ** *
6653353 AAT AAT AAT ATT AAT AAT AAT ACC AAGT AAT AAT ATT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
*
6653398 AAT AGT AAAT AAT AAT -AT AAT A
1 AAT AAT -AAT AAT AAT AAT AAT A
6653420 TTTGCAGGAC
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
2 4 0.08
3 42 0.84
4 4 0.08
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6653370 original size:12 final size:12
Alignment explanation
Indices: 6653353--6653419 Score: 64
Period size: 13 Copynumber: 5.3 Consensus size: 12
6653343 AAAAAGAATA
6653353 AATAATAATATT
1 AATAATAATATT
**
6653365 AATAATAATACC
1 AATAATAATATT
6653377 AAGTAATAATATT
1 AA-TAATAATATT
*
6653390 AATAATATAATAGTA
1 AAT-A-ATAATA-TT
6653405 AATAATAATA-T
1 AATAATAATATT
6653416 AATA
1 AATA
6653420 TTTGCAGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
11 4 0.09
12 13 0.29
13 17 0.38
14 7 0.16
15 4 0.09
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (12 bp):
AATAATAATATT
Found at i:6655838 original size:31 final size:31
Alignment explanation
Indices: 6655800--6655863 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
6655790 CTTCTGCACC
* * *
6655800 TCTTCCACCATCCTAAGGCTAACAAAATGAT
1 TCTTCCACCAACCTAAGACTAAAAAAATGAT
*
6655831 TCTTCCACCAACCTAAGATTAAAAAAATGAT
1 TCTTCCACCAACCTAAGACTAAAAAAATGAT
6655862 TC
1 TC
6655864 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.27
Consensus pattern (31 bp):
TCTTCCACCAACCTAAGACTAAAAAAATGAT
Found at i:6655983 original size:14 final size:14
Alignment explanation
Indices: 6655964--6655990 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6655954 CCTAGTGACG
6655964 ATTATTATATATAC
1 ATTATTATATATAC
6655978 ATTATTATATATA
1 ATTATTATATATA
6655991 TAATAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATTATATATAC
Found at i:6656000 original size:17 final size:18
Alignment explanation
Indices: 6655980--6656024 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
6655970 ATATATACAT
6655980 TATTATATATAT-AATAA
1 TATTATATATATAAATAA
*
6655997 TATTATAT-TATAAATAT
1 TATTATATATATAAATAA
*
6656014 TATTATTTATA
1 TATTATATATA
6656025 AAGCCCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 19 0.79
18 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTATATATATAAATAA
Found at i:6656014 original size:14 final size:15
Alignment explanation
Indices: 6655966--6656016 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
6655956 TAGTGACGAT
*
6655966 TATTATA-TATACAT
1 TATTATATTATACAA
*
6655980 TATTATATATATAATAA
1 TATTATAT-TAT-ACAA
6655997 TATTATATTATA-AA
1 TATTATATTATACAA
6656011 TATTAT
1 TATTAT
6656017 TATTTATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 15 0.47
15 1 0.03
16 6 0.19
17 10 0.31
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTATATTATACAA
Found at i:6661968 original size:14 final size:14
Alignment explanation
Indices: 6661949--6661975 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6661939 CAAGTGACAA
6661949 TTATTATATATATG
1 TTATTATATATATG
6661963 TTATTATATATAT
1 TTATTATATATAT
6661976 AATAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TTATTATATATATG
Found at i:6661986 original size:20 final size:18
Alignment explanation
Indices: 6661948--6662012 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
6661938 CCAAGTGACA
* *
6661948 ATTATTATATAT-ATGTT
1 ATTATTATAAATAATATT
6661965 ATTATATATATAATAATATT
1 ATTAT-TATA-AATAATATT
*
6661985 A-TATTATAAATATTATT
1 ATTATTATAAATAATATT
*
6662002 ATTTTTATAAA
1 ATTATTATAAA
6662013 GACCGAAGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 14 0.35
18 16 0.40
19 5 0.12
20 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTATTATAAATAATATT
Found at i:6661998 original size:14 final size:17
Alignment explanation
Indices: 6661964--6662003 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6661954 ATATATATGT
6661964 TATTATATATATAATAA
1 TATTATATATATAATAA
*
6661981 TATTATAT-TATAAATAT
1 TATTATATATAT-AATAA
6661998 TATTAT
1 TATTAT
6662004 TTTTATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTATATATATAATAA
Found at i:6665658 original size:3 final size:3
Alignment explanation
Indices: 6665650--6665752 Score: 190
Period size: 3 Copynumber: 34.7 Consensus size: 3
6665640 TGGGGTTCTA
6665650 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
6665698 TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6665745 TAT TAT TA
1 TAT TAT TA
6665753 ATTAATTAAT
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 95 0.98
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6667472 original size:19 final size:19
Alignment explanation
Indices: 6667448--6667488 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 19
6667438 TATTCGCATC
6667448 ATTAAAAAAATATGTCATA
1 ATTAAAAAAATATGTCATA
6667467 ATT----AAATATGTCATA
1 ATTAAAAAAATATGTCATA
6667482 ATTAAAA
1 ATTAAAA
6667489 GTTAATCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 8
0.69 0.00 0.31
Matches are distributed among these distances:
15 15 0.83
19 3 0.17
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
ATTAAAAAAATATGTCATA
Found at i:6667475 original size:15 final size:15
Alignment explanation
Indices: 6667455--6667487 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6667445 ATCATTAAAA
6667455 AAATATGTCATAATT
1 AAATATGTCATAATT
6667470 AAATATGTCATAATT
1 AAATATGTCATAATT
6667485 AAA
1 AAA
6667488 AGTTAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (15 bp):
AAATATGTCATAATT
Found at i:6667883 original size:5 final size:5
Alignment explanation
Indices: 6667858--6667901 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
6667848 CCGCCGCCGC
*
6667858 CGTC- CGTC- CGTCT CGTGT CGTCT CGTCT CG-CT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
6667902 GGTCGGGTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 12 0.33
5 24 0.67
ACGTcount: A:0.00, C:0.41, G:0.25, T:0.34
Consensus pattern (5 bp):
CGTCT
Found at i:6667892 original size:14 final size:15
Alignment explanation
Indices: 6667858--6667901 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
6667848 CCGCCGCCGC
6667858 CGTC-CGTC-CGTCT
1 CGTCTCGTCTCGTCT
*
6667871 CGTGTCGTCTCGTCT
1 CGTCTCGTCTCGTCT
6667886 CG-CTCGTCTCGTCT
1 CGTCTCGTCTCGTCT
6667900 CG
1 CG
6667902 GGTCGGGTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 3 0.11
14 17 0.63
15 7 0.26
ACGTcount: A:0.00, C:0.41, G:0.25, T:0.34
Consensus pattern (15 bp):
CGTCTCGTCTCGTCT
Found at i:6667923 original size:6 final size:6
Alignment explanation
Indices: 6667902--6667950 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
6667892 TCTCGTCTCG
6667902 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
6667948 GGT
1 GGT
6667951 AATACGTGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.23
6 33 0.77
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:6668067 original size:21 final size:21
Alignment explanation
Indices: 6668043--6668139 Score: 103
Period size: 21 Copynumber: 4.6 Consensus size: 21
6668033 TGCGATTTTG
6668043 GACTATCGCAACGCGAACTTC
1 GACTATCGCAACGCGAACTTC
*
6668064 GACTATCGCGCAA--CGAACTTG
1 GACTAT--CGCAACGCGAACTTC
* *
6668085 GAATAAATCGCACCGCGAACTTC
1 GACT--ATCGCAACGCGAACTTC
6668108 GACTATCGCAA--CGAACTTC
1 GACTATCGCAACGCGAACTTC
6668127 GACTATCGCAACG
1 GACTATCGCAACG
6668140 AATTTAGTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
19 19 0.31
21 26 0.42
23 17 0.27
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.19
Consensus pattern (21 bp):
GACTATCGCAACGCGAACTTC
Found at i:6670218 original size:3 final size:3
Alignment explanation
Indices: 6670210--6670280 Score: 115
Period size: 3 Copynumber: 23.3 Consensus size: 3
6670200 GGGTCAAAAA
* *
6670210 ATT ATT ATT AAAT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6670256 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
6670281 CCCAAGCACT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 61 0.97
4 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:6670372 original size:12 final size:12
Alignment explanation
Indices: 6670355--6670388 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
6670345 TTTCCATCAC
6670355 TCCATGTTTTCT
1 TCCATGTTTTCT
6670367 TCCATGTTTTCT
1 TCCATGTTTTCT
*
6670379 TTCATGTTTT
1 TCCATGTTTT
6670389 ATTCTTCCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.21, G:0.09, T:0.62
Consensus pattern (12 bp):
TCCATGTTTTCT
Found at i:6671621 original size:239 final size:241
Alignment explanation
Indices: 6671202--6671681 Score: 946
Period size: 239 Copynumber: 2.0 Consensus size: 241
6671192 TAAAAAATGA
6671202 TTTTTCTTAAAATTGTTTTTAAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTTGAT
1 TTTTTCTTAAAATTGTTTTTAAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTTGAT
6671267 GGCGACTCTATCCAATTTTATCCAAATCAATTCCAAATCACTCCATTTTCAAAAATTAAGTCGTA
66 GGCGACTCTATCCAATTTTATCCAAATCAATTCCAAATCACTCCATTTTCAAAAATTAAGTCGTA
6671332 ACTGTTTTTAAAATAATAAAAAAATGTTCCGCCTAAAAATGGTTATGACAACTTGGAGACTCCGT
131 ACTGTTTTTAAAATAATAAAAAAATGTTCCGCCTAAAAATGGTTATGACAACTTGGAGACTCCGT
6671397 TGGGGAC-TTTTAGAGAGTCAGG-TGTTAGTCGCTTACACATTTTC
196 TGGGGACTTTTTAGAGAGTCAGGCTGTTAGTCGCTTACACATTTTC
6671441 TTTTTCTTAAAATTGTTTTTAAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTTGAT
1 TTTTTCTTAAAATTGTTTTTAAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTTGAT
6671506 GGCGACTCTATCCAATTTTATCCAAATCAATTCCAAATCACTCCATTTTCAAAAATTAAGTCGTA
66 GGCGACTCTATCCAATTTTATCCAAATCAATTCCAAATCACTCCATTTTCAAAAATTAAGTCGTA
6671571 ACTGTTTTTAAAATAATAAAAAAATGTTCCGCCTAAAAATGGTTATGACAACTTGGAGACTCCGT
131 ACTGTTTTTAAAATAATAAAAAAATGTTCCGCCTAAAAATGGTTATGACAACTTGGAGACTCCGT
6671636 TGGGGACTTTTTAGAGAGTCAGGCTGTTAGTCGCTTACACATTTTC
196 TGGGGACTTTTTAGAGAGTCAGGCTGTTAGTCGCTTACACATTTTC
6671682 GTTTGGTGGA
Statistics
Matches: 239, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
239 202 0.85
240 15 0.06
241 22 0.09
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (241 bp):
TTTTTCTTAAAATTGTTTTTAAAAGACGTTTTTAGGTATTCGACCTACCTAACCCAAAGGTTGAT
GGCGACTCTATCCAATTTTATCCAAATCAATTCCAAATCACTCCATTTTCAAAAATTAAGTCGTA
ACTGTTTTTAAAATAATAAAAAAATGTTCCGCCTAAAAATGGTTATGACAACTTGGAGACTCCGT
TGGGGACTTTTTAGAGAGTCAGGCTGTTAGTCGCTTACACATTTTC
Found at i:6674534 original size:14 final size:16
Alignment explanation
Indices: 6674515--6674546 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
6674505 CAATTAGGAC
6674515 AAAAAG-AGAA-AAGA
1 AAAAAGAAGAATAAGA
6674529 AAAAAGAAGAATAAGA
1 AAAAAGAAGAATAAGA
6674545 AA
1 AA
6674547 TTAAAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAAAGAAGAATAAGA
Found at i:6674610 original size:17 final size:17
Alignment explanation
Indices: 6674588--6674630 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
6674578 ACAAGAAAAA
6674588 AAAGAAAAAAGAAAAGG
1 AAAGAAAAAAGAAAAGG
6674605 AAAGAAAAAAGAAAAGG
1 AAAGAAAAAAGAAAAGG
6674622 AAAGAAAAA
1 AAAGAAAAA
6674631 TAAGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAGAAAAGG
Found at i:6674641 original size:22 final size:21
Alignment explanation
Indices: 6674584--6674643 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
6674574 AGCAACAAGA
*
6674584 AAAAAAAG-AAAAAAGAAAAGG
1 AAAAAAAGAAAAAAAGGAAA-G
*
6674605 AAAGAAAA-AAGAAAAGGAAAG
1 AAA-AAAAGAAAAAAAGGAAAG
6674626 AAAAATAAGAAAAAAAGG
1 AAAAA-AAGAAAAAAAGG
6674644 CCGATAAGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 9 0.28
22 21 0.66
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAAAAAGAAAAAAAGGAAAG
Found at i:6674642 original size:17 final size:16
Alignment explanation
Indices: 6674580--6674630 Score: 75
Period size: 17 Copynumber: 3.1 Consensus size: 16
6674570 CAATAGCAAC
*
6674580 AAGAAAAAAAAGAAAA
1 AAGAAAAGAAAGAAAA
6674596 AAGAAAAGGAAAGAAAA
1 AAGAAAA-GAAAGAAAA
6674613 AAGAAAAGGAAAGAAAA
1 AAGAAAA-GAAAGAAAA
6674630 A
1 A
6674631 TAAGAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 7 0.21
17 26 0.79
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAAGAAAA
Found at i:6676224 original size:39 final size:39
Alignment explanation
Indices: 6676180--6676347 Score: 180
Period size: 39 Copynumber: 4.4 Consensus size: 39
6676170 ATTACATGTT
** *
6676180 GTTTCCCTCGGTACAGAAGATTTTATCTCGCTTGAGATA
1 GTTTCCCTCGAAACAGAAGATTTTATCTCACTTGAGATA
* * *
6676219 GTTTCCCTCGAAACAAAAGATTTTATTTCACTGGAGATA
1 GTTTCCCTCGAAACAGAAGATTTTATCTCACTTGAGATA
* * *
6676258 GTTTCACTCGAAACAGAAGATTTTGTCTCTCTTGAGATA
1 GTTTCCCTCGAAACAGAAGATTTTATCTCACTTGAGATA
* * * *
6676297 GTTTCCCTTGAAA-A-AA-ATTTTGTCTCCCTTGAGACA
1 GTTTCCCTCGAAACAGAAGATTTTATCTCACTTGAGATA
* *
6676333 GTTTCTCTTGAAACA
1 GTTTCCCTCGAAACA
6676348 TAAACTTTGA
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
36 30 0.27
37 3 0.03
38 1 0.01
39 77 0.69
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (39 bp):
GTTTCCCTCGAAACAGAAGATTTTATCTCACTTGAGATA
Found at i:6676392 original size:63 final size:63
Alignment explanation
Indices: 6676293--6676414 Score: 208
Period size: 63 Copynumber: 1.9 Consensus size: 63
6676283 TCTCTCTTGA
*
6676293 GATAGTTTCCCTTGAAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTT
1 GATAGTTTCCCTTGAAAAAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTT
* * *
6676356 GATAGTTTCCCTTGGAACAAATTTTATCTCCCTTGAGACGGTTTCTCTTGAAACATAAA
1 GATAGTTTCCCTTGAAAAAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
6676415 AACTTTGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (63 bp):
GATAGTTTCCCTTGAAAAAAATTTTATCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTT
Found at i:6676448 original size:21 final size:20
Alignment explanation
Indices: 6676419--6676479 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
6676409 CATAAAAACT
6676419 TTGAAACAAATTTTGCCTCCC
1 TTGAAACAAATTTTG-CTCCC
*
6676440 TTGAGAC-AA--TT--TCCC
1 TTGAAACAAATTTTGCTCCC
6676455 TTGAAACAAATTTTGGCTCCC
1 TTGAAACAAATTTT-GCTCCC
6676476 TTGA
1 TTGA
6676480 GACAGTTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 10 0.31
16 2 0.06
18 4 0.12
20 2 0.06
21 14 0.44
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (20 bp):
TTGAAACAAATTTTGCTCCC
Found at i:6676516 original size:37 final size:36
Alignment explanation
Indices: 6676419--6676536 Score: 173
Period size: 36 Copynumber: 3.2 Consensus size: 36
6676409 CATAAAAACT
*
6676419 TTGAAACAAATTTTGCCTCCCTTGAGACAATTTCCC
1 TTGAAACAAATTTTGCCTCCCTTGAGACAGTTTCCC
*
6676455 TTGAAACAAATTTTGGCTCCCTTGAGACAGTTTCCC
1 TTGAAACAAATTTTGCCTCCCTTGAGACAGTTTCCC
* * * *
6676491 TTGAAACAAAATTTCGTCTCACTTGAGACAGTTTCCT
1 TTGAAAC-AAATTTTGCCTCCCTTGAGACAGTTTCCC
6676528 TTGAAACAA
1 TTGAAACAA
6676537 GAAATTTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
36 43 0.57
37 32 0.43
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (36 bp):
TTGAAACAAATTTTGCCTCCCTTGAGACAGTTTCCC
Found at i:6676876 original size:41 final size:42
Alignment explanation
Indices: 6676816--6676919 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 42
6676806 CAACCTTGGT
6676816 TCAAATCAATCACACAAGGAGGTGAATCGACA-TTTTTTCAC
1 TCAAATCAATCACACAAGGAGGTGAATCGACATTTTTTTCAC
* * * * *
6676857 TCAAATCCATCATAGAAGGAGGTGGATCGACATTTTTTTCGC
1 TCAAATCAATCACACAAGGAGGTGAATCGACATTTTTTTCAC
* * *
6676899 TCAAATCTATCGCAAAAGGAG
1 TCAAATCAATCACACAAGGAG
6676920 TTGGATCAGC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 28 0.53
42 25 0.47
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (42 bp):
TCAAATCAATCACACAAGGAGGTGAATCGACATTTTTTTCAC
Found at i:6676918 original size:42 final size:41
Alignment explanation
Indices: 6676816--6676926 Score: 132
Period size: 42 Copynumber: 2.7 Consensus size: 41
6676806 CAACCTTGGT
* *
6676816 TCAAATCAATCACACAAGGAGGTGAATCGACATTTTTTCAC
1 TCAAATCAATCACAAAAGGAGGTGGATCGACATTTTTTCAC
* * * *
6676857 TCAAATCCATCATAGAAGGAGGTGGATCGACATTTTTTTCGC
1 TCAAATCAATCACAAAAGGAGGTGGATCGACA-TTTTTTCAC
* * *
6676899 TCAAATCTATCGCAAAAGGAGTTGGATC
1 TCAAATCAATCACAAAAGGAGGTGGATC
6676927 AGCGCCAACT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
41 28 0.47
42 31 0.53
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (41 bp):
TCAAATCAATCACAAAAGGAGGTGGATCGACATTTTTTCAC
Found at i:6677054 original size:131 final size:131
Alignment explanation
Indices: 6676859--6677190 Score: 432
Period size: 131 Copynumber: 2.5 Consensus size: 131
6676849 TTTTTCACTC
* *
6676859 AAATCCATCATAGAAGGAGGTGGATCGACA-TTTTTTTCGCTCAAATCTATCGCAAAAGGAGTTG
1 AAATCCATCACAGAAGGAGGTGGATCGACATTTTTTTTCGCTCAAATCCATCGCAAAAGGAGTTG
* * * * * *
6676923 GATCAGCGCCAACTTTTAGCTCGATTCTATCACAGAATGAGGTAGATCAGCACCGATATCTCGTT
66 GATCAGCGCAAACTTTTAGCTCGATCCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGTT
6676988 A
131 A
* *
6676989 AAATCCATCACAGAATGAGGTGGATCGACATTTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTG
1 AAATCCATCACAGAAGGAGGTGGATCGACATTTTTTTTCGCTCAAATCCATCGCAAAAGGAGTTG
* *
6677054 GATCAGCGTAAACTTTTAGCTCGATCCTGTCACAGAAAGAGGTAGATCAACACCAACATCTCGTT
66 GATCAGCGCAAACTTTTAGCTCGATCCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGTT
*
6677119 C
131 A
* * * * * * * * * * *
6677120 GATTCTATCCCAGAAGGAGATGGATCGATATTTTCATTTCACTCAAATCCATCACATACGGAGTT
1 AAATCCATCACAGAAGGAGGTGGATCGACATTTT-TTTTCGCTCAAATCCATCGCAAAAGGAGTT
6677185 GGATCA
65 GGATCA
6677191 ACATCATCAA
Statistics
Matches: 175, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
130 28 0.16
131 116 0.66
132 31 0.18
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (131 bp):
AAATCCATCACAGAAGGAGGTGGATCGACATTTTTTTTCGCTCAAATCCATCGCAAAAGGAGTTG
GATCAGCGCAAACTTTTAGCTCGATCCTATCACAGAAAGAGGTAGATCAACACCAACATCTCGTT
A
Found at i:6687312 original size:1 final size:1
Alignment explanation
Indices: 6687296--6687431 Score: 65
Period size: 1 Copynumber: 136.0 Consensus size: 1
6687286 GCCCTAAATT
* * * * * * * ** * *
6687296 AAAAAAGAAAAGAAAAAGAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGGAAAAAGAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * *
6687361 AAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAGAAAAGAGAAAAAACAAAAGAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
6687426 AGAAAA
1 AAAAAA
6687432 TAAGGTGGGT
Statistics
Matches: 91, Mismatches: 44, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 91 1.00
ACGTcount: A:0.83, C:0.01, G:0.16, T:0.00
Consensus pattern (1 bp):
A
Found at i:6687319 original size:7 final size:7
Alignment explanation
Indices: 6687296--6687423 Score: 104
Period size: 7 Copynumber: 18.9 Consensus size: 7
6687286 GCCCTAAATT
*
6687296 AAAAAAG
1 AAAAGAG
6687303 AAAAGA-
1 AAAAGAG
6687309 AAAAGAG
1 AAAAGAG
*
6687316 AAAAAAG
1 AAAAGAG
*
6687323 AAAAAAG
1 AAAAGAG
*
6687330 AAAAAAG
1 AAAAGAG
*
6687337 AAAAAAGG
1 AAAAGA-G
6687345 AAAA-AG
1 AAAAGAG
6687351 AAAA-A-
1 AAAAGAG
*
6687356 AAAAGAA
1 AAAAGAG
*
6687363 AAAAGAA
1 AAAAGAG
*
6687370 AAAAGAA
1 AAAAGAG
*
6687377 AAAAGAA
1 AAAAGAG
*
6687384 AAAAGAA
1 AAAAGAG
6687391 AAAAGAG
1 AAAAGAG
6687398 AAAAGAG
1 AAAAGAG
* *
6687405 AAAAAAC
1 AAAAGAG
6687412 AAAAGA-
1 AAAAGAG
6687418 AAAAGA
1 AAAAGA
6687424 AAAGAAAATA
Statistics
Matches: 111, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
5 4 0.04
6 19 0.17
7 83 0.75
8 5 0.05
ACGTcount: A:0.83, C:0.01, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:6687326 original size:14 final size:14
Alignment explanation
Indices: 6687303--6687426 Score: 162
Period size: 14 Copynumber: 8.6 Consensus size: 14
6687293 ATTAAAAAAG
6687303 AAAAGAAAAAGAGAA
1 AAAAGAAAAA-AGAA
6687318 AAAAGAAAAAAGAA
1 AAAAGAAAAAAGAA
6687332 AAAAGAAAAAAGGAAA
1 AAAAGAAAAAA-G-AA
*
6687348 AAGAAAAAAAAAGAA
1 AA-AAGAAAAAAGAA
6687363 AAAAGAAAAAAGAA
1 AAAAGAAAAAAGAA
6687377 AAAAGAAAAAAGAA
1 AAAAGAAAAAAGAA
*
6687391 AAAAGAGAAAAGAGA
1 AAAAGAAAAAAGA-A
*
6687406 AAAA-ACAAAAG-A
1 AAAAGAAAAAAGAA
6687418 AAAAGAAAA
1 AAAAGAAAA
6687427 GAAAATAAGG
Statistics
Matches: 99, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
12 5 0.05
13 3 0.03
14 58 0.59
15 20 0.20
16 5 0.05
17 8 0.08
ACGTcount: A:0.83, C:0.01, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:6687327 original size:21 final size:22
Alignment explanation
Indices: 6687303--6687423 Score: 160
Period size: 21 Copynumber: 5.5 Consensus size: 22
6687293 ATTAAAAAAG
6687303 AAAAGAAAAAGAGAAAAAAGAA
1 AAAAGAAAAAGAGAAAAAAGAA
6687325 AAAAGAAAAA-AGAAAAAAGGAA
1 AAAAGAAAAAGAGAAAAAA-GAA
* *
6687347 AAAGAAAAAAAAAGAAAAAAGAA
1 AAA-AGAAAAAGAGAAAAAAGAA
6687370 AAAAGAAAAA-AGAAAAAAGAA
1 AAAAGAAAAAGAGAAAAAAGAA
*
6687391 AAAAGAGAAAAGAG-AAAAA-AC
1 AAAAGA-AAAAGAGAAAAAAGAA
6687412 AAAAGAAAAAGA
1 AAAAGAAAAAGA
6687424 AAAGAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
20 6 0.07
21 32 0.35
22 31 0.34
23 14 0.15
24 8 0.09
ACGTcount: A:0.83, C:0.01, G:0.17, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAAGAGAAAAAAGAA
Found at i:6688813 original size:106 final size:106
Alignment explanation
Indices: 6688556--6689020 Score: 631
Period size: 106 Copynumber: 4.5 Consensus size: 106
6688546 GAAGGGGCTT
* * * * * *
6688556 CCCAATTTCATAACCAATTTCAACTTCACAACGAAGGATATTGGTCCCAAGACAACACAATCTCA
1 CCCAATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCA
* *
6688621 ACTTCACGACGAAGGGGCGGCTGATTGTCAACAAACAA---
66 ACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAATTC
*
6688659 --C--TTTTAGAGT-CAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTC
1 CCCAATTTCAGA-TCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTC
* *
6688719 AACTTCACGGTGAAGGGGCGGCTGACTGTCAATAAACAATTC
65 AACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAATTC
* *
6688761 CCCAATTTCATATCCAATTTCAACTTCACAATGAAGGATATTGGACTCAAGACAGCACAAGCTCA
1 CCCAATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCA
* ** *
6688826 ACTTCATGGAAAAGGGGCGGCTGACTGTCAATAAACAATTC
66 ACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAATTC
* * *
6688867 TCCAATTTCAAATCTAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCA
1 CCCAATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCA
*
6688932 ACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAATTT
66 ACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAATTC
* * * * *
6688973 CCCAGTTCCAGAACCAATTTCAACTTCACGACGAAGGATATTAGACTC
1 CCCAATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTC
6689021 GGAGCAATAC
Statistics
Matches: 319, Mismatches: 34, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
99 86 0.27
101 1 0.00
104 1 0.00
105 1 0.00
106 230 0.72
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (106 bp):
CCCAATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCA
ACTTCACGGCGAAGGGGCGGCTGACTGTCAACAAACAATTC
Found at i:6690804 original size:3 final size:3
Alignment explanation
Indices: 6690796--6690866 Score: 106
Period size: 3 Copynumber: 22.7 Consensus size: 3
6690786 CTATATTTAT
*
6690796 TTA TTA TTA TTCC TTCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6690843 TTA TTA TTA TTA TTA TTTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TT
6690867 TTAATCTATG
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 56 0.88
4 8 0.12
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6693770 original size:16 final size:17
Alignment explanation
Indices: 6693736--6693771 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6693726 ATAAATAGTC
*
6693736 AAAGAATTTATGGAAAG
1 AAAGAATTTATGAAAAG
6693753 AAAGAATTTAT-AAAAG
1 AAAGAATTTATGAAAAG
6693769 AAA
1 AAA
6693772 TTGTAGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (17 bp):
AAAGAATTTATGAAAAG
Found at i:6700564 original size:17 final size:17
Alignment explanation
Indices: 6700542--6700585 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
6700532 ATGTAAAAAT
*
6700542 AAATATTTAAATTTAAA
1 AAATATTTAAATCTAAA
** *
6700559 AAATATAAAAATCTAAT
1 AAATATTTAAATCTAAA
6700576 AAATATTTAA
1 AAATATTTAA
6700586 TCAAGTTGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATTTAAATCTAAA
Found at i:6701414 original size:15 final size:13
Alignment explanation
Indices: 6701379--6701421 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
6701369 ATTTCAAATT
6701379 TATTAATATAATA
1 TATTAATATAATA
6701392 TATTAATATATATA
1 TATTAATATA-ATA
* *
6701406 TTTTAA-ATAAGA
1 TATTAATATAATA
6701418 TATT
1 TATT
6701422 TATTTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 13 0.50
14 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
TATTAATATAATA
Found at i:6703445 original size:3 final size:3
Alignment explanation
Indices: 6703437--6703485 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
6703427 TACTTATTTA
* *
6703437 AAT AAT AAT AAT AAT AGAT -AT ACT AATT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
6703483 AAT
1 AAT
6703486 GAAAAAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.82
4 5 0.13
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:6703669 original size:45 final size:45
Alignment explanation
Indices: 6703607--6704222 Score: 973
Period size: 45 Copynumber: 13.7 Consensus size: 45
6703597 GGAAATGTGA
* * *
6703607 AAAACATTATGCACTGAAGGACCTACAGATGACCGGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
*
6703652 AAAATATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
*
6703697 AAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
*
6703742 AAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
* *
6703787 AAAACATCATGCACTGAAGGGCTTACAGATGATCCGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
* *
6703832 AAAACATCATGCACTGAAGGACTTACAGATGACCCAAAAGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
* * *
6703877 AAAACATCATGCACTGAAGGACTTACAGATAACTCAAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
*
6703922 AAAACATCATGCACTGAAGGACTTACAGATGGCCCGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
* * *
6703967 AAAACATCAAGCACTGAAGGATTTACAGATGGCCC-ATAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGA-AGGTTTTG
*
6704012 AAAACATCAAGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
* * * *
6704057 AAAAAATCATGCACTGAAGGAGTTACAGATGGCCTGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
6704102 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
* * *
6704147 AAAACATCATGCAATGAAGGAGTTATAGATGACCCGAAGGTTTTG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
* *
6704192 AAAACATAATGCACTGAAGGGCTTACAGATG
1 AAAACATCATGCACTGAAGGACTTACAGATG
6704223 TGAGAAATAG
Statistics
Matches: 530, Mismatches: 39, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
44 1 0.00
45 528 1.00
46 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (45 bp):
AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTG
Found at i:6704874 original size:22 final size:21
Alignment explanation
Indices: 6704849--6704900 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
6704839 AATAAAGATT
*
6704849 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTG-AAAGAAAATCTA
*
6704871 TCATCTATG--AGAAAATCTA
1 TCATCTTTGAAAGAAAATCTA
6704890 TCATCTTTGAA
1 TCATCTTTGAA
6704901 GAATGTAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 17 0.68
22 8 0.32
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (21 bp):
TCATCTTTGAAAGAAAATCTA
Found at i:6709033 original size:32 final size:32
Alignment explanation
Indices: 6708994--6709057 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
6708984 TGAAGAAATG
* * *
6708994 GTTGTTATGCTCATTTTGTAGAGATACTTCTT
1 GTTGTTATACTCATCTCGTAGAGATACTTCTT
6709026 GTTGTTATACTCATCTCGTAGAGATACTTCTT
1 GTTGTTATACTCATCTCGTAGAGATACTTCTT
6709058 ATTTTCAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.47
Consensus pattern (32 bp):
GTTGTTATACTCATCTCGTAGAGATACTTCTT
Found at i:6709663 original size:7 final size:7
Alignment explanation
Indices: 6709645--6709679 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
6709635 GATTTAATTT
6709645 TTTTTCC
1 TTTTTCC
6709652 TTTTTTCC
1 -TTTTTCC
6709660 TTTTTCC
1 TTTTTCC
6709667 TTTTTCC
1 TTTTTCC
6709674 TCTTTT
1 T-TTTT
6709680 TTTTGAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 15 0.58
8 11 0.42
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCC
Found at i:6712062 original size:20 final size:20
Alignment explanation
Indices: 6712034--6712072 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6712024 GCCAAGATGA
*
6712034 AAATGCAAAAATAAAAATGT
1 AAATACAAAAATAAAAATGT
**
6712054 AAATACAAACGTAAAAATG
1 AAATACAAAAATAAAAATG
6712073 AAAAAAATGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (20 bp):
AAATACAAAAATAAAAATGT
Found at i:6712197 original size:15 final size:14
Alignment explanation
Indices: 6712164--6712201 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
6712154 ATAAAAGTAT
6712164 AAATGCAAAATGAA
1 AAATGCAAAATGAA
*
6712178 AAATGCAAAGATGCA
1 AAATGCAAA-ATGAA
6712193 AAATGCAAA
1 AAATGCAAA
6712202 TGTATGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.13
Consensus pattern (14 bp):
AAATGCAAAATGAA
Found at i:6712198 original size:7 final size:7
Alignment explanation
Indices: 6712164--6712201 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
6712154 ATAAAAGTAT
6712164 AAATGCA
1 AAATGCA
*
6712171 AAATGAA
1 AAATGCA
6712178 AAATGCA
1 AAATGCA
6712185 AAGATGCA
1 AA-ATGCA
6712193 AAATGCA
1 AAATGCA
6712200 AA
1 AA
6712202 TGTATGTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.13
Consensus pattern (7 bp):
AAATGCA
Found at i:6712345 original size:43 final size:44
Alignment explanation
Indices: 6712280--6712366 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
6712270 CCTTGCATCA
* * *
6712280 AACAAAACTTTTACATGCAGGGGACAGCTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATACAGGGGACAACTTTCACTCCTAACTTC
* * *
6712324 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTTACATACAGGGGACAACTTTCACTCCTAACTTC
6712367 TCTAAAGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 29 0.78
44 8 0.22
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (44 bp):
AACAAAACTTTTACATACAGGGGACAACTTTCACTCCTAACTTC
Found at i:6712435 original size:30 final size:30
Alignment explanation
Indices: 6712401--6712459 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
6712391 CTTATGGGCC
* * *
6712401 ATATTGCTTGTCTGGACTGTAGCTTCTTCT
1 ATATTACTTATCTGGACTGCAGCTTCTTCT
6712431 ATATTACTTATCTGGACTGCAGCTTCTTC
1 ATATTACTTATCTGGACTGCAGCTTCTTC
6712460 CATGACATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (30 bp):
ATATTACTTATCTGGACTGCAGCTTCTTCT
Found at i:6716307 original size:3 final size:3
Alignment explanation
Indices: 6716299--6716368 Score: 88
Period size: 3 Copynumber: 23.0 Consensus size: 3
6716289 TACTTATTTA
6716299 AAT AAT AAT AAT AAT -AT ATAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
6716344 GAT ATTT AAT AAT AAT GAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT
6716369 GAAAAAATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.88
4 5 0.09
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:6717063 original size:20 final size:21
Alignment explanation
Indices: 6717038--6717077 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6717028 GTTTGATTGT
*
6717038 AGAAAAT-ATTTTTTATTTTC
1 AGAAAATAAATTTTTATTTTC
6717058 AGAAAATAAATTTTTATTTT
1 AGAAAATAAATTTTTATTTT
6717078 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (21 bp):
AGAAAATAAATTTTTATTTTC
Found at i:6717368 original size:17 final size:17
Alignment explanation
Indices: 6717339--6717371 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6717329 TTGTATACTA
6717339 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
6717356 TTAAA-ATAGAAAATAA
1 TTAAATATA-AAAATAA
6717372 AATAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:6718243 original size:18 final size:18
Alignment explanation
Indices: 6718220--6718299 Score: 142
Period size: 18 Copynumber: 4.4 Consensus size: 18
6718210 ACATTGATAG
6718220 TAATCTTATTCCTACTGA
1 TAATCTTATTCCTACTGA
6718238 TAATCTTATTCCTACTGA
1 TAATCTTATTCCTACTGA
*
6718256 TAATCTTATTCCTATTGA
1 TAATCTTATTCCTACTGA
*
6718274 TAATCTTATTCTTACTGA
1 TAATCTTATTCCTACTGA
6718292 TAATCTTA
1 TAATCTTA
6718300 CATTCTTTGA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.47
Consensus pattern (18 bp):
TAATCTTATTCCTACTGA
Found at i:6718545 original size:22 final size:22
Alignment explanation
Indices: 6718517--6718560 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6718507 AAAATTTCAA
6718517 AAAAATA-AAAATATATTTTAAT
1 AAAAATATAAAA-ATATTTTAAT
6718539 AAAAATATAAAAATATTTTAAT
1 AAAAATATAAAAATATTTTAAT
6718561 TATATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATATAAAAATATTTTAAT
Found at i:6718576 original size:27 final size:24
Alignment explanation
Indices: 6718515--6718579 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
6718505 ATAAAATTTC
*
6718515 AAAAAAATAAAAATATATTTTAAT
1 AAAAATATAAAAATATATTTTAAT
*
6718539 AAAAATATAAAAATATTTTAATTATAT
1 AAAAATATAAAAATATATT--TTA-AT
*
6718566 AAAAATTTAAAAAT
1 AAAAATATAAAAAT
6718580 TTTAAGAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.49
26 3 0.09
27 15 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAAATATAAAAATATATTTTAAT
Found at i:6719632 original size:20 final size:20
Alignment explanation
Indices: 6719609--6719648 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6719599 ATAGATTAGT
6719609 TTAGAATGCTATAGAAGAGG
1 TTAGAATGCTATAGAAGAGG
6719629 TTAGAATGCTATAGAAGAGG
1 TTAGAATGCTATAGAAGAGG
6719649 CACAACATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (20 bp):
TTAGAATGCTATAGAAGAGG
Found at i:6719920 original size:3 final size:3
Alignment explanation
Indices: 6719912--6719993 Score: 55
Period size: 3 Copynumber: 28.0 Consensus size: 3
6719902 GCTAGAGAAA
* * *
6719912 GAG GAG GAG GA- GAG GGG GAG GAG GAG GAG AAG GA- GAA GAG GCTA-
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG G--AG
* * * *
6719956 GAG AAA GAG GAG GAG GA- GAG GAG AAG TAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
6719994 AAGTAGTGAA
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
2 7 0.11
3 52 0.85
4 1 0.02
5 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.57, T:0.02
Consensus pattern (3 bp):
GAG
Done.