Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, 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: 7441454
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 92215 characters in sequence are not A, C, G, or T
File 16 of 18
Found at i:6429818 original size:27 final size:25
Alignment explanation
Indices: 6429762--6429818 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 25
6429752 ATTTTATTTT
*
6429762 ATTT-TTTAAATATGAATAATTGAT
1 ATTTATTTAAATATGAATAATTGAC
*
6429786 AGTTTATTTAAAATATTAATAATTGACC
1 A-TTTATTT-AAATATGAATAATTGA-C
6429814 ATTTA
1 ATTTA
6429819 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 3 0.11
26 3 0.11
27 19 0.70
28 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (25 bp):
ATTTATTTAAATATGAATAATTGAC
Found at i:6429912 original size:55 final size:55
Alignment explanation
Indices: 6429853--6430027 Score: 142
Period size: 63 Copynumber: 3.0 Consensus size: 55
6429843 AGTCATTAAA
* *
6429853 ATATTAAAATATTAATATTTAATTTAATTTAAATATTATTATGATAAATTATTTT
1 ATATTAAAATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTATTTT
* *
6429908 ATATTTATTTTTAAATATTAATAATTGATTATTT-ATTTAAA-A-TATTAATAATTTAATAATTA
1 ATA-TTA-----AAATATTAAT-ATT--TTATTTAATTTAAATATTATT-ATGA-TTAATTATT-
*
6429970 AT
54 TT
* * *
6429972 ATTTTAAATTATTAATATTTTATTTAATTTAAGTATTATTATGATTAATT-TTTT
1 ATATTAAAATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTATTTT
6430026 AT
1 AT
6430028 TTTATTTCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
54 3 0.03
55 11 0.12
56 14 0.15
57 7 0.07
58 13 0.14
61 14 0.15
62 7 0.07
63 17 0.18
64 8 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (55 bp):
ATATTAAAATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTATTTT
Found at i:6429919 original size:151 final size:150
Alignment explanation
Indices: 6429637--6429960 Score: 483
Period size: 151 Copynumber: 2.1 Consensus size: 150
6429627 TTTATTTTAT
* * * *
6429637 TTTATTTTTAAATATTAATAATTGATAATTTCAATATTAATATTTTATTTGTAATTTAATCATTA
1 TTTA-TTTAAAATATTAATAATTGACAATTTAAATATTAATATTTTATTTATAATTTAATCATTA
* * * *
6429702 ATATTTTAAAATATTAATATTTTTTAATTTAAATATTATTGTGATTAATTATTTTATTTTATTTT
65 AAATATTAAAATATTAATATTTTTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTT
6429767 TTAAATATGAATAATTGA-TA
130 TTAAATATGAATAATTGATTA
* *
6429787 GTTTATTTAAAATATTAATAATTGACCATTTAAATATTAATA-TTTATTTATAATTTAGTCATTA
1 -TTTATTTAAAATATTAATAATTGACAATTTAAATATTAATATTTTATTTATAATTTAATCATTA
6429851 AAATATTAAAATATTAATATTTAATTTAATTTAAATATTATTATGATAAATTATTTTATATTTA-
65 AAATATTAAAATATTAATATTT--TTTAATTTAAATATTATTATGATAAATTATTTTAT-TTTAT
*
6429915 TTTTTAAATATTAATAATTGATTA
127 TTTTTAAATATGAATAATTGATTA
6429939 TTTATTTAAAATATTAATAATT
1 TTTATTTAAAATATTAATAATT
6429961 TAATAATTAA
Statistics
Matches: 158, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
149 40 0.25
150 33 0.21
151 79 0.50
152 6 0.04
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (150 bp):
TTTATTTAAAATATTAATAATTGACAATTTAAATATTAATATTTTATTTATAATTTAATCATTAA
AATATTAAAATATTAATATTTTTTAATTTAAATATTATTATGATAAATTATTTTATTTTATTTTT
TAAATATGAATAATTGATTA
Found at i:6429961 original size:16 final size:16
Alignment explanation
Indices: 6429942--6429993 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
6429932 TTGATTATTT
6429942 ATTTAAAATATTAATA
1 ATTTAAAATATTAATA
*
6429958 ATTTAATA-ATTAATA
1 ATTTAAAATATTAATA
* *
6429973 TTTTAAATTATTAATA
1 ATTTAAAATATTAATA
*
6429989 TTTTA
1 ATTTA
6429994 TTTAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTAAAATATTAATA
Found at i:6430041 original size:15 final size:15
Alignment explanation
Indices: 6430021--6430049 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6430011 TATGATTAAT
6430021 TTTTTATTTTATTTC
1 TTTTTATTTTATTTC
6430036 TTTTTATTTTATTT
1 TTTTTATTTTATTT
6430050 TTAAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTATTTC
Found at i:6430041 original size:64 final size:59
Alignment explanation
Indices: 6429859--6430028 Score: 147
Period size: 61 Copynumber: 2.8 Consensus size: 59
6429849 TAAAATATTA
* *
6429859 AAATATTAATATTTAATTTAATTTAAATATTATTATGATAAATTATTTTA-TATTTATTTTT
1 AAATATTAATATTTTATTTAATTT-AATATTATTATGATTAATT-TTTTATTATTT-TTTTT
* * * * *
6429920 AAATATTAATAATTGATTATTT-ATTTAA-AATATTA--A-TAATTTAATAATTA-ATATTTT
1 AAATATTAAT-ATT--TTATTTAATTTAATATTATTATGATTAATTT-TTTATTATTTTTTTT
6429977 AAATTATTAATATTTTATTTAATTTAAGTATTATTATGATTAATTTTTTATT
1 AAA-TATTAATATTTTATTTAATTTAA-TATTATTATGATTAATTTTTTATT
6430029 TTATTTCTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 25
0.71 0.08 0.20
Matches are distributed among these distances:
55 6 0.07
56 6 0.07
57 11 0.13
58 20 0.23
59 3 0.03
60 5 0.06
61 22 0.25
62 5 0.06
63 4 0.05
64 5 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (59 bp):
AAATATTAATATTTTATTTAATTTAATATTATTATGATTAATTTTTTATTATTTTTTTT
Found at i:6430100 original size:27 final size:28
Alignment explanation
Indices: 6430043--6430101 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
6430033 TTCTTTTTAT
* * *
6430043 TTTATTTTTAAATATTAATAATTGGTAA
1 TTTATTTTAAAATATAAATAATTGATAA
*
6430071 TTTA-TTTAAAATATAAATAATTGATCA
1 TTTATTTTAAAATATAAATAATTGATAA
6430098 TTTA
1 TTTA
6430102 ACTATTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (28 bp):
TTTATTTTAAAATATAAATAATTGATAA
Found at i:6430102 original size:283 final size:275
Alignment explanation
Indices: 6429585--6430127 Score: 704
Period size: 283 Copynumber: 1.9 Consensus size: 275
6429575 TAATTTAATC
* *
6429585 ATTAATATTTTATTTAATTTAAACATTATTATGATCAATTATTTTATTTTATTTTATTTTTAAAT
1 ATTAATATTTAATTTAATTTAAACATTATTATGATAAATTATTTTA--TTATTTTATTTTTAAAT
* ** *
6429650 ATTAATAATTGATAATTTCAATATTAATATTTTATTTGTAATTTAATCATTAATATTTTAAAATA
64 ATTAATAATTGATAATTT-AATATTAATA-TATATTAATAATTTAATAATTAATATTTTAAAATA
*
6429715 TTAATATTTTTTAATTTAAATATTATTGTGATTAATTATTTTATTTTATTTTTTAAATATGAATA
127 TTAATATTTTTTAATTTAAATATTATTATGATTAATTATTTTATTTTATTTTTTAAATATGAATA
* * *
6429780 ATTGATAGTTTATTTAAAATATTAATAATTGACCATTTAAATATTAATA-TTTATTTATAATTTA
192 ATTGATAATTTATTTAAAATATAAATAATTGACCATTTAAATATTAATATTTTATATATAATTTA
6429844 GTCATTAAAATATTAAAAT
257 GTCATTAAAATATTAAAAT
*
6429863 ATTAATATTTAATTTAATTTAAATATTATTATGATAAATTATTTTA-TA-TTTATTTTTAAATAT
1 ATTAATATTTAATTTAATTTAAACATTATTATGATAAATTATTTTATTATTTTATTTTTAAATAT
* *
6429926 TAATAATTGATTATTT-AT-TTAA-A-ATATTAATAATTTAATAATTAATATTTTAAATTATTAA
66 TAATAATTGATAATTTAATATTAATATATATTAATAATTTAATAATTAATATTTTAAAATATTAA
*
6429987 TATTTTATTTAATTTAAGTATTATTATGATTAATTTTTTATTTTATTTCTTTTTATTTTATTTTT
131 TA-TTT-TTTAATTTAAATATTATTATGATTAA----TTATTTTA-----TTTTA---T-TTTTT
* * * *
6430052 AAATATTAATAATTGGTAATTTATTTAAAATATAAATAATTGATCATTTAACTATTAATATTTTA
181 AAATATGAATAATTGATAATTTATTTAAAATATAAATAATTGACCATTTAAATATTAATATTTTA
6430117 TATATAATTTA
246 TATATAATTTA
6430128 AATGATATTA
Statistics
Matches: 231, Mismatches: 18, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
268 35 0.15
269 3 0.01
270 25 0.11
271 4 0.02
272 2 0.01
274 38 0.16
275 2 0.01
278 43 0.19
279 5 0.02
282 1 0.00
283 59 0.26
284 14 0.06
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (275 bp):
ATTAATATTTAATTTAATTTAAACATTATTATGATAAATTATTTTATTATTTTATTTTTAAATAT
TAATAATTGATAATTTAATATTAATATATATTAATAATTTAATAATTAATATTTTAAAATATTAA
TATTTTTTAATTTAAATATTATTATGATTAATTATTTTATTTTATTTTTTAAATATGAATAATTG
ATAATTTATTTAAAATATAAATAATTGACCATTTAAATATTAATATTTTATATATAATTTAGTCA
TTAAAATATTAAAAT
Found at i:6430189 original size:113 final size:108
Alignment explanation
Indices: 6430029--6430237 Score: 258
Period size: 109 Copynumber: 1.9 Consensus size: 108
6430019 ATTTTTTATT
* * ** * *
6430029 TTATTTCTTTTTATTTTATTTTTAAATATTAATAATTGGTAATTTATTTAAAATATAAATAATTG
1 TTATTTATTTTTAATTTATTTTTAAATAGGAATAATTGATAAGTTATTT----TATAAATAATTG
*
6430094 ATCA-TTTAACTATTAATATTTTATATATAATTTAAATGATATTATGC
62 AT-ATTTTAAATATTAATATTTTATATATAATTTAAATGATATTATGC
* * *
6430141 TTATTTATTTTTAATTTATTTTTTAAATAGGAATAATTTATAAGTTATTTTATTAATAATTTATA
1 TTATTTATTTTTAATTTA-TTTTTAAATAGGAATAATTGATAAGTTATTTTATAAATAATTGATA
*
6430206 TTTTAAATATTAATATTTTATTTATAATTTAA
65 TTTTAAATATTAATATTTTATATATAATTTAA
6430238 TATTTATTAT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
108 1 0.01
109 41 0.49
112 16 0.19
113 26 0.31
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (108 bp):
TTATTTATTTTTAATTTATTTTTAAATAGGAATAATTGATAAGTTATTTTATAAATAATTGATAT
TTTAAATATTAATATTTTATATATAATTTAAATGATATTATGC
Found at i:6430228 original size:26 final size:26
Alignment explanation
Indices: 6430199--6430251 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6430189 TTTATTAATA
*
6430199 ATTTATATTTTAA-ATATTAATATTTT
1 ATTTATAATTTAATAT-TTAATATTTT
*
6430225 ATTTATAATTTAATATTTATTATTTT
1 ATTTATAATTTAATATTTAATATTTT
6430251 A
1 A
6430252 AACTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTATAATTTAATATTTAATATTTT
Found at i:6430272 original size:19 final size:19
Alignment explanation
Indices: 6430191--6430269 Score: 79
Period size: 22 Copynumber: 3.8 Consensus size: 19
6430181 TAAGTTATTT
6430191 TATTAATAATTTATATTTTAAA
1 TATTAAT-ATTT-TA-TTTAAA
6430213 TATTAATATTTTATTTATAA
1 TATTAATATTTTATTTA-AA
6430233 T-TTAATATTTATTATTTTAAA
1 TATTAATA-TT-TTA-TTTAAA
6430254 CTATTAATATTTTATT
1 -TATTAATATTTTATT
6430270 AAAAATTGGA
Statistics
Matches: 51, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
19 10 0.20
20 9 0.18
21 12 0.24
22 14 0.27
23 6 0.12
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTAATATTTTATTTAAA
Found at i:6432888 original size:19 final size:19
Alignment explanation
Indices: 6432864--6432906 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
6432854 AAGCTCTTTT
*
6432864 TTTAAAAAAAATTTAGTTC
1 TTTAAAAAAAATTTACTTC
*
6432883 TTT-AAAAAAATTTACTTT
1 TTTAAAAAAAATTTACTTC
6432901 TTTAAA
1 TTTAAA
6432907 GAGCTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (19 bp):
TTTAAAAAAAATTTACTTC
Found at i:6433090 original size:14 final size:13
Alignment explanation
Indices: 6433067--6433112 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
6433057 AGTTCATATT
*
6433067 TAAACTTAAAATA
1 TAAACATAAAATA
6433080 CTAAACATAAAACTA
1 -TAAACATAAAA-TA
6433095 TAATACATAAAATA
1 TAA-ACATAAAATA
6433109 TAAA
1 TAAA
6433113 TAGTTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 1 0.03
14 18 0.62
15 10 0.34
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAACATAAAATA
Found at i:6433967 original size:17 final size:17
Alignment explanation
Indices: 6433945--6433978 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6433935 AAACAACTTA
6433945 AATTCATCAAACATAAG
1 AATTCATCAAACATAAG
6433962 AATTCATCAAACATAAG
1 AATTCATCAAACATAAG
6433979 CAAAAGAAAG
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:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
AATTCATCAAACATAAG
Found at i:6465078 original size:2 final size:2
Alignment explanation
Indices: 6465071--6465110 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6465061 AGGAATTAGG
6465071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6465111 TGTCCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6470920 original size:13 final size:13
Alignment explanation
Indices: 6470904--6470929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6470894 CCTTTTTCCC
6470904 TTGTCTTTTCTTT
1 TTGTCTTTTCTTT
6470917 TTGTCTTTTCTTT
1 TTGTCTTTTCTTT
6470930 CACATTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (13 bp):
TTGTCTTTTCTTT
Found at i:6475397 original size:16 final size:19
Alignment explanation
Indices: 6475362--6475404 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
6475352 ATAATAACAA
6475362 TATTATTTATTGTTTATAT
1 TATTATTTATTGTTTATAT
6475381 TATTATTTATT-TTTAT-T
1 TATTATTTATTGTTTATAT
6475398 T-TTATTT
1 TATTATTT
6475405 TAAATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.25
17 2 0.08
18 5 0.21
19 11 0.46
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TATTATTTATTGTTTATAT
Found at i:6475575 original size:23 final size:24
Alignment explanation
Indices: 6475502--6475575 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 24
6475492 TTATTTTATT
* *
6475502 TTTAACTATTAATATTTTATAATTTA
1 TTTAAATATTAATA-TTT-TAATTAA
*
6475528 TTTAAAATATTAATATTTTGA-TAA
1 TTT-AAATATTAATATTTTAATTAA
6475552 TTTAAATATTAATATTTT-ATTAA
1 TTTAAATATTAATATTTTAATTAA
6475575 T
1 T
6475576 AATTTAATCA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 1 0.02
23 19 0.44
24 5 0.12
25 2 0.05
26 6 0.14
27 10 0.23
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (24 bp):
TTTAAATATTAATATTTTAATTAA
Found at i:6475597 original size:23 final size:22
Alignment explanation
Indices: 6475533--6475609 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 22
6475523 ATTTATTTAA
* *
6475533 AATATTAATATTTTGATAATTT
1 AATATTAAAATTTTAATAATTT
*
6475555 AAATATTAATATTTTATTAATAATTT
1 -AATATTAA-A-ATT-TTAATAATTT
6475581 AATCATTAAAATTTTAA-AATATT
1 AAT-ATTAAAATTTTAATAAT-TT
6475604 AATATT
1 AATATT
6475610 TTATTTATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
22 6 0.13
23 17 0.38
24 2 0.04
25 6 0.13
26 14 0.31
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (22 bp):
AATATTAAAATTTTAATAATTT
Found at i:6486599 original size:15 final size:15
Alignment explanation
Indices: 6486579--6486619 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
6486569 CCTGGAGCCA
*
6486579 AGCTTTGGTTTGTTT
1 AGCTTTGCTTTGTTT
6486594 AGCTTTGCTTTGTTT
1 AGCTTTGCTTTGTTT
6486609 AGCTTTGCTTT
1 AGCTTTGCTTT
6486620 TCATGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.07, C:0.12, G:0.22, T:0.59
Consensus pattern (15 bp):
AGCTTTGCTTTGTTT
Found at i:6488777 original size:6 final size:6
Alignment explanation
Indices: 6488766--6488799 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
6488756 ATTCATTAAG
*
6488766 AATTGA AATTGA AATTGA AATTGA AATCGA AATT
1 AATTGA AATTGA AATTGA AATTGA AATTGA AATT
6488800 CTTCAAGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (6 bp):
AATTGA
Found at i:6499704 original size:28 final size:29
Alignment explanation
Indices: 6499656--6499797 Score: 132
Period size: 28 Copynumber: 5.0 Consensus size: 29
6499646 TGGTAGGCTT
*
6499656 AACATGTTTATT-TTAATTTAGACAA-AA
1 AACATGTTTGTTCTTAATTTAGACAAGAA
6499683 AACATGTTTGTTCTTAATTTAGACAAGAA
1 AACATGTTTGTTCTTAATTTAGACAAGAA
* *
6499712 AATATGTTTG-TCTTAATTTAAGATAAGAA
1 AACATGTTTGTTCTTAATTT-AGACAAGAA
* * * *
6499741 AATTAT-TTTTTGTCTTAATCTAGATAAGAA
1 AA-CATGTTTGT-TCTTAATTTAGACAAGAA
* * *
6499771 AACATATTT-TTCTCAATTTATACAAGA
1 AACATGTTTGTTCTTAATTTAGACAAGA
6499798 TAAAATATTT
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
27 11 0.11
28 35 0.36
29 27 0.28
30 17 0.17
31 8 0.08
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (29 bp):
AACATGTTTGTTCTTAATTTAGACAAGAA
Found at i:6499772 original size:59 final size:58
Alignment explanation
Indices: 6499689--6499817 Score: 143
Period size: 59 Copynumber: 2.2 Consensus size: 58
6499679 AAAAAACATG
* * * * * *
6499689 TTTGTTCTTAATTTAGACAAGAAAATATGTTTGTCTTAATTTAAGATAAGA-AAATTATTT
1 TTTG-TCTTAATCTAGACAAGAAAACATATTTGTCTCAATTT-AGACAAGATAAAATA-TT
* * *
6499749 TTTGTCTTAATCTAGATAAGAAAACATATTTTTCTCAATTTATACAAGATAAAATATT
1 TTTGTCTTAATCTAGACAAGAAAACATATTTGTCTCAATTTAGACAAGATAAAATATT
6499807 TTTGTCTTAAT
1 TTTGTCTTAAT
6499818 TACAAACAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
58 19 0.32
59 36 0.61
60 4 0.07
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (58 bp):
TTTGTCTTAATCTAGACAAGAAAACATATTTGTCTCAATTTAGACAAGATAAAATATT
Found at i:6502379 original size:32 final size:32
Alignment explanation
Indices: 6502343--6502438 Score: 183
Period size: 32 Copynumber: 3.0 Consensus size: 32
6502333 TAATTCAATA
6502343 CTAAGTTAATCTTTTCCCACTTTCGAAAGACC
1 CTAAGTTAATCTTTTCCCACTTTCGAAAGACC
6502375 CTAAGTTAATCTTTTCCCACTTTCGAAAGACC
1 CTAAGTTAATCTTTTCCCACTTTCGAAAGACC
*
6502407 TTAAGTTAATCTTTTCCCACTTTCGAAAGACC
1 CTAAGTTAATCTTTTCCCACTTTCGAAAGACC
6502439 ATAAAAAGAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.35
Consensus pattern (32 bp):
CTAAGTTAATCTTTTCCCACTTTCGAAAGACC
Found at i:6509974 original size:29 final size:29
Alignment explanation
Indices: 6509941--6509998 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
6509931 GCCGATGATA
6509941 TGCTTCGTCTGACTCACATTATAGGTGGC
1 TGCTTCGTCTGACTCACATTATAGGTGGC
**
6509970 TGCTTCGTCTGACTCGTATTATAGGTGGC
1 TGCTTCGTCTGACTCACATTATAGGTGGC
6509999 CATCTCCTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (29 bp):
TGCTTCGTCTGACTCACATTATAGGTGGC
Found at i:6513446 original size:61 final size:58
Alignment explanation
Indices: 6513315--6513444 Score: 136
Period size: 66 Copynumber: 2.1 Consensus size: 58
6513305 AGGAGGGGGG
**
6513315 GGGGGGAGAATTTCGTTAGGTGCGGACTCAGGTGGGGGAATCAGGTGGGGACTCGCGGGA
1 GGGGGG-GAATTTCGTTAGGTGCGGACTCAGGTGGGGGAATCAGGTCAGGACTC-CGGGA
* *
6513375 GGAGAGGGGAATTTCGTTAGGTCGGTGGACTCGGGTGGGGGGGGAATCAGGTCAGGACT-CGGGA
1 GG-G-GGGGAATTTCGTTAGGT--GCGGACTCAGGT---GGGGGAATCAGGTCAGGACTCCGGGA
6513439 GGGGGG
1 GGGGGG
6513445 AAGCAGTGAG
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
60 2 0.03
61 15 0.25
62 6 0.10
63 11 0.19
64 7 0.12
66 18 0.31
ACGTcount: A:0.18, C:0.12, G:0.52, T:0.18
Consensus pattern (58 bp):
GGGGGGGAATTTCGTTAGGTGCGGACTCAGGTGGGGGAATCAGGTCAGGACTCCGGGA
Found at i:6515129 original size:36 final size:36
Alignment explanation
Indices: 6515077--6515182 Score: 149
Period size: 36 Copynumber: 2.9 Consensus size: 36
6515067 ATTAACTTTG
* * *
6515077 GACTTTCCACTGTGCTATCCATTTCCTCTTTCTCTT
1 GACTTTCCACTCTGCTATCTATTTCCTCTTTCACTT
* * *
6515113 GACTTTCTACTCTGCTATCTATTTTCTCTATCACTT
1 GACTTTCCACTCTGCTATCTATTTCCTCTTTCACTT
*
6515149 GACTCTCCACTCTGCTATCTATTTCCTCTTTCAC
1 GACTTTCCACTCTGCTATCTATTTCCTCTTTCAC
6515183 CCCCTCAACT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.14, C:0.33, G:0.07, T:0.46
Consensus pattern (36 bp):
GACTTTCCACTCTGCTATCTATTTCCTCTTTCACTT
Found at i:6528387 original size:339 final size:340
Alignment explanation
Indices: 6527789--6528453 Score: 910
Period size: 340 Copynumber: 2.0 Consensus size: 340
6527779 TGGGCGGATG
* * * * *** * *
6527789 TTTATTGGAATTTAAACATTCATGTCCAAAAGAGATGTCTATATAGTTTAGATTCAGGTTTATAC
1 TTTATAGGAATTTAAACATTCATGTACAAAAGAGATATATATATACCATAGATTCAAGTTCATAC
* *
6527854 AAAATAAAAGAACATAGACCAAAAACAATATCAAATTGCAATTGATAAATATTAAATGAATCTAT
66 AAAATAAAAGAACATAGACCAAAAAAAATATCAAATTACAATTGATAAATATTAAATGAATCTAT
* *
6527919 CCTATAAGCATTAAAAGTTAGAAATGATTGTTTTCAAGTATTTTTTACTGAAATAAATAGAAGAA
131 CCTATAACCATTAAAAGTTAGAAATGATTGTTTTCAAGTATTTTTTACTGAAATAAATAAAAGAA
* *
6527984 AAAAAAAAGAAAAACCCTTCAAATGTCAAAAACAATGTAGTTTTGACAGAAGGTGTAAAAAAAAA
196 AAAAAAAAGAAAAACCCTTCAAATGTCAAAAACAACGCAGTTTTGACAGAAGGTGT-AAAAAAAA
* *
6528049 ATAATTC-AATTGAGAATGACTAA-TGCCAATCAATTGACCCAATTAGTTATCCTACTTTTATAT
260 ATAATTCAAATTGAGAATGA-TAAGTGCCAATCAATTGACCCAATCAGCTATCCTACTTTTATAT
6528112 AATGAACTGGATGCATA
324 AATGAACTGGATGCATA
* *
6528129 TTTATAGGAATTTAAACATTCATGTATAAAAGAGATATATATATACCATAGATTCAAGTTCATGC
1 TTTATAGGAATTTAAACATTCATGTACAAAAGAGATATATATATACCATAGATTCAAGTTCATAC
* * * * * *
6528194 AGAATAAGAGAATATAGA-CAAAAAAAATATGAAATTACAATTGCTAAATATTATATGAATCTAT
66 AAAATAAAAGAACATAGACCAAAAAAAATATCAAATTACAATTGATAAATATTAAATGAATCTAT
* * * *
6528258 CTTCTAACCATTAAAAGTT-GAAAATTATTGTTTTCAAGT-TTTTTTATTGAAATAAATAAAAGT
131 CCTATAACCATTAAAAGTTAG-AAATGATTGTTTTCAAGTATTTTTTACTGAAATAAATAAAAG-
* ** *
6528321 AAAAAAACAAAATAAAAACCCTTCAAATGTCAAAGCCAACGCAGTTTTGACATAAGGTGT-AAAA
194 -AAAAAA-AAAAGAAAAACCCTTCAAATGTCAAAAACAACGCAGTTTTGACAGAAGGTGTAAAAA
* * *
6528385 AAATTAATTCAAATTGAGAATGATAAGTGCCAATCAATTGATCCAGTCAGCTATCCTACTTTTAT
257 AAAATAATTCAAATTGAGAATGATAAGTGCCAATCAATTGACCCAATCAGCTATCCTACTTTTAT
6528450 ATAA
322 ATAA
6528454 ATTATATATA
Statistics
Matches: 283, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
338 22 0.08
339 90 0.32
340 125 0.44
341 46 0.16
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (340 bp):
TTTATAGGAATTTAAACATTCATGTACAAAAGAGATATATATATACCATAGATTCAAGTTCATAC
AAAATAAAAGAACATAGACCAAAAAAAATATCAAATTACAATTGATAAATATTAAATGAATCTAT
CCTATAACCATTAAAAGTTAGAAATGATTGTTTTCAAGTATTTTTTACTGAAATAAATAAAAGAA
AAAAAAAAGAAAAACCCTTCAAATGTCAAAAACAACGCAGTTTTGACAGAAGGTGTAAAAAAAAA
TAATTCAAATTGAGAATGATAAGTGCCAATCAATTGACCCAATCAGCTATCCTACTTTTATATAA
TGAACTGGATGCATA
Found at i:6529402 original size:28 final size:28
Alignment explanation
Indices: 6529370--6529435 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
6529360 CATTTGCAGC
*
6529370 CATACCAACAA-TTAACAAAAGCTTAGAT
1 CATA-CAACAATTTAACAAAAGCTTACAT
*
6529398 CATACAACAATTTAACAATAGCTTACAT
1 CATACAACAATTTAACAAAAGCTTACAT
6529426 CATACAACAA
1 CATACAACAA
6529436 AAGCAACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.23
Consensus pattern (28 bp):
CATACAACAATTTAACAAAAGCTTACAT
Found at i:6533035 original size:33 final size:34
Alignment explanation
Indices: 6532997--6533070 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
6532987 TTTTAAAACT
*
6532997 TCTAAATGTGAGTTTAGT-TTTTT-GT-TCTTCTGC
1 TCTAAATATGAGTTTAGTCTTTTTAGTCT-TTC-GC
*
6533030 TCTAAACATGAGTTTAGTCTTTTTAGTCTTTCGC
1 TCTAAATATGAGTTTAGTCTTTTTAGTCTTTCGC
6533064 TCTAAAT
1 TCTAAAT
6533071 CTGTGGACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 16 0.46
34 13 0.37
35 5 0.14
36 1 0.03
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (34 bp):
TCTAAATATGAGTTTAGTCTTTTTAGTCTTTCGC
Found at i:6533066 original size:34 final size:33
Alignment explanation
Indices: 6533005--6533069 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 33
6532995 CTTCTAAATG
6533005 TGAGTTTAGTTTTTTGTTCTTCTGCTCTAAACA
1 TGAGTTTAGTTTTTTGTTCTTCTGCTCTAAACA
6533038 TGAGTTTAGTCTTTTTAG-TCTT-TCGCTCTAAA
1 TGAGTTTAGT-TTTTT-GTTCTTCT-GCTCTAAA
6533070 TCTGTGGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
33 11 0.38
34 17 0.59
35 1 0.03
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (33 bp):
TGAGTTTAGTTTTTTGTTCTTCTGCTCTAAACA
Found at i:6534774 original size:15 final size:15
Alignment explanation
Indices: 6534754--6534785 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6534744 CAATGTTATA
6534754 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAT
*
6534769 ATTAAAATAAAATAT
1 ATTAAAATAAAAAAT
6534784 AT
1 AT
6534786 AATATAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Found at i:6534788 original size:33 final size:33
Alignment explanation
Indices: 6534750--6534825 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
6534740 TTTGCAATGT
6534750 TATAAT-TAA-AATAAAAAATATTAAAATAAAATA
1 TATAATATAAGAAT-AAAAA-ATTAAAATAAAATA
*
6534783 TATAATATAAGAATTAAAAATTAAAATAAAATA
1 TATAATATAAGAATAAAAAATTAAAATAAAATA
6534816 -A-AATATAAGA
1 TATAATATAAGA
6534826 TATTAAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
31 9 0.22
32 1 0.03
33 20 0.50
34 7 0.17
35 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (33 bp):
TATAATATAAGAATAAAAAATTAAAATAAAATA
Found at i:6534823 original size:7 final size:7
Alignment explanation
Indices: 6534756--6534834 Score: 53
Period size: 7 Copynumber: 11.9 Consensus size: 7
6534746 ATGTTATAAT
6534756 TAAAATA
1 TAAAATA
*
6534763 AAAAATA
1 TAAAATA
*
6534770 TTAAA-A
1 TAAAATA
6534776 TAAAATA
1 TAAAATA
*
6534783 TATAATA
1 TAAAATA
6534790 TAAGAAT-
1 TAA-AATA
6534797 TAAAA-A
1 TAAAATA
*
6534803 TTAAA-A
1 TAAAATA
6534809 T-AAA-A
1 TAAAATA
6534814 TAAAATA
1 TAAAATA
*
6534821 TAAGATA
1 TAAAATA
6534828 TTAAAAT
1 -TAAAAT
6534835 TTATATAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
5 5 0.09
6 16 0.28
7 28 0.49
8 8 0.14
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (7 bp):
TAAAATA
Found at i:6536691 original size:23 final size:22
Alignment explanation
Indices: 6536665--6536713 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6536655 GAGCATGACA
* *
6536665 TGTAACAGGTTGTGAACATGGCG
1 TGTAACAGCTT-TAAACATGGCG
*
6536688 TGTAACATCTTTAAACATGGCG
1 TGTAACAGCTTTAAACATGGCG
6536710 TGTA
1 TGTA
6536714 GCATTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (22 bp):
TGTAACAGCTTTAAACATGGCG
Found at i:6536727 original size:23 final size:23
Alignment explanation
Indices: 6536632--6536751 Score: 98
Period size: 23 Copynumber: 5.2 Consensus size: 23
6536622 ATGTGCCAGC
*
6536632 ACATGGCGTGTAACATTTTTATTGA
1 ACATGGCGTGTAACA-TTTT-TTAA
* * * ** * *
6536657 GCATGACATGTAACAGGTTGTGA
1 ACATGGCGTGTAACATTTTTTAA
*
6536680 ACATGGCGTGTAACA-TCTTTAA
1 ACATGGCGTGTAACATTTTTTAA
*
6536702 ACATGGCGTGTAGCATTTTTTAA
1 ACATGGCGTGTAACATTTTTTAA
* * *
6536725 ACATTGTGTGTAACATTTTTTGA
1 ACATGGCGTGTAACATTTTTTAA
6536748 ACAT
1 ACAT
6536752 AATGCTTAAC
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
22 17 0.23
23 44 0.59
24 2 0.03
25 12 0.16
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (23 bp):
ACATGGCGTGTAACATTTTTTAA
Found at i:6540248 original size:76 final size:74
Alignment explanation
Indices: 6540116--6540558 Score: 366
Period size: 76 Copynumber: 5.9 Consensus size: 74
6540106 TTGTTACACG
* * * * ** * * *
6540116 CTCCAATTGTTAGATGTCGATTACTTCTTGCGGTAACATGCTGAGTAGTTGCAGTATCATGGGAT
1 CTCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAATGGTTGCAGTATTATGGG-T
6540181 GACATGCCAC
65 GACATGCCAC
* *
6540191 ACTCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTAAATGGTTGTAGTATTATAGGG
1 -CTCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAATGGTTGCAGTATTAT-GGG
* * *
6540256 TGAAACGTCATGC
64 TGACATGCCA--C
* * * *
6540269 CT-CAATTGTTAGATGTCAATGACATCTTGTGGTGACGCACTTAGTGGTTGCAGTATTATGGGGT
1 CTCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAATGGTTGCAGTATTAT-GGGT
*
6540333 GACATGTCATC
65 GACATGCCA-C
* * * * * * *
6540344 CCCCGATTGTTAGATGTCGATGATATTTTGTGGTGACACGCTCAATGGTTGCAGCATTATGGGGT
1 CTCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAATGGTTGCAGTATTAT-GGGT
*
6540409 GACATGCCATG
65 GACATGCCA-C
* * * * * * ** * * *
6540420 CTTCAATTGTTAAATGTTGATGACATTTTATGCTGACATGCTGAATAGTTGCAATATTATAAGGT
1 CTCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAATGGTTGCAGTATTAT-GGGT
*
6540485 GACAAGCCAC
65 GACATGCCAC
* * * * * * *
6540495 GTTTCAATTGTTAGATGTTGATGACATCTTGTGGTGACACATTGAGTGGTTGTAGTGTTATGGG
1 -CTCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAATGGTTGCAGTATTATGGG
6540559 ATGCCACGCC
Statistics
Matches: 296, Mismatches: 66, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
75 4 0.01
76 286 0.97
77 5 0.02
78 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (74 bp):
CTCCAATTGTTAGATGTCGATGACATCTTGTGGTGACACACTGAATGGTTGCAGTATTATGGGTG
ACATGCCAC
Found at i:6540545 original size:152 final size:150
Alignment explanation
Indices: 6540151--6540574 Score: 443
Period size: 152 Copynumber: 2.8 Consensus size: 150
6540141 TCTTGCGGTA
*
6540151 ACATGCTGAGTAGTTGCAGTATCATGGGATGACATGCCACACTCCAATTGTTAGATGTCGATGAC
1 ACATGCTGAGTAGTTGCAGTATTATGGG-TGACATGCCAC-CTCCAATTGTTAGATGTCGATGAC
* * * * *
6540216 ATCTTGTGGTGACACACTAAATGGTTGTAGTATTATAGGGTGAAACGTCATGCCTCAATTGTTAG
64 ATCTTGTGGTGACACACTAAATGGTTGTAGTATTATGGGGTGACACGCCATGCTTCAATTGTTAA
* *
6540281 ATGTCAATGACATCTTGTGGTG
129 ATGTCAATGACATCTTATGCTG
*** * * * * * *
6540303 ACGCACTTAGTGGTTGCAGTATTATGGGGTGACATGTCATCCCCCGATTGTTAGATGTCGATGAT
1 ACATGCTGAGTAGTTGCAGTATTAT-GGGTGACATGCCA-CCTCCAATTGTTAGATGTCGATGAC
* * * * * *
6540368 ATTTTGTGGTGACACGCTCAATGGTTGCAGCATTATGGGGTGACATGCCATGCTTCAATTGTTAA
64 ATCTTGTGGTGACACACTAAATGGTTGTAGTATTATGGGGTGACACGCCATGCTTCAATTGTTAA
** *
6540433 ATGTTGATGACATTTTATGCTG
129 ATGTCAATGACATCTTATGCTG
* * * * * * *
6540455 ACATGCTGAATAGTTGCAATATTATAAGGTGACAAGCCACGTTTCAATTGTTAGATGTTGATGAC
1 ACATGCTGAGTAGTTGCAGTATTAT-GGGTGACATGCCAC-CTCCAATTGTTAGATGTCGATGAC
* * * * * *
6540520 ATCTTGTGGTGACACATTGAGTGGTTGTAGTGTTATGGGATGCCACGCCATGCTT
64 ATCTTGTGGTGACACACTAAATGGTTGTAGTATTATGGGGTGACACGCCATGCTT
6540575 ACTTTCTAAG
Statistics
Matches: 215, Mismatches: 54, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
151 1 0.00
152 210 0.98
153 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (150 bp):
ACATGCTGAGTAGTTGCAGTATTATGGGTGACATGCCACCTCCAATTGTTAGATGTCGATGACAT
CTTGTGGTGACACACTAAATGGTTGTAGTATTATGGGGTGACACGCCATGCTTCAATTGTTAAAT
GTCAATGACATCTTATGCTG
Found at i:6542240 original size:81 final size:81
Alignment explanation
Indices: 6542059--6542240 Score: 172
Period size: 81 Copynumber: 2.2 Consensus size: 81
6542049 GGTCCTCTTC
* * ** *
6542059 AGCCTAAATTGATTCAAGGTGCCCATCCTCTCCCACAACTGCCTTGATTATTGCATCAGTGTGAG
1 AGCCTAAATTGA-TGAAGGTGCCCATCCTCTCCCACAACTGCCTTGACTACCGCATCAGTCTGAG
* * * *
6542124 GAACATGGTTTTTTTCT
65 AAACATAGTCTCTTTCT
* * * * *
6542141 A-CCTGAACTGATGCAAGGTTCCCATCCTCTCTCACAGA-TGCCTTGACTACCGCATTAGTCTGA
1 AGCCTAAATTGATG-AAGGTGCCCATCCTCTCCCACA-ACTGCCTTGACTACCGCATCAGTCTGA
6542204 GAAACATAGTCTCTTT-T
64 GAAACATAGTCTCTTTCT
*
6542221 AGCCTCAATTGAGTGAAGGT
1 AGCCTAAATTGA-TGAAGGT
6542241 CCCTTTCCAC
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
80 3 0.04
81 73 0.91
82 4 0.05
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (81 bp):
AGCCTAAATTGATGAAGGTGCCCATCCTCTCCCACAACTGCCTTGACTACCGCATCAGTCTGAGA
AACATAGTCTCTTTCT
Found at i:6544791 original size:31 final size:31
Alignment explanation
Indices: 6544756--6544861 Score: 158
Period size: 31 Copynumber: 3.4 Consensus size: 31
6544746 AGAAAGAAAT
* * *
6544756 AAATGTTGTTACATGCTATGCATACCAGGTA
1 AAATGTTGTTACACGCTATGCATACCAAGTC
*
6544787 AAATGTTGTTACACGTTATGCATACCAAGTC
1 AAATGTTGTTACACGCTATGCATACCAAGTC
**
6544818 AAATGTTGTTACACGCTAACCATACCAAGTC
1 AAATGTTGTTACACGCTATGCATACCAAGTC
6544849 AAATGTTGTTACA
1 AAATGTTGTTACA
6544862 TGCCAATGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (31 bp):
AAATGTTGTTACACGCTATGCATACCAAGTC
Found at i:6544994 original size:87 final size:87
Alignment explanation
Indices: 6544882--6545064 Score: 251
Period size: 87 Copynumber: 2.1 Consensus size: 87
6544872 AAGCCATATC
* ** * * **
6544882 GTGACATGCTAACCATGCCGTGTCGTAACACGCCAATCACTATAATTACTGTCTCATCACATGAA
1 GTGACATGCCAACCATGCCACGTCGTAACACACCAATCACTATAATTACTGACTCATCACACAAA
6544947 CTGT-TCTAAAATACCCAATGTG
66 CTGTCT-TAAAATACCCAATGTG
* *
6544969 GTGACATGCCAACCATGCCACGTCGTGACACACCAATCACTATAATTACTGACTCATTACACAAA
1 GTGACATGCCAACCATGCCACGTCGTAACACACCAATCACTATAATTACTGACTCATCACACAAA
* *
6545034 TTGTCTTAAAATACCTAATGTG
66 CTGTCTTAAAATACCCAATGTG
6545056 GTGACATGC
1 GTGACATGC
6545065 TAAAAATCTA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 83 0.99
88 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (87 bp):
GTGACATGCCAACCATGCCACGTCGTAACACACCAATCACTATAATTACTGACTCATCACACAAA
CTGTCTTAAAATACCCAATGTG
Found at i:6545626 original size:23 final size:23
Alignment explanation
Indices: 6545602--6545682 Score: 119
Period size: 23 Copynumber: 3.5 Consensus size: 23
6545592 AACCGTGACG
* *
6545602 TGTCACACATTCAAGCCATGGCG
1 TGTCACACATTCAAGTCATGGCA
6545625 TGTCACACATTCAAGTCATGGCA
1 TGTCACACATTCAAGTCATGGCA
6545648 TGTCACATC-TTCAAGTCATGGCA
1 TGTCACA-CATTCAAGTCATGGCA
*
6545671 TGTCACATATTC
1 TGTCACACATTC
6545683 TGACCATACC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
23 52 0.98
24 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (23 bp):
TGTCACACATTCAAGTCATGGCA
Found at i:6545735 original size:23 final size:23
Alignment explanation
Indices: 6545671--6545719 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
6545661 AGTCATGGCA
* * *
6545671 TGTCACATATTCTGACCATACCG
1 TGTCACAGATTCTAATCATACCG
6545694 TGTCACAGATTCTAATCATACCG
1 TGTCACAGATTCTAATCATACCG
6545717 TGT
1 TGT
6545720 TACAATTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (23 bp):
TGTCACAGATTCTAATCATACCG
Found at i:6556096 original size:153 final size:149
Alignment explanation
Indices: 6555817--6556118 Score: 433
Period size: 153 Copynumber: 2.0 Consensus size: 149
6555807 ATTATAACTG
* * *
6555817 TCAAAATCCAAAACCTAAAATTTTCTTCCCACAAACTGTTAGTCAAGCCAGGCTGTTTAATCACA
1 TCAAAATCCAAAACCTAAAATTTTCTTCCCACAAACTATGACTCAAGCCAGGCTGTTTAATCACA
* **
6555882 GAAAACATGCCAGCTAATACTTACTTTTATATAAACCTTCTATAGCCAGTAATAGGCGCTTTCCA
66 GAAAACATGCCAGCTAATACTTACTTTTACATAAACCTTCTATAAACAGTAATAGGCGCTTTCCA
6555947 AAGACACCATCACAAAGTC
131 AAGACACCATCACAAAGTC
* *
6555966 TCAAAATCCAAAACCTAAAATTTTCTTCCTACTAACCATCTATGACTTAAGCCAGGCTGTTTAAT
1 TCAAAATCCAAAACCTAAAATTTTCTTCCCAC-AA--A-CTATGACTCAAGCCAGGCTGTTTAAT
* * * * *
6556031 CACAGAAAGCATGCTAGCTAATACTTACTTTTACATACATCTTCTATAAACAGTAATAGGTGCTT
62 CACAGAAAACATGCCAGCTAATACTTACTTTTACATAAACCTTCTATAAACAGTAATAGGCGCTT
* *
6556096 TTCAAAGACACCATTACAAAGTC
127 TCCAAAGACACCATCACAAAGTC
6556119 ACATACTAGA
Statistics
Matches: 134, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
149 31 0.23
150 2 0.01
152 1 0.01
153 100 0.75
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (149 bp):
TCAAAATCCAAAACCTAAAATTTTCTTCCCACAAACTATGACTCAAGCCAGGCTGTTTAATCACA
GAAAACATGCCAGCTAATACTTACTTTTACATAAACCTTCTATAAACAGTAATAGGCGCTTTCCA
AAGACACCATCACAAAGTC
Found at i:6562351 original size:3 final size:3
Alignment explanation
Indices: 6562343--6562370 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6562333 ATTTAAAAAC
6562343 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6562371 TAGAAAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6562519 original size:5 final size:5
Alignment explanation
Indices: 6562509--6562542 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
6562499 CCTTTTTCTC
6562509 TTTTA TTTTA TTTTA TTTTA TTTT- TCTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTT
6562543 CACGAACGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 25 0.93
6 1 0.04
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:6563003 original size:11 final size:10
Alignment explanation
Indices: 6562989--6563054 Score: 54
Period size: 8 Copynumber: 7.0 Consensus size: 10
6562979 GACAATTAAA
6562989 TTCTCTTTTTC
1 TTCT-TTTTTC
6563000 TTCTTTCTTTC
1 TTCTTT-TTTC
6563011 TTCTTTTTT-
1 TTCTTTTTTC
6563020 TT-TTTTTT-
1 TTCTTTTTTC
6563028 TT-TTTTTT-
1 TTCTTTTTTC
*
6563036 TT-TTTTTTT
1 TTCTTTTTTC
*
6563045 TTTTTTTTTC
1 TTCTTTTTTC
6563055 CGTTTTTTGG
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
8 22 0.43
9 4 0.08
10 11 0.22
11 14 0.27
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:6563008 original size:7 final size:6
Alignment explanation
Indices: 6562992--6563054 Score: 59
Period size: 5 Copynumber: 11.3 Consensus size: 6
6562982 AATTAAATTC
6562992 TCTTTT TCTTCTT TCTTTCT TCTTTT T-TTTT T-TTTT T-TTTT T-TTTT
1 TCTTTT TCTT-TT TCTTT-T TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
6563038 T-TTTT T-TTTT T-TTTT TC
1 TCTTTT TCTTTT TCTTTT TC
6563055 CGTTTTTTGG
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
5 35 0.65
6 7 0.13
7 12 0.22
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (6 bp):
TCTTTT
Found at i:6563062 original size:1 final size:1
Alignment explanation
Indices: 6563014--6563053 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
6563004 TTCTTTCTTC
6563014 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6563054 CCGTTTTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6565354 original size:16 final size:16
Alignment explanation
Indices: 6565333--6565364 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6565323 TCTGAGATAC
6565333 TTAAGGATAACATGTG
1 TTAAGGATAACATGTG
6565349 TTAAGGATAACATGTG
1 TTAAGGATAACATGTG
6565365 GGTGCTTTTT
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:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
TTAAGGATAACATGTG
Found at i:6568337 original size:29 final size:29
Alignment explanation
Indices: 6568304--6568365 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
6568294 TAAAGACTAA
** * *
6568304 GTTACACTTCATATTTAAAAAATAATATT
1 GTTACACACCATATTGAAAAAAAAATATT
6568333 GTTACACACCATATTGAAAAAAAAATATT
1 GTTACACACCATATTGAAAAAAAAATATT
6568362 GTTA
1 GTTA
6568366 TACATCATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.35
Consensus pattern (29 bp):
GTTACACACCATATTGAAAAAAAAATATT
Found at i:6568845 original size:34 final size:34
Alignment explanation
Indices: 6568741--6568846 Score: 95
Period size: 34 Copynumber: 3.1 Consensus size: 34
6568731 TGTTACACAT
** * * * *
6568741 CAAAACTTCAATAGCAAATATTACATGCTAAGGT
1 CAAAACTTCAGCACCAAATGTTACATACTAAGGC
* * * * * *
6568775 CAAAGCTTCAGCGCCAGATGTTACACACCAAAGC
1 CAAAACTTCAGCACCAAATGTTACATACTAAGGC
*
6568809 CAAAACTTCGGCACCAAATGTTACATACTAAGGC
1 CAAAACTTCAGCACCAAATGTTACATACTAAGGC
6568843 CAAA
1 CAAA
6568847 GTTTTAGCAT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (34 bp):
CAAAACTTCAGCACCAAATGTTACATACTAAGGC
Found at i:6597438 original size:20 final size:22
Alignment explanation
Indices: 6597387--6597438 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 22
6597377 AGTAGACGAC
*
6597387 ATAATATTTTAAAAAATCTCTAA
1 ATAA-ATTTTAAAAAATATCTAA
* *
6597410 ATTATTTTTAAAAAA-AT-TAA
1 ATAAATTTTAAAAAATATCTAA
6597430 ATAAATTTT
1 ATAAATTTT
6597439 TATATTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 10 0.42
21 1 0.04
22 10 0.42
23 3 0.12
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAAATTTTAAAAAATATCTAA
Found at i:6597553 original size:11 final size:10
Alignment explanation
Indices: 6597525--6597558 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6597515 AGTGATATTT
6597525 TAATTAATAA
1 TAATTAATAA
6597535 TAATTAATCAA
1 TAATTAAT-AA
*
6597546 TCATTAATAA
1 TAATTAATAA
6597556 TAA
1 TAA
6597559 AAATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATTAATAA
Found at i:6599473 original size:14 final size:15
Alignment explanation
Indices: 6599454--6599756 Score: 61
Period size: 15 Copynumber: 20.0 Consensus size: 15
6599444 CTGTTATAAC
6599454 TAAAATAAAA-ATAT
1 TAAAATAAAATATAT
6599468 TAAAATAAAATATA-
1 TAAAATAAAATATAT
* *
6599482 TAATATAAGAATCAAAAAT
1 TAAAATAA-AAT---ATAT
6599501 TAAAATAAAATA-A-
1 TAAAATAAAATATAT
*
6599514 -AATATAAAA-A-AT
1 TAAAATAAAATATAT
** *
6599526 TAAAAT-TTATATAA
1 TAAAATAAAATATAT
** * *
6599540 TATAGGTAAAACAAAT
1 TA-AAATAAAATATAT
6599556 TAAAATAAAATATA-
1 TAAAATAAAATATAT
*
6599570 TAATATAAAAATATAT
1 TAAAAT-AAAATATAT
*
6599586 T--AA-AGAA-ATA-
1 TAAAATAAAATATAT
6599596 -AAAATAAAATATA-
1 TAAAATAAAATATAT
*
6599609 TAAGATTATAATAATAAAT
1 TAA-A--ATAA-AATATAT
*
6599628 AAAAATAAAATATAT
1 TAAAATAAAATATAT
* * *
6599643 GACATTAAAAATATATT
1 TAAAAT-AAAATATA-T
* *
6599660 TAAGAGATGATATTATAT
1 TAA-A-AT-AAAATATAT
*
6599678 AAAAATTAATAATA-A-
1 TAAAA-TAA-AATATAT
6599693 -AAAATATAAATATAT
1 TAAAATA-AAATATAT
6599708 TCAAAATAAAATATA-
1 T-AAAATAAAATATAT
*
6599723 TAAGATTATAATAATAAAT
1 TAA-A--ATAA-AATATAT
*
6599742 GAAAATAAAATATAT
1 TAAAATAAAATATAT
6599757 GATATTAAAA
Statistics
Matches: 208, Mismatches: 41, Indels: 79
0.63 0.12 0.24
Matches are distributed among these distances:
11 7 0.03
12 15 0.07
13 14 0.07
14 37 0.18
15 43 0.21
16 32 0.15
17 21 0.10
18 21 0.10
19 18 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (15 bp):
TAAAATAAAATATAT
Found at i:6599606 original size:39 final size:38
Alignment explanation
Indices: 6599552--6599783 Score: 114
Period size: 33 Copynumber: 6.2 Consensus size: 38
6599542 TAGGTAAAAC
*
6599552 AAATTAAAATAAAATATATAATATAAAAATATATTAAAG
1 AAATAAAAATAAAATATATAATATAAAAATATATT-AAG
* * *
6599591 AAATAAAAATAAAATATATAAGAT-----TATAATAAT
1 AAATAAAAATAAAATATATAATATAAAAATATATTAAG
6599624 AAATAAAAATAAAATATATGACAT-TAAAAATATATTTAAG
1 AAATAAAAATAAAATATAT-A-ATATAAAAATATA-TTAAG
* * * *
6599664 AGATGATATTATATAAAA-AT-TAATAATAAAAA-ATATAAAT
1 A-A--ATA-AAAATAAAATATATAAT-ATAAAAATATATTAAG
* * * * *
6599704 ATATTCAAAATAAAATATATAAGAT-----TATAATAAT
1 A-AATAAAAATAAAATATATAATATAAAAATATATTAAG
* *
6599738 AAATGAAAATAAAATATATGATATTAAAAATATATTTAAG
1 AAATAAAAATAAAATATATAATA-TAAAAATATA-TTAAG
*
6599778 AGATAA
1 AAATAA
6599784 TATTATATAA
Statistics
Matches: 142, Mismatches: 27, Indels: 47
0.66 0.12 0.22
Matches are distributed among these distances:
33 39 0.27
34 15 0.11
35 1 0.01
37 7 0.05
38 5 0.04
39 33 0.23
40 18 0.13
41 5 0.04
42 7 0.05
43 5 0.04
44 7 0.05
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (38 bp):
AAATAAAAATAAAATATATAATATAAAAATATATTAAG
Found at i:6599721 original size:114 final size:114
Alignment explanation
Indices: 6599596--6599822 Score: 427
Period size: 114 Copynumber: 2.0 Consensus size: 114
6599586 TAAAGAAATA
6599596 AAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
1 AAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
*
6599661 AAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTC
66 AAGAGATAATATTATATAAAAATTAATAATAAAAAATATAAATATATTC
* *
6599710 AAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGATATTAAAAATATATTT
1 AAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
6599775 AAGAGATAATATTATATAAAAATTAATAATAAAAAATATAAATATATT
66 AAGAGATAATATTATATAAAAATTAATAATAAAAAATATAAATATATT
6599823 AAACTTGTTT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 110 1.00
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (114 bp):
AAAATAAAATATATAAGATTATAATAATAAATAAAAATAAAATATATGACATTAAAAATATATTT
AAGAGATAATATTATATAAAAATTAATAATAAAAAATATAAATATATTC
Found at i:6599816 original size:22 final size:22
Alignment explanation
Indices: 6599674--6599740 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 22
6599664 AGATGATATT
6599674 ATATAAAAATTAATAATAAAAA
1 ATATAAAAATTAATAATAAAAA
*
6599696 ATATAAATATATTCAA-AATAAAAT
1 ATATAAA-A-ATT-AATAATAAAAA
* *
6599720 ATATAAGATTATAATAATAAA
1 ATATAAAAAT-TAATAATAAA
6599741 TGAAAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
22 10 0.27
23 9 0.24
24 16 0.43
25 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (22 bp):
ATATAAAAATTAATAATAAAAA
Found at i:6603947 original size:21 final size:21
Alignment explanation
Indices: 6603908--6603946 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6603898 TTAGCCAAAA
6603908 AAAATTAAATTTTAATTTTCT
1 AAAATTAAATTTTAATTTTCT
*
6603929 AAAA-TAAATTTTTATTTT
1 AAAATTAAATTTTAATTTT
6603947 TGATTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (21 bp):
AAAATTAAATTTTAATTTTCT
Found at i:6606381 original size:14 final size:14
Alignment explanation
Indices: 6606358--6606388 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6606348 CTTTCAACCA
6606358 AAATAATAATTAAT
1 AAATAATAATTAAT
*
6606372 AAATACTAATTAAT
1 AAATAATAATTAAT
6606386 AAA
1 AAA
6606389 AATTATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
AAATAATAATTAAT
Found at i:6607523 original size:2 final size:2
Alignment explanation
Indices: 6607516--6607547 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6607506 TTTTCTTTCC
*
6607516 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6607548 GTTTAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6611125 original size:2 final size:2
Alignment explanation
Indices: 6611118--6611150 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6611108 TCCACTTCCC
6611118 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6611151 CTTTGCATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6612097 original size:6 final size:6
Alignment explanation
Indices: 6612088--6612112 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6612078 CTGCCACTGC
6612088 CACAGG CACAGG CACAGG CACAGG C
1 CACAGG CACAGG CACAGG CACAGG C
6612113 TCAGATGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (6 bp):
CACAGG
Found at i:6631917 original size:145 final size:142
Alignment explanation
Indices: 6631737--6632117 Score: 433
Period size: 145 Copynumber: 2.7 Consensus size: 142
6631727 AAAGGCAAGA
* * * * * * *
6631737 AAGCTGCAAAGAGAATATGTGAGAGCTAAGGTGTGTTAGTAACTGTGGTGGAGGCTAATATTTAT
1 AAGCTGAAAAGAGAAAATGTGAGAGTTGAGGTGTGTTAGGAACTGAGGTGGAGGCTGATATTTAT
* *
6631802 AAGTTAAGGATAAAAGAGAATCAAGAATAAAATTACAAAAAATCAAGAGAAAATAAAAGAAAAAA
66 AAGTTGAGGATAGAAGAGAATCAAGAATAAAATTACAAAAAATCAAGAGAAAAT--AA-AAAAAA
6631867 TTTATAGCATTATAC
128 TTTATAGCATTATAC
* * * *
6631882 AAGCTGAAAAGAGAAAATGCGAGAGTTGAGGTGTGTTGGGAATTGAAGTGGAGGCTGATATTTAT
1 AAGCTGAAAAGAGAAAATGTGAGAGTTGAGGTGTGTTAGGAACTGAGGTGGAGGCTGATATTTAT
* * * * * *
6631947 ACA-TTGAGAATAGAAGAGAATTAGGAATAACATTGCAAAAAATCAAGAGATAATAAAAAAAATT
66 A-AGTTGAGGATAGAAGAGAATCAAGAATAAAATTACAAAAAATCAAGAGAAAATAAAAAAAATT
**
6632011 TATAGTGTTATAC
130 TATAGCATTATAC
* * * ** * * *
6632024 AAGCTGAGAAGATAAGATGTGAGAGTTGAATTGTGTTAGGAACTGAGATGG-GGTTGGTATTTAT
1 AAGCTGAAAAGAGAAAATGTGAGAGTTGAGGTGTGTTAGGAACTGAGGTGGAGGCTGATATTTAT
* *
6632088 AAGCTGAGGATAGAAGAAAATCAAGAATAA
66 AAGTTGAGGATAGAAGAGAATCAAGAATAA
6632118 TGTTGTAAAA
Statistics
Matches: 196, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
140 1 0.01
141 34 0.17
142 60 0.31
143 2 0.01
145 98 0.50
146 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.25
Consensus pattern (142 bp):
AAGCTGAAAAGAGAAAATGTGAGAGTTGAGGTGTGTTAGGAACTGAGGTGGAGGCTGATATTTAT
AAGTTGAGGATAGAAGAGAATCAAGAATAAAATTACAAAAAATCAAGAGAAAATAAAAAAAATTT
ATAGCATTATAC
Found at i:6632423 original size:142 final size:142
Alignment explanation
Indices: 6632160--6632424 Score: 340
Period size: 142 Copynumber: 1.9 Consensus size: 142
6632150 AACATTGTTG
* * * ** *
6632160 AAAATCAAGAGAAAATAAAAAAATTTTCTAATGTTATACAAGTTGAGAAGAGAATATGTGAGAGC
1 AAAATCAACAAAAAATAAAAAAATTTTATAACATTATACAAGTTGAGAAGAGAAGATGTGAGAGC
* * * *
6632225 TGAAGTGTGTTGGGAACTAAGATAGACGTTAGTATTTATAGGCTGAAGATAGAAGAGAGTTAGGA
66 TGAAGTGTGTTGGGAACTAAGACAGACGCTAGCATTTATAGGCTGAAGATAAAAGAGAGTTAGGA
6632290 ATAATGTTACAA
131 ATAATGTTACAA
*
6632302 AAAATCAACAAAAAATAAAAAAATTTTATAACATTATATAAGTTGAGAAGAGAAGATGTGAGAGC
1 AAAATCAACAAAAAATAAAAAAATTTTATAACATTATACAAGTTGAGAAGAGAAGATGTGAGAGC
* * *
6632367 -GAAG-GTGTGTGTGGAACTGAGACGGAGGCTAGCATTTATAAGG-T-AAGAATAAAAGAGA
66 TGAAGTGTGT-TG-GGAACTAAGACAGACGCTAGCATTTAT-AGGCTGAAG-ATAAAAGAGA
6632425 ATCAAGAATA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
140 4 0.04
141 9 0.09
142 89 0.85
143 3 0.03
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.25
Consensus pattern (142 bp):
AAAATCAACAAAAAATAAAAAAATTTTATAACATTATACAAGTTGAGAAGAGAAGATGTGAGAGC
TGAAGTGTGTTGGGAACTAAGACAGACGCTAGCATTTATAGGCTGAAGATAAAAGAGAGTTAGGA
ATAATGTTACAA
Found at i:6632710 original size:44 final size:44
Alignment explanation
Indices: 6632647--6632732 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
6632637 ATAGAGGCTG
*
6632647 ATATTTATAAGCTGAGGATAGAGGAA-AATCAAG-AATAACGTTGT
1 ATATTTATAAGCTGAGGATA-AAGAAGAATC-AGTAATAACGTTGT
*
6632691 ATATTTATAGGCTGAGGATAAAGAAGAATCAGTAATAACGTT
1 ATATTTATAAGCTGAGGATAAAGAAGAATCAGTAATAACGTT
6632733 AATAAGGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 6 0.16
44 32 0.84
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (44 bp):
ATATTTATAAGCTGAGGATAAAGAAGAATCAGTAATAACGTTGT
Found at i:6633264 original size:44 final size:44
Alignment explanation
Indices: 6633214--6633452 Score: 157
Period size: 44 Copynumber: 5.7 Consensus size: 44
6633204 TGAAGGTTGG
* * *
6633214 TATTTATGGGTTGAGGATAGAGGAGAATTAAGAATAATGTTGCA
1 TATTTATAGGCTGAGGATAGAGGAGAATCAAGAATAATGTTGCA
* * * *
6633258 TATTTATAGACT-AGGATAGA-GA-AA--ATG--TGAAGGTTG-G
1 TATTTATAGGCTGAGGATAGAGGAGAATCAAGAAT-AATGTTGCA
* * *
6633295 TATTTAGAGGCTGAGGATAGGGGAGAATCAATAATAATGTTGCA
1 TATTTATAGGCTGAGGATAGAGGAGAATCAAGAATAATGTTGCA
* * * *
6633339 TATTTATAGG-TTAGGGATAGAGAAGAATCAAGAATAACGTTACAA
1 TATTTATAGGCTGA-GGATAGAGGAGAATCAAGAATAATGTTGC-A
* * *
6633384 GTTTTTATAGGCTGAGGATAGAGTAGAAT-AAGGAATAA-----CG
1 -TATTTATAGGCTGAGGATAGAGGAGAATCAA-GAATAATGTTGCA
* *
6633424 TATTTATAAGTTGAGGATAGAGGAGAATC
1 TATTTATAGGCTGAGGATAGAGGAGAATC
6633453 TACAATAACG
Statistics
Matches: 152, Mismatches: 28, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
37 11 0.07
38 13 0.09
39 28 0.18
40 2 0.01
41 3 0.02
42 3 0.02
43 16 0.11
44 43 0.28
45 3 0.02
46 28 0.18
47 2 0.01
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.29
Consensus pattern (44 bp):
TATTTATAGGCTGAGGATAGAGGAGAATCAAGAATAATGTTGCA
Found at i:6633338 original size:81 final size:82
Alignment explanation
Indices: 6633203--6633362 Score: 243
Period size: 81 Copynumber: 2.0 Consensus size: 82
6633193 GGGAATTGAG
* *
6633203 GTGAAGGTTGGTATTTATGGGTTGAGGATAGAGGAGAATTAAGAATAATGTTGCATATTTATAGA
1 GTGAAGGTTGGTATTTATGGGCTGAGGATAGAGGAGAATCAAGAATAATGTTGCATATTTATAGA
6633268 CTA-GGATAGAGAAAAT
66 CTAGGGATAGAGAAAAT
* *
6633284 GTGAAGGTTGGTATTTA-GAGGCTGAGGATAGGGGAGAATCAATAATAATGTTGCATATTTATAG
1 GTGAAGGTTGGTATTTATG-GGCTGAGGATAGAGGAGAATCAAGAATAATGTTGCATATTTATAG
**
6633348 GTTAGGGATAGAGAA
65 ACTAGGGATAGAGAA
6633363 GAATCAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
80 1 0.01
81 60 0.85
82 10 0.14
ACGTcount: A:0.36, C:0.03, G:0.31, T:0.30
Consensus pattern (82 bp):
GTGAAGGTTGGTATTTATGGGCTGAGGATAGAGGAGAATCAAGAATAATGTTGCATATTTATAGA
CTAGGGATAGAGAAAAT
Found at i:6633698 original size:98 final size:98
Alignment explanation
Indices: 6633554--6633740 Score: 257
Period size: 98 Copynumber: 1.9 Consensus size: 98
6633544 GTATATAGGT
* *
6633554 TATATTTATAGGCTGAGGATAGACTAAAATCAAGAATAACATATTTATAGGCTAAAGATAGAAGA
1 TATATTTATAAGCTGAGGATAAACTAAAATCAAGAATAACATATTTATAGGCTAAAGATAGAAGA
* * * *
6633619 GAGTCGACAATAACGTCAAATAAATTTATAATC
66 GAATCAACAATAACATAAAATAAATTTATAATC
* * * * * * *
6633652 TATATTTATAAGCTGAGGATAAAGTGAAATCAAGAATAACGTATTTATTGGCTGAGGATAGAGGA
1 TATATTTATAAGCTGAGGATAAACTAAAATCAAGAATAACATATTTATAGGCTAAAGATAGAAGA
6633717 GAATCAACAATAACATAAAATAAA
66 GAATCAACAATAACATAAAATAAA
6633741 AAAAATGCAT
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
98 76 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (98 bp):
TATATTTATAAGCTGAGGATAAACTAAAATCAAGAATAACATATTTATAGGCTAAAGATAGAAGA
GAATCAACAATAACATAAAATAAATTTATAATC
Found at i:6633708 original size:39 final size:39
Alignment explanation
Indices: 6633654--6633730 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
6633644 TTATAATCTA
*
6633654 TATTTATAAGCTGAGGATAAAGTGA-AATCAAGAATAACG
1 TATTTATAAGCTGAGGATAAAG-GAGAATCAACAATAACG
** *
6633693 TATTTATTGGCTGAGGATAGAGGAGAATCAACAATAAC
1 TATTTATAAGCTGAGGATAAAGGAGAATCAACAATAAC
6633731 ATAAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (39 bp):
TATTTATAAGCTGAGGATAAAGGAGAATCAACAATAACG
Found at i:6634225 original size:19 final size:19
Alignment explanation
Indices: 6634190--6634227 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6634180 AGATATAAAC
*
6634190 AATAAATAATATGGAAATA
1 AATAAATAAAATGGAAATA
6634209 AATAATATAAAAT-GAAATA
1 AATAA-ATAAAATGGAAATA
6634228 TATGACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
AATAAATAAAATGGAAATA
Found at i:6634226 original size:15 final size:15
Alignment explanation
Indices: 6634190--6634232 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6634180 AGATATAAAC
*
6634190 AATAAATAATATGGA
1 AATAAATAATATGAA
6634205 AATAAATAATAT-AA
1 AATAAATAATATGAA
6634219 AATGAAAT-ATATGA
1 AAT-AAATAATATGA
6634233 CATTTATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (15 bp):
AATAAATAATATGAA
Found at i:6635162 original size:15 final size:15
Alignment explanation
Indices: 6635120--6635193 Score: 105
Period size: 15 Copynumber: 4.9 Consensus size: 15
6635110 GTAATTACAG
*
6635120 GTAATGTGATTGTAA
1 GTAATGTGATTGCAA
*
6635135 GTAGTGT-ACTTGCAA
1 GTAATGTGA-TTGCAA
6635150 GTAATGTGATTGCAA
1 GTAATGTGATTGCAA
6635165 GTAATGTGATTGCAA
1 GTAATGTGATTGCAA
*
6635180 GTAATATGATTGCA
1 GTAATGTGATTGCA
6635194 GGAAAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
14 1 0.02
15 51 0.96
16 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (15 bp):
GTAATGTGATTGCAA
Found at i:6635463 original size:16 final size:17
Alignment explanation
Indices: 6635442--6635473 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6635432 TTATAATCTT
6635442 ATATATTT-TATTTTTA
1 ATATATTTATATTTTTA
6635458 ATATATTTATATTTTT
1 ATATATTTATATTTTT
6635474 TNNNNNNNNN
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATATTTATATTTTTA
Found at i:6635474 original size:24 final size:25
Alignment explanation
Indices: 6635409--6635474 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
6635399 TTTTAATGTC
*
6635409 ATATATTT-TA-TTTGTATTTATTA
1 ATATATTTATATTTTTTATTTATTA
* *
6635432 TTATAATCTTATATATTTTATTT-TTA
1 ATAT-AT-TTATATTTTTTATTTATTA
6635458 ATATATTTATATTTTTT
1 ATATATTTATATTTTTT
6635475 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
23 3 0.09
24 12 0.35
25 4 0.12
26 8 0.24
27 7 0.21
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATATATTTATATTTTTTATTTATTA
Found at i:6654533 original size:32 final size:32
Alignment explanation
Indices: 6654468--6654533 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
6654458 TATTTAGTCT
** *
6654468 AATTATTCTTTCCCATGGCTATTCAAAAGAAA
1 AATTATTCTTTCCCATGAATATTCAAAACAAA
*
6654500 AATTATTCTTTCCCAT-AATATTAGAAAACAAA
1 AATTATTCTTTCCCATGAATATT-CAAAACAAA
6654532 AA
1 AA
6654534 GATATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 4 0.14
32 25 0.86
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (32 bp):
AATTATTCTTTCCCATGAATATTCAAAACAAA
Found at i:6658704 original size:2 final size:2
Alignment explanation
Indices: 6658699--6658728 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6658689 CACATGAGGG
*
6658699 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6658729 AATTTCAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6674868 original size:20 final size:20
Alignment explanation
Indices: 6674843--6674882 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6674833 TCCTAATCAA
*
6674843 TTTCAAGTGTCATTAAGCAT
1 TTTCAAGTGTCATCAAGCAT
* *
6674863 TTTCAATTTTCATCAAGCAT
1 TTTCAAGTGTCATCAAGCAT
6674883 GATCATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTCAAGTGTCATCAAGCAT
Found at i:6684033 original size:34 final size:34
Alignment explanation
Indices: 6683986--6684077 Score: 130
Period size: 34 Copynumber: 2.7 Consensus size: 34
6683976 AGCTTTGGTG
* * *
6683986 TGTAATATATGGTGTTGAAGCTTTGACCTTGGCA
1 TGTAACATCTGGTGTTGAAGCTTTGACCATGGCA
6684020 TGTAACATCTGGTGTTGAAGCTTTGACCATGGCA
1 TGTAACATCTGGTGTTGAAGCTTTGACCATGGCA
* * *
6684054 TGCAACATCTGGTGCTGAATCTTT
1 TGTAACATCTGGTGTTGAAGCTTT
6684078 CTTATGATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (34 bp):
TGTAACATCTGGTGTTGAAGCTTTGACCATGGCA
Found at i:6687669 original size:3 final size:3
Alignment explanation
Indices: 6687661--6687687 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6687651 AATTAATTGT
6687661 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
6687688 TGCATATGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6708282 original size:15 final size:17
Alignment explanation
Indices: 6708257--6708289 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6708247 GTTTTTATGA
6708257 TAAGATGTTTAA-ATAT
1 TAAGATGTTTAACATAT
6708273 TAAG-TGTTTAACATAT
1 TAAGATGTTTAACATAT
6708289 T
1 T
6708290 TTTATTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (17 bp):
TAAGATGTTTAACATAT
Found at i:6709980 original size:15 final size:16
Alignment explanation
Indices: 6709960--6709990 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6709950 ATTGTTATTT
6709960 AAATAATTAA-ATTAA
1 AAATAATTAATATTAA
6709975 AAATAATTAATATTAA
1 AAATAATTAATATTAA
6709991 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATAATTAATATTAA
Found at i:6710988 original size:15 final size:14
Alignment explanation
Indices: 6710968--6710998 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
6710958 TAACATTACA
6710968 AAAATTATAACTTAT
1 AAAATTATAA-TTAT
6710983 AAAATTATAATTAT
1 AAAATTATAATTAT
6710997 AA
1 AA
6710999 TATATATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATTATAATTAT
Found at i:6711035 original size:15 final size:16
Alignment explanation
Indices: 6710973--6711042 Score: 69
Period size: 15 Copynumber: 4.6 Consensus size: 16
6710963 TTACAAAAAT
*
6710973 TATAACTTATAAAAT-
1 TATAACTTATAATATA
6710988 TATAA-TTATAATATA
1 TATAACTTATAATATA
* *
6711003 TATATCTTCAT-TTATA
1 TATAACTT-ATAATATA
6711019 TA-AACTTATAATATA
1 TATAACTTATAATATA
6711034 TA-AACTTAT
1 TATAACTTAT
6711043 TTATCTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.22
15 26 0.57
16 8 0.17
17 2 0.04
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAACTTATAATATA
Found at i:6711044 original size:29 final size:31
Alignment explanation
Indices: 6710993--6711051 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
6710983 AAAATTATAA
*
6710993 TTATAATATATATATCTTCATTTATATAAAC
1 TTATAATATATATAACTTCATTTATATAAAC
*
6711024 TTATAATATATA-AACTT-ATTTATCTAAA
1 TTATAATATATATAACTTCATTTATATAAA
6711052 AGAAGTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 10 0.38
30 4 0.15
31 12 0.46
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (31 bp):
TTATAATATATATAACTTCATTTATATAAAC
Found at i:6711234 original size:367 final size:351
Alignment explanation
Indices: 6710690--6711360 Score: 880
Period size: 367 Copynumber: 1.9 Consensus size: 351
6710680 AAACCTTAAG
* * *
6710690 AGAAGTTGTGAGATTATAATAGTTTTGAGACCTAGTTATTTTTTTTAATTTCATATAGTTAAGGA
1 AGAAGTTGTGAGATTAGAATAGTTTTGAAACCTAGTTATTTTTTTTAATTTCATATAATTAAGGA
* * *
6710755 AAAACTAATATAATTAATTAAATAAATTCATAAAACTATGATTATTAATTACCTTTTAATGTCTT
66 AAAACTAATATAATTAATTAAATAAATTAATAAAACTATGATTATTAATTAACTTGTAATGTCTT
* * * ** *
6710820 TTAATATATTTACTTTATTTATATTTGTTTCATTTATAAAGAATATAAATACTATTATACATATA
131 TTAATATATATACTTTATATATATTGGACTCATTTATAAAAAATATAAATACTATTATACATATA
*
6710885 -GC-AAAATACTTTTAGTTAGTGTGTGTATATATATACACTCTAAATATAAACATATTTACTTTC
196 CACTAAAATAC--TT--TTA--------ATATATAT--ACTCTAAATATAAACATATTTACTTTC
6710948 TATTTTGTGTTAACATTACAAAAATTATAACTTATAAAATTA-TAATTATAATATATATATCTTC
247 TATTTTGTGTTAACATTACAAAAATTATAACTTATAAAATTATTAATTATAATATATATATCTTC
6711012 ATTTATATAAACTTATAATATATAAACTTATTTATCTAAA
312 ATTTATATAAACTTATAATATATAAACTTATTTATCTAAA
* *
6711052 AGAAGTTGTGAGATTAGAATAGTTTTGAAACTTAGCTAGTTTTTTTTTTTTAATTTCATGTAATT
1 AGAAGTTGTGAGATTAGAATAGTTTTGAAAC----CTAG-TTATTTTTTTTAATTTCATATAATT
* * * * *
6711117 AAGGACAAGCTCATATAATTAATTAAATTAATTAATGAAACTATGATTATTAATTAACTTGTAAT
61 AAGGAAAAACTAATATAATTAATTAAATAAATTAATAAAACTATGATTATTAATTAACTTGTAAT
* * * *
6711182 GTCTTTTAATATCTATGCTTTATATATATTGGACTCATTTATAAAAAATATAATTACTATTATAT
126 GTCTTTTAATATATATACTTTATATATATTGGACTCATTTATAAAAAATATAAATACTATTATAC
* * *
6711247 ATATACACTAAAATACTTTTAATATATATACTTTAAATATAAATATATTTACTTTTTATTTTGTG
191 ATATACACTAAAATACTTTTAATATATATACTCTAAATATAAACATATTTACTTTCTATTTTGTG
* * *
6711312 TTAACATTATAAAAATTTTAACTTATAAAGTTATTAATTATAATATATA
256 TTAACATTACAAAAATTATAACTTATAAAATTATTAATTATAATATATA
6711361 CATATATGCA
Statistics
Matches: 271, Mismatches: 30, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
355 63 0.23
356 15 0.06
357 8 0.03
362 29 0.11
365 3 0.01
366 4 0.01
367 141 0.52
368 1 0.00
369 7 0.03
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (351 bp):
AGAAGTTGTGAGATTAGAATAGTTTTGAAACCTAGTTATTTTTTTTAATTTCATATAATTAAGGA
AAAACTAATATAATTAATTAAATAAATTAATAAAACTATGATTATTAATTAACTTGTAATGTCTT
TTAATATATATACTTTATATATATTGGACTCATTTATAAAAAATATAAATACTATTATACATATA
CACTAAAATACTTTTAATATATATACTCTAAATATAAACATATTTACTTTCTATTTTGTGTTAAC
ATTACAAAAATTATAACTTATAAAATTATTAATTATAATATATATATCTTCATTTATATAAACTT
ATAATATATAAACTTATTTATCTAAA
Found at i:6718339 original size:2 final size:2
Alignment explanation
Indices: 6718332--6718360 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6718322 AGTTTCTTAT
6718332 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 T
6718361 CTCTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6721530 original size:17 final size:19
Alignment explanation
Indices: 6721489--6721530 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6721479 TCATTGGAGC
6721489 TAAGAAGAAATTGAATGAT
1 TAAGAAGAAATTGAATGAT
*
6721508 TCAAGAAG-ATTTGAA-GAT
1 T-AAGAAGAAATTGAATGAT
6721526 TAAGA
1 TAAGA
6721531 TTTCAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 7 0.33
20 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.26
Consensus pattern (19 bp):
TAAGAAGAAATTGAATGAT
Found at i:6726410 original size:25 final size:27
Alignment explanation
Indices: 6726371--6726420 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
6726361 AAATTGAAAC
6726371 ATGTATATAAGGATATTATTAATTTTG
1 ATGTATATAAGGATATTATTAATTTTG
6726398 ATGTATA-AA-GATATTATTAATTT
1 ATGTATATAAGGATATTATTAATTT
6726421 ATATATTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 14 0.61
26 2 0.09
27 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (27 bp):
ATGTATATAAGGATATTATTAATTTTG
Found at i:6732498 original size:21 final size:19
Alignment explanation
Indices: 6732472--6732512 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
6732462 AATTTAAAAC
6732472 AAAATAACATAAAATTTAACT
1 AAAATAAC-TAAAA-TTAACT
*
6732493 AAAATAACTTAAATTAACT
1 AAAATAACTAAAATTAACT
6732512 A
1 A
6732513 CTCAATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAACTAAAATTAACT
Found at i:6733474 original size:190 final size:190
Alignment explanation
Indices: 6733181--6733524 Score: 564
Period size: 190 Copynumber: 1.8 Consensus size: 190
6733171 AAACGCATGG
6733181 TATAACTTGAAGAAACCAAACGCAGCATTTAGTCTAAGCTTCTTTTAACTTAACAAGTTACTGTC
1 TATAACTTGAAGAAACCAAACGCAGCATTTAGTCTAAGCTTCTTTTAACTTAACAAGTTACTGTC
* *
6733246 TAGTTATTTTCTATAATTACTCTTTAATTGTGGTTAATAGTTAGTTGCTGACCAGTAGTTAGTTG
66 TAATTATATTCTATAATTACTCTTTAATTGTGGTTAATAGTTAGTTGCTGACCAGTAGTTAGTTG
*
6733311 GAATTAATAACAAAGTCACTTTTTCATATGGGTTTATATCAAAGAAGTAGAAACGCACCA
131 GAATTAATAACAAAGCCACTTTTTCATATGGGTTTATATCAAAGAAGTAGAAACGCACCA
** *
6733371 TATAACTTGAAGAGGCC-AATGCAGCATTTAGTCTAAGCTTCTTTTAACTTAACAAGTTACTGTC
1 TATAACTTGAAGAAACCAAACGCAGCATTTAGTCTAAGCTTCTTTTAACTTAACAAGTTACTGTC
* * * * *
6733435 TAATTATATTCTGTAGTTACTTTTTTAATTGTGGTTAATAGTTAGTTGTTGACTAGTAGTTAGTT
66 TAATTATATTCTATAATTAC-TCTTTAATTGTGGTTAATAGTTAGTTGCTGACCAGTAGTTAGTT
*
6733500 GGAATTAATAACAGAGCCACTTTTT
130 GGAATTAATAACAAAGCCACTTTTT
6733525 TCATTTCAGT
Statistics
Matches: 141, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
189 62 0.44
190 79 0.56
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (190 bp):
TATAACTTGAAGAAACCAAACGCAGCATTTAGTCTAAGCTTCTTTTAACTTAACAAGTTACTGTC
TAATTATATTCTATAATTACTCTTTAATTGTGGTTAATAGTTAGTTGCTGACCAGTAGTTAGTTG
GAATTAATAACAAAGCCACTTTTTCATATGGGTTTATATCAAAGAAGTAGAAACGCACCA
Found at i:6734578 original size:116 final size:115
Alignment explanation
Indices: 6734276--6734597 Score: 380
Period size: 116 Copynumber: 2.8 Consensus size: 115
6734266 GGCACTTTAT
*
6734276 GCATGACTGGATTTTGGCATGGGTACACTTAGGGTGTGCGTGATTGCATTAGGGTTTAACATTGC
1 GCATGACTAGATTTTGGCATGGGT-CACTTA-GGTGTGCGTGATTGCATTAGGGTTTAACATTGC
* * * * * *
6734341 GA-GA-TAGGTCAATATGTGATTGCGTGATTGATTGATAGGTCATTGCATGACA
64 -ATGACTA-GTTAATAAGTCATTGTGTAACTGATTGATAGGTCATTGCATGACA
* * * *
6734393 GCATGACTAGA-TTTGGCATAAGATCACTTAAGGTGTACGTGATTGCATTAGGGTTTAACATTAC
1 GCATGACTAGATTTTGGCAT-GGGTCACTT-AGGTGTGCGTGATTGCATTAGGGTTTAACATTGC
* * * *
6734457 GTGACTAGTTAATAGGTCATTGTGTAACTGATTGATAGGTTATTGCGTGACA
64 ATGACTAGTTAATAAGTCATTGTGTAACTGATTGATAGGTCATTGCATGACA
* * *
6734509 GCATGACTAAATTTTGGCATGGCGTCACTTAGGTGTGCGTGATTGCATTATGATTTAACATTGCA
1 GCATGACTAGATTTTGGCATGG-GTCACTTAGGTGTGCGTGATTGCATTAGGGTTTAACATTGCA
* *
6734574 TGACTGGTTGATAAGTCATTGTGT
65 TGACTAGTTAATAAGTCATTGTGT
6734598 GAATATTGTT
Statistics
Matches: 174, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
116 145 0.83
117 29 0.17
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (115 bp):
GCATGACTAGATTTTGGCATGGGTCACTTAGGTGTGCGTGATTGCATTAGGGTTTAACATTGCAT
GACTAGTTAATAAGTCATTGTGTAACTGATTGATAGGTCATTGCATGACA
Found at i:6735463 original size:14 final size:14
Alignment explanation
Indices: 6735444--6735474 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6735434 TTATTGTCAA
6735444 TCCCTATGAGGTCG
1 TCCCTATGAGGTCG
6735458 TCCCTATGAGGTCG
1 TCCCTATGAGGTCG
6735472 TCC
1 TCC
6735475 TTAGAGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.26, T:0.29
Consensus pattern (14 bp):
TCCCTATGAGGTCG
Found at i:6743730 original size:2 final size:2
Alignment explanation
Indices: 6743717--6743753 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
6743707 ACCATGCATT
* *
6743717 TA TA TA TT TA TA TA TA TT TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6743754 GTATCATGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:6743732 original size:10 final size:10
Alignment explanation
Indices: 6743717--6743753 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
6743707 ACCATGCATT
6743717 TATATATTTA
1 TATATATTTA
6743727 TATATATTTA
1 TATATATTTA
*
6743737 TATATATATA
1 TATATATTTA
6743747 TATATAT
1 TATATAT
6743754 GTATCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATATATTTA
Found at i:6747691 original size:27 final size:28
Alignment explanation
Indices: 6747661--6747758 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 28
6747651 AGGCATTAAA
* * *
6747661 GTGTAATAA-AATATTTTTGAATATGGC
1 GTGTAATAACAATATTTTTCAACATAGC
* *
6747688 GTGTAACAATAATATTTTTTCAACATAGC
1 GTGTAATAACAATA-TTTTTCAACATAGC
*
6747717 GTGTAATAACAATATTTTTTTTCAACATGGC
1 GTGTAATAACAATA---TTTTTCAACATAGC
*
6747748 GTGTAACAACA
1 GTGTAATAACA
6747759 TTTTTTAACC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 8 0.14
28 4 0.07
29 23 0.39
31 24 0.41
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (28 bp):
GTGTAATAACAATATTTTTCAACATAGC
Found at i:6747718 original size:29 final size:28
Alignment explanation
Indices: 6747661--6747764 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 28
6747651 AGGCATTAAA
* * *
6747661 GTGTAATAAAATA-TTTTTGAATATGGC
1 GTGTAACAAAATATTTTTTCAACATGGC
*
6747688 GTGTAACAATAATATTTTTTCAACATAGC
1 GTGTAACAA-AATATTTTTTCAACATGGC
*
6747717 GTGTAATAACAATATTTTTTTTCAACATGGC
1 GTGTAACAA-AATA--TTTTTTCAACATGGC
*
6747748 GTGTAACAACAT-TTTTT
1 GTGTAACAAAATATTTTT
6747765 AACCATGACG
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
27 13 0.20
28 4 0.06
29 23 0.36
30 2 0.03
31 22 0.34
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (28 bp):
GTGTAACAAAATATTTTTTCAACATGGC
Found at i:6747740 original size:31 final size:32
Alignment explanation
Indices: 6747691--6747758 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
6747681 ATATGGCGTG
6747691 TAACAATAATATTTTTTCAACATAGCGTGTAA
1 TAACAATAATATTTTTTCAACATAGCGTGTAA
* *
6747723 TAACAAT-ATTTTTTTTCAACATGGCGTGTAA
1 TAACAATAATATTTTTTCAACATAGCGTGTAA
*
6747754 CAACA
1 TAACA
6747759 TTTTTTAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (32 bp):
TAACAATAATATTTTTTCAACATAGCGTGTAA
Found at i:6747970 original size:21 final size:21
Alignment explanation
Indices: 6747930--6747970 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6747920 ATTTTTGTAC
* *
6747930 ATGACGTGTAATAGCCTAACT
1 ATGACGTGTAACAGCATAACT
*
6747951 ATGACGTGTAACATCATAAC
1 ATGACGTGTAACAGCATAAC
6747971 GTGTAATTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (21 bp):
ATGACGTGTAACAGCATAACT
Found at i:6748586 original size:45 final size:46
Alignment explanation
Indices: 6748522--6748614 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
6748512 CTTCAGAGTA
*
6748522 AACTCAAATTCAA-TTTTTTTTTAAAGTTAAATATCCTCCACACTT
1 AACTCAAATTCAATTTTTTTTTTAAAGTTAAAAATCCTCCACACTT
6748567 AACTCAAATTCAATTTTTTTTTTAAAGTTAAAAATCCTCCACACTT
1 AACTCAAATTCAATTTTTTTTTTAAAGTTAAAAATCCTCCACACTT
6748613 AA
1 AA
6748615 AGAATAAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 13 0.28
46 33 0.72
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (46 bp):
AACTCAAATTCAATTTTTTTTTTAAAGTTAAAAATCCTCCACACTT
Found at i:6751730 original size:85 final size:86
Alignment explanation
Indices: 6751627--6751805 Score: 245
Period size: 87 Copynumber: 2.1 Consensus size: 86
6751617 AAAAGAGATG
* * *
6751627 CCATGAATATCACCAACCAAAAATTTTAAAATGAT-TTGAAGGACAGA-AAAGTCAAACCTTGCA
1 CCATGCATATCACCAACCAAAAATTTTAAAACGATCTTGAAGGA-AGAGAAACTCAAACCTTGCA
6751690 TAATCCAAGATAACACCAACAT
65 TAATCCAAGATAACACCAACAT
* * *
6751712 TCATGCATATCACCAACCAGAAATTTTAAAACGTTCTTGAAGGAAGAGTAAACTCAAACCTTGCA
1 CCATGCATATCACCAACCAAAAATTTTAAAACGATCTTGAAGGAAGAG-AAACTCAAACCTTGCA
* * *
6751777 TAATCTAAGATAAGACCAACGT
65 TAATCCAAGATAACACCAACAT
6751799 CCATGCA
1 CCATGCA
6751806 CAAGAAGCAA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 33 0.41
86 8 0.10
87 40 0.49
ACGTcount: A:0.44, C:0.22, G:0.12, T:0.22
Consensus pattern (86 bp):
CCATGCATATCACCAACCAAAAATTTTAAAACGATCTTGAAGGAAGAGAAACTCAAACCTTGCAT
AATCCAAGATAACACCAACAT
Found at i:6754853 original size:32 final size:32
Alignment explanation
Indices: 6754817--6754880 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
6754807 ATAGCAACAA
*
6754817 TAGCATAAAATAGGCAAGCGAAGCAAGAAAAT
1 TAGCATAAAACAGGCAAGCGAAGCAAGAAAAT
* *
6754849 TAGCATAAAACAGGCAGGTGAAGCAAGAAAAT
1 TAGCATAAAACAGGCAAGCGAAGCAAGAAAAT
6754881 AACTTCAGAG
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:0.52, C:0.12, G:0.23, T:0.12
Consensus pattern (32 bp):
TAGCATAAAACAGGCAAGCGAAGCAAGAAAAT
Found at i:6761080 original size:2 final size:2
Alignment explanation
Indices: 6761073--6761099 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6761063 ACAGACATAA
6761073 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6761100 AGAGCAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6769069 original size:22 final size:22
Alignment explanation
Indices: 6769041--6769085 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6769031 ACTCGTGTAG
6769041 TTGTTATGAGTTTAGACAATGA
1 TTGTTATGAGTTTAGACAATGA
6769063 TTGTTATGAGTTTAGACAATGA
1 TTGTTATGAGTTTAGACAATGA
6769085 T
1 T
6769086 ACAGTAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.42
Consensus pattern (22 bp):
TTGTTATGAGTTTAGACAATGA
Found at i:6787807 original size:49 final size:51
Alignment explanation
Indices: 6787707--6787816 Score: 136
Period size: 49 Copynumber: 2.2 Consensus size: 51
6787697 TGTCAATAAT
* * * *
6787707 AATAAAGAAACAAGAGCAAGAAGAAACAAAACATTCAAGACGTCATAAAGA
1 AATAAACAAACAAAAGCAAGAAGAAACAAAACATTCAAGAAGCCATAAAGA
* *
6787758 AATAAAACAAACAAAAGCAAGAAG-AA-AAAA-TTTTAAGAAGCCATAAAGA
1 AAT-AAACAAACAAAAGCAAGAAGAAACAAAACATTCAAGAAGCCATAAAGA
6787807 AATAAACAAA
1 AATAAACAAA
6787817 AGCAAGCCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
48 7 0.13
49 18 0.35
50 4 0.08
51 5 0.10
52 18 0.35
ACGTcount: A:0.65, C:0.12, G:0.13, T:0.11
Consensus pattern (51 bp):
AATAAACAAACAAAAGCAAGAAGAAACAAAACATTCAAGAAGCCATAAAGA
Found at i:6788646 original size:22 final size:21
Alignment explanation
Indices: 6788620--6788686 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
6788610 GCAAATCAAT
*
6788620 TAGTTATTAGGCATTACAAGAC
1 TAGTT-TTAGGCATTGCAAGAC
*
6788642 TAGTTTTTAGGCATTGCCAGAC
1 TAG-TTTTAGGCATTGCAAGAC
*
6788664 TAGCTTTTAGACATTGCAAGAC
1 TAG-TTTTAGGCATTGCAAGAC
6788686 T
1 T
6788687 TAATCATTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 37 0.95
23 2 0.05
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (21 bp):
TAGTTTTAGGCATTGCAAGAC
Found at i:6788777 original size:22 final size:21
Alignment explanation
Indices: 6788735--6788810 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
6788725 GGAACTTAAA
6788735 CATTGCATGACTGGTTTTAGG
1 CATTGCATGACTGGTTTTAGG
* * *
6788756 TATTTCATGACTGATTTTTAGG
1 CATTGCATGACTG-GTTTTAGG
*
6788778 CATTGCATGACTTGTTTTAGG
1 CATTGCATGACTGGTTTTAGG
* *
6788799 CACTGCGTGACT
1 CATTGCATGACT
6788811 AGAACAAGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 28 0.62
22 17 0.38
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.41
Consensus pattern (21 bp):
CATTGCATGACTGGTTTTAGG
Found at i:6788867 original size:22 final size:22
Alignment explanation
Indices: 6788839--6788915 Score: 77
Period size: 22 Copynumber: 3.6 Consensus size: 22
6788829 TGCATAGCTG
*
6788839 AAGCATTACGTGATTAGGTTGT
1 AAGCATTACGTGATTAGGTTAT
* *
6788861 AAGCATTATGTGACTAGGTTAT
1 AAGCATTACGTGATTAGGTTAT
* * *
6788883 AGGCATTATGTGATTA-GTTTT
1 AAGCATTACGTGATTAGGTTAT
*
6788904 AA-CATTGCGTGA
1 AAGCATTACGTGA
6788916 CTTGCTCATT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
20 8 0.17
21 5 0.11
22 33 0.72
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.38
Consensus pattern (22 bp):
AAGCATTACGTGATTAGGTTAT
Found at i:6793546 original size:21 final size:22
Alignment explanation
Indices: 6793472--6793554 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
6793462 GGTAATTCCT
* *
6793472 TAAAAATCAGTCACGCAATGAC
1 TAAAAACCAATCACGCAATGAC
*
6793494 TAAAAACCAGTCA-GACAAT-ACC
1 TAAAAACCAATCACG-CAATGA-C
*
6793516 TAAAGACCAATCACGCAATGAC
1 TAAAAACCAATCACGCAATGAC
*
6793538 -AAAAACCAATCATGCAA
1 TAAAAACCAATCACGCAA
6793555 AGCCTTATCA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
21 17 0.33
22 33 0.63
23 2 0.04
ACGTcount: A:0.49, C:0.25, G:0.11, T:0.14
Consensus pattern (22 bp):
TAAAAACCAATCACGCAATGAC
Found at i:6793671 original size:22 final size:22
Alignment explanation
Indices: 6793646--6793693 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
6793636 TGCAAATCCT
* *
6793646 AACCCTTACTTCTAATGTCTAA
1 AACCCCTACTTCTAATGCCTAA
6793668 AACCCCTACTTCTAATGCCTAA
1 AACCCCTACTTCTAATGCCTAA
6793690 AACC
1 AACC
6793694 AGTCATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.29
Consensus pattern (22 bp):
AACCCCTACTTCTAATGCCTAA
Found at i:6795052 original size:3 final size:3
Alignment explanation
Indices: 6795044--6795081 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
6795034 TGTGCAACAA
*
6795044 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6795082 CATTTTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6798979 original size:18 final size:18
Alignment explanation
Indices: 6798947--6798984 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6798937 TAAATACTTA
6798947 TTTTTTATTAAAATTAGAC
1 TTTTTTATTAAAATTA-AC
*
6798966 TTTTTTATT-TAATTAAC
1 TTTTTTATTAAAATTAAC
6798983 TT
1 TT
6798985 ATTACGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTTTATTAAAATTAAC
Found at i:6799804 original size:250 final size:249
Alignment explanation
Indices: 6799105--6801070 Score: 2166
Period size: 250 Copynumber: 7.9 Consensus size: 249
6799095 TTAAGCTATA
* * * *
6799105 ATTATTTTTATTTAAAAATTAATATTTATATATCGTTAAACACATTTAGC-CGAAGTAATATATA
1 ATTATTTTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGCTCG-A-TAATATAAA
* * * *
6799169 TTTAAATATTTATTTTTTACTAAAATTAGAATTTTTTTACTCAATTGACTTGTTACGTTAACTCT
64 TTTAAATATTTATTTTTTATTAAAATTAG-ATTTTTTTACTTAATTGACTTATTACATTAACTCT
* * ** * * * * *
6799234 CATATATTTATATTAAGATTTAAAATTTAATTATTCCACCTTTATAAGTTTTTACATCAACTATT
128 CACACATTTACGTTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTACGTCAATTCTT
* * *
6799299 ACAGTTTTACGTCAAAATTTAT-T-TGTACCAATTTTGAACTATAATTATTTCTAT-TATT
193 ACAGTTTTACGTCAAGACTTATCTATGT--CAATTTT-AACTATAATTATTTTTATCT-TT
* * * *
6799357 ATTATTTTTTATTTAAAAAATAAAATTTATATATCGTTAAATACTTTTAG-TCTAAGAATATATA
1 ATTA-TTTTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGCTC-GATAATATAAA
*
6799421 TTTAAATATTTATTTTTTACTAAAATTAGATTTTTTTTTTACTTAA-TGACTTATTACATTAACT
64 TTTAAATATTTATTTTTTATTAAAATTAGA---TTTTTTTACTTAATTGACTTATTACATTAACT
* * * * *
6799485 CTCACACGTTTACATTAAAATTTAAAATTTAGCTA-TTCTACTTTTATAAGTTTTTACGTCAATT
126 CTCACACATTTACGTTAAGATTTAAAATTTAGTTATTTC-ACCTTTATAAGTTTTTACGTCAATT
* * *
6799549 CTTACAATTTTACATTAAGACTTATCTATGTCAATTTTATACTATAATTATTTTTATCTTT
190 CTTACAGTTTTACGTCAAGACTTATCTATGTCAATTTTA-ACTATAATTATTTTTATCTTT
* * *
6799610 ATTATTTTTATTTAAAAAATAAAATTTATATATCGTTACATACTTTTAGCTCGATAATATAAATA
1 ATTATTTTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGCTCGATAATATAAATT
* * * * * *
6799675 TAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAACTCTTAC
66 TAAATATTTATTTTTTATTAAAATTAGATTTTTTTACTTAATTGACTTATTACATTAACTCTCAC
* * * *
6799740 ATATTTACGTTAAAATTTAAAATTTATTTATTTTACCTTTATAAGTTTTTACGTCAATTCTTACA
131 ACATTTACGTTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTACGTCAATTCTTACA
*
6799805 GTTTTACGTCAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTT
196 GTTTTACGTCAAGACTTATCTATGTCAATTTT-AACTATAATTATTTTTATCTTT
* ** * *
6799860 ATTATTTTTATTTAAAAATTAAAATTTATATATTGTTAAATACTTTTATTTCAAGAATATAAATT
1 ATTATTTTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGCTCGATAATATAAATT
* * * ** * *
6799925 TAAATATTTATTTTTCAATAAAATTAAATTTTTTTACTTAATTGACTTGCTACGTTAACTCTCAT
66 TAAATATTTATTTTTTATTAAAATTAGATTTTTTTACTTAATTGACTTATTACATTAACTCTCAC
* * * *
6799990 ACATTTATC-TT-AGATTTAAAATTTAATTATTTCATCTTTATAAGTTTTTACGTTAATTCTTAT
131 ACATTTA-CGTTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTACGTCAATTCTTAC
* * * * * * *
6800053 AATTTTACGTCAAGATTTTTCAACGTCCATTTTAAACTATAATTATTTTAAT-TCTT
195 AGTTTTACGTCAAGACTTATCTATGTCAATTTT-AACTATAATTATTTTTATCT-TT
* * *
6800109 ATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAG-TCTGAAAATATAAA
1 ATTATT-TTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGCTC-GATAATATAAA
* * * *
6800173 TTTAAATATTTATTTTTTACTAAAATTAGATTTTTTTTTTACTTAATTGATTTGTTACATTAATT
64 TTTAAATATTTATTTTTTATTAAAATTAGA---TTTTTTTACTTAATTGACTTATTACATTAACT
* * * * * *
6800238 CTCACACGTTTATGTTAAGATTTAAAATTTAGTTATTCCACTTTTATAAGTTTTTTACATTAATT
126 CTCACACATTTACGTTAAGATTTAAAATTTAGTTATTTCACCTTTATAAG-TTTTTACGTCAATT
* * *
6800303 CTCACAGTTTTACGTTAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTT
190 CTTACAGTTTTACGTCAAGACTTATCTATGTCAATTTT-AACTATAATTATTTTTATCTTT
* * * * * * *
6800364 ATTATTTTTATTTAAAAATTAAAATTTGTATATTGTTATATACTTCTAACTTGATAATATAAATA
1 ATTATTTTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGCTCGATAATATAAATT
* * * *
6800429 TAAATGA-TTATTTTTTATTAAAATTAAAATTTTTTACTTAATTAACTTATTACGTTAACTCTCA
66 TAAAT-ATTTATTTTTTATTAAAATTAGATTTTTTTACTTAATTGACTTATTACATTAACTCTCA
* *
6800493 CACATTTACGTTAA-ATTTTAAAATTTAGTTAATTT-ACCGTTATAAGTTTTTATGTCAATTCTT
130 CACATTTACGTTAAGA-TTTAAAATTTAGTT-ATTTCACCTTTATAAGTTTTTACGTCAATTCTT
* * ** * * * * *
6800556 ATAATTTTATATCAAGGCTTTTTTATGTCAATTTTGAACAATAAATATTTTTA-CTCTT
193 ACAGTTTTACGTCAAGACTTATCTATGTCAATTTT-AACTATAATTATTTTTATCT-TT
* * * * *
6800614 ATTATTCTTTATTTAAAAGTAAAAATTTGA-ATATCATTACATACTTTCAG-TCTGATAATAT-A
1 ATTATT-TTTATTTAAAAATTAAAATTT-ATATATCGTTAAATACTTTTAGCTC-GATAATATAA
* * * * *
6800676 A--TAAATGTTTATATTTTTATTAAAATTAAATTTTTTTACTTAATTAATTTATTACATTAACTT
63 ATTTAAATATTTAT-TTTTTATTAAAATTAGATTTTTTTACTTAATTGACTTATTACATTAACTC
* * * * *
6800739 TCAAATATTTACATTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTACATCAATTTT
127 TCACACATTTACGTTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTACGTCAATTCT
* * * * *
6800804 TATAGTTTTACTTCAAGGCTTATATATGTCAATATTGAACTATAATT-TTTTTA---TT
192 TACAGTTTTACGTCAAGACTTATCTATGTCAAT-TTTAACTATAATTATTTTTATCTTT
** * * *
6800859 ATTATTCTTTATTTAAAAATTAAAATTTATATATCGTTAACCACTTTTAGCACAAAAATATAAAT
1 ATTATT-TTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGCTCGATAATATAAAT
** *
6800924 TTAAAT-TTT-TTTTCCATTAAAATTAGATTTTTTTACTTAATTGACATATTACATTAACTCTCA
65 TTAAATATTTATTTTTTATTAAAATTAGATTTTTTTACTTAATTGACTTATTACATTAACTCTCA
* * *
6800987 CACATTTACGTTAAGATTTAAAATTTAATTATTTCATCTTTATAAGTTTTTACGTCAATTGTTAC
130 CACATTTACGTTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTACGTCAATTCTTAC
*
6801052 AGTTTTACGTCAAAACTTA
195 AGTTTTACGTCAAGACTTA
6801071 AAAATTAAAA
Statistics
Matches: 1461, Mismatches: 209, Indels: 95
0.83 0.12 0.05
Matches are distributed among these distances:
244 1 0.00
245 168 0.11
246 4 0.00
247 3 0.00
248 24 0.02
249 247 0.17
250 390 0.27
251 111 0.08
252 125 0.09
253 199 0.14
254 116 0.08
255 73 0.05
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (249 bp):
ATTATTTTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGCTCGATAATATAAATT
TAAATATTTATTTTTTATTAAAATTAGATTTTTTTACTTAATTGACTTATTACATTAACTCTCAC
ACATTTACGTTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTACGTCAATTCTTACA
GTTTTACGTCAAGACTTATCTATGTCAATTTTAACTATAATTATTTTTATCTTT
Found at i:6800196 original size:24 final size:22
Alignment explanation
Indices: 6800169--6800220 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
6800159 TCTGAAAATA
6800169 TAAATTTAAATATTTATTTTTTAC
1 TAAATTTAAAT-TTT-TTTTTTAC
* *
6800193 TAAAATTAGATTTTTTTTTTAC
1 TAAATTTAAATTTTTTTTTTAC
*
6800215 TTAATT
1 TAAATT
6800221 GATTTGTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 12 0.50
23 3 0.12
24 9 0.38
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
TAAATTTAAATTTTTTTTTTAC
Found at i:6800381 original size:504 final size:498
Alignment explanation
Indices: 6799105--6801064 Score: 2274
Period size: 504 Copynumber: 3.9 Consensus size: 498
6799095 TTAAGCTATA
* * * *
6799105 ATTATTTTTATTTAAAAATTAATATTTATATATCGTTAAACACATTTAGCCGAAGTAATATATAT
1 ATTATTTTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCTGAA--AATATAAAT
* * * *
6799170 TTAAATATTTATTTTTTACTAAAATTAGAATTTTTTTACTCAATTGACTTGTTACGTTAACTCTC
64 TTAAATATTTATTTTTTACTAAAATTAGAATTTTTTTACTTAATTAACTTATTACATTAACTCTC
* * * * *
6799235 ATATATTTATATTAAGATTTAAAATTTAATTATTCCACCTTTATAAGTTTTTACATCAACTATTA
129 ACATATTTACATTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACATCAATTCTTA
* * * * **
6799300 CAGTTTTACGTCAAAATTTAT-T-TGTACCAATTTTGAACTATAATTATTTCTATTATTATTATT
194 CAGTTTTACGTCAAGACTTATCTATGT--CAATTTTAAACTATAATTATTTTTATCCTTATTA-T
* * *
6799363 TTTTATTTAAAAAATAAAATTTATATATCGTTAAATACTTTTAGTCTAAGAATATATATTTAAAT
256 TTTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTATTC-AAGAATATAAATTTAAAT
* * *
6799428 ATTTATTTTTTACTAAAATTAGATTTTTTTTTTACTTAA-TGACTTATTACATTAACTCTCACAC
320 ATTTATTTTTCATTAAAATTA-A--ATTTTTTTACTTAATTGACTTATTACATTAACTCTCACAC
* * **
6799492 GTTTACATTAAAATTTAAAATTTAGCTA-TTC-TACTTTTATAAGTTTTTACGTCAATTCTTACA
382 ATTTACGTTAAAATTTAAAATTTAATTATTTCAT-C-TTTATAAGTTTTTACGTCAATTCTTACA
* * * *
6799555 ATTTTACATTAAGACTTATCTATGTCAATTTTATACTATAATTATTTTTATCTTT
445 ATTTTACATCAAGATTTTTCTATGTCAATTTTAAACTATAATTATTTTTATC-TT
* * * * *
6799610 ATTATTTTTATTTAAAAAATAAAATTTATATATCGTTACATACTTTTAGCTCGATAATATAAATA
1 ATTATTTTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCT-GAAAATATAAATT
* * * * * *
6799675 TAAATACTTATTTTTCATTAAAATTAG-ACTTTTTTACTTAATTAACTTATTACGTTAACTCTTA
65 TAAATATTTATTTTTTACTAAAATTAGAATTTTTTTACTTAATTAACTTATTACATTAACTCTCA
* * * ** *
6799739 CATATTTACGTTAAAATTTAAAATTTATTTATTTTACCTTTATAAGTTTTTACGTCAATTCTTAC
130 CATATTTACATTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACATCAATTCTTAC
6799804 AGTTTTACGTCAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTATTTTT
195 AGTTTTACGTCAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTATTTTT
*
6799869 ATTTAAAAATTAAAATTTATATATTGTTAAATACTTTTATTTCAAGAATATAAATTTAAATATTT
260 ATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTA-TTCAAGAATATAAATTTAAATATTT
* ** * *
6799934 ATTTTTCAATAAAATTAAATTTTTTTACTTAATTGACTTGCTACGTTAACTCTCATACATTTATC
324 ATTTTTCATTAAAATTAAATTTTTTTACTTAATTGACTTATTACATTAACTCTCACACATTTA-C
* * * *
6799999 -TT-AGATTTAAAATTTAATTATTTCATCTTTATAAGTTTTTACGTTAATTCTTATAATTTTACG
388 GTTAAAATTTAAAATTTAATTATTTCATCTTTATAAGTTTTTACGTCAATTCTTACAATTTTACA
* * * *
6800062 TCAAGATTTTTCAACGTCCATTTTAAACTATAATTATTTTAATTCTT
453 TCAAGATTTTTCTATGTCAATTTTAAACTATAATTATTTTTA-TCTT
*
6800109 ATTATTCTTTATTTAAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCTGAAAATATAAAT
1 ATTATT-TTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAG-CTGAAAATATAAAT
* * * * *
6800174 TTAAATATTTATTTTTTACTAAAATTAGATTTTTTTTTTACTTAATTGATTTGTTACATTAATTC
64 TTAAATATTTATTTTTTACTAAAATTAGA--ATTTTTTTACTTAATTAACTTATTACATTAACTC
** ** * *
6800239 TCACACGTTTATGTTAAGATTTAAAATTTAGTTATTCCACTTTTATAAGTTTTTTACATTAATTC
127 TCACATATTTACATTAAGATTTAAAATTTAGTTATTCCACCTTTATAAG-TTTTTACATCAATTC
* *
6800304 TCACAGTTTTACGTTAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTAT
191 TTACAGTTTTACGTCAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTAT
* * * * * * *
6800369 TTTTATTTAAAAATTAAAATTTGTATATTGTTATATACTTCTAACTT-GATAATATAAATATAAA
256 TTTTATTTAAAAATTAAAATTTATATATCGTTAAATACTT-TTA-TTCAAGAATATAAATTTAAA
* * * *
6800433 TGA-TTATTTTTTATTAAAATTAAAATTTTTTACTTAATTAACTTATTACGTTAACTCTCACACA
319 T-ATTTATTTTTCATTAAAATTAAATTTTTTTACTTAATTGACTTATTACATTAACTCTCACACA
* * * * * *
6800497 TTTACGTTAAATTTTAAAATTTAGTTAATTT-ACCGTTATAAGTTTTTATGTCAATTCTTATAAT
383 TTTACGTTAAAATTTAAAATTTAATT-ATTTCATCTTTATAAGTTTTTACGTCAATTCTTACAAT
* * * * *
6800561 TTTATATCAAGGCTTTTT-TATGTCAATTTTGAACAATAAATATTTTTACTCTT
447 TTTACATCAA-GATTTTTCTATGTCAATTTTAAACTATAATTATTTTTA-TCTT
* * * * * * *
6800614 ATTATTCTTTATTTAAAAGTAAAAATTTGA-ATATCATTACATACTTTCAGTCTGATAATAT-AA
1 ATTATT-TTTATTTAAAAATTAAAATTT-ATATATCGTTAAACACTTTTAG-CTGAAAATATAAA
* * * *
6800677 --TAAATGTTTATATTTTTATTAAAATTA-AATTTTTTTACTTAATTAATTTATTACATTAACTT
63 TTTAAATATTTAT-TTTTTACTAAAATTAGAATTTTTTTACTTAATTAACTTATTACATTAACTC
* * *
6800739 TCAAATATTTACATTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTACATCAATTTT
127 TCACATATTTACATTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACATCAATTCT
* * * * * *
6800804 TATAGTTTTACTTCAAGGCTTATATATGTCAATATTGAACTATAATT-TTTTTA---TTATTATT
192 TACAGTTTTACGTCAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTATT
** ** *
6800865 CTTTATTTAAAAATTAAAATTTATATATCGTTAACCACTTTTAGCACAAAAATATAAATTTAAAT
257 -TTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTA-TTCAAGAATATAAATTTAAAT
* * *
6800930 -TTT-TTTTCCATTAAAATTAGATTTTTTTACTTAATTGACATATTACATTAACTCTCACACATT
320 ATTTATTTTTCATTAAAATTAAATTTTTTTACTTAATTGACTTATTACATTAACTCTCACACATT
* * *
6800993 TACGTTAAGATTTAAAATTTAATTATTTCATCTTTATAAGTTTTTACGTCAATTGTTACAGTTTT
385 TACGTTAAAATTTAAAATTTAATTATTTCATCTTTATAAGTTTTTACGTCAATTCTTACAATTTT
*
6801058 ACGTCAA
450 ACATCAA
6801065 AACTTAAAAA
Statistics
Matches: 1246, Mismatches: 182, Indels: 65
0.83 0.12 0.04
Matches are distributed among these distances:
493 4 0.00
494 109 0.09
495 12 0.01
496 49 0.04
498 6 0.00
499 156 0.13
500 178 0.14
501 5 0.00
502 89 0.07
503 219 0.18
504 224 0.18
505 183 0.15
506 12 0.01
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (498 bp):
ATTATTTTTATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAGCTGAAAATATAAATTT
AAATATTTATTTTTTACTAAAATTAGAATTTTTTTACTTAATTAACTTATTACATTAACTCTCAC
ATATTTACATTAAGATTTAAAATTTAGTTATTCCACCTTTATAAGTTTTTACATCAATTCTTACA
GTTTTACGTCAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTATTTTTA
TTTAAAAATTAAAATTTATATATCGTTAAATACTTTTATTCAAGAATATAAATTTAAATATTTAT
TTTTCATTAAAATTAAATTTTTTTACTTAATTGACTTATTACATTAACTCTCACACATTTACGTT
AAAATTTAAAATTTAATTATTTCATCTTTATAAGTTTTTACGTCAATTCTTACAATTTTACATCA
AGATTTTTCTATGTCAATTTTAAACTATAATTATTTTTATCTT
Found at i:6800469 original size:754 final size:748
Alignment explanation
Indices: 6798932--6801070 Score: 2782
Period size: 754 Copynumber: 2.9 Consensus size: 748
6798922 ATATCGTTGC
*
6798932 AAATATAAATACTTATTTTTTATTAAAATTAGACTTTTTTATTTAATTAACTTATTACGTTAACT
1 AAATATAAATACTTATTTTTTATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAACT
* * * * *
6798997 CTCATACATTAACGTTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTATGTCAATTA
66 CTCACACATTTACGTTAAAATTTAAAATTTAGTTATTTTACCTTTATAAGTTTTTATGTCAATTC
*
6799062 TTATAGTTTTACGTCAAGA-TTTTCTATGT-AATTTTAAGC----TA----TA----ATTATTTT
131 TTATAGTTTTACGTCAAGACTTTTCTATGTCAATTTTAAACATAATATTTTTACCTTATTATTTT
* * * * *
6799113 TATTTAAAAATTAATATTTATATATCGTTAAACACATTTAGCCGAAGTAATATATATTTAAATAT
196 TATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGTCGAAG-AATATAAATTTAAATAT
* *
6799178 TTATTTTTTACTAAAATTAGAATTTTTTTACTCAATTGACTTGTTACGTTAACTCTCATATATTT
260 TTATTTTTTAATAAAATTA-AATTTTTTTACTTAATTGACTTGTTACGTTAACTCTCATATATTT
* * * *
6799243 ATATTAAGATTTAAAATTTAATTATTCCACCTTTATAAGTTTTTACATCAACTATTACAGTTTTA
324 ATCTTAAGATTTAAAATTTAATTATTTCACCTTTATAAGTTTTTACATCAATTATTATAGTTTTA
* *
6799308 CGTCAAAATTTATT--TGTACCAATTTTGAACTATAATTATTTCTATTATTATTATTTTTTATTT
389 CGTCAAGATTT-TTAATGT-CC-ATTTTGAACTATAATTATTT-TATTATTATTATTCTTTATTT
* * *
6799371 AAAAAATAAAATTTATATATCGTTAAATACTTTTAGTCTAAGAATATATATTTAAATATTTATTT
450 AAAAATTAAAATTTATATATCGTTAAACACTTTTAGTCTAA-AATATAAATTTAAATATTTATTT
*
6799436 TTTACTAAAATTAGATTTTTTTTTTACTTAA-TGACTTATTACATTAACTCTCACACGTTTACAT
514 TTTACTAAAATTAGATTTTTTTTTTACTTAATTGACTTATTACATTAACTCTCACACGTTTACGT
* * * * *
6799500 TAAAATTTAAAATTTAGCTATTCTACTTTTATAAGTTTTTACGTCAATTCTTACAATTTTACATT
579 TAAGATTTAAAATTTAGTTATTCCACTTTTATAAGTTTTTACGTCAATTCTTACAGTTTTACGTT
* *
6799565 AAGACTTATCTATGTCAATTTTATACTATAATTATTTTTATCTTTATTATTTTTATTTAAAAAAT
644 AAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTATTTTTATTTAAAAAAT
* *
6799630 AAAATTTATATATCGTTACATACTTTTAGCTCGATAATAT
709 AAAATTTATATATCGTTACATACTTCTAACTCGATAATAT
*
6799670 AAATATAAATACTTATTTTTCATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAACT
1 AAATATAAATACTTATTTTTTATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAACT
* * * *
6799735 CTTACATATTTACGTTAAAATTTAAAATTTATTTATTTTACCTTTATAAGTTTTTACGTCAATTC
66 CTCACACATTTACGTTAAAATTTAAAATTTAGTTATTTTACCTTTATAAGTTTTTATGTCAATTC
* *
6799800 TTACAGTTTTACGTCAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTAT
131 TTATAGTTTTACGTCAAGACTTTTCTATGTCAATTTTAAAC-ATAA-TATTTTTA-CCTTATTAT
* *
6799865 TTTTATTTAAAAATTAAAATTTATATATTGTTAAATACTTTTATTTC-AAGAATATAAATTTAAA
193 TTTTATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTA-GTCGAAGAATATAAATTTAAA
* * *
6799929 TATTTATTTTTCAATAAAATTAAATTTTTTTACTTAATTGACTTGCTACGTTAACTCTCATACAT
257 TATTTATTTTTTAATAAAATTAAATTTTTTTACTTAATTGACTTGTTACGTTAACTCTCATATAT
* * * * *
6799994 TTATCTT-AGATTTAAAATTTAATTATTTCATCTTTATAAGTTTTTACGTTAATTCTTATAATTT
322 TTATCTTAAGATTTAAAATTTAATTATTTCACCTTTATAAGTTTTTACATCAATTATTATAGTTT
* * *
6800058 TACGTCAAGATTTTTCAACGTCCATTTTAAACTATAATTATTTTAATTCTTATTATTCTTTATTT
387 TACGTCAAGATTTTT-AATGTCCATTTTGAACTATAATTATTTT-ATTATTATTATTCTTTATTT
*
6800123 AAAAATTAAAATTTGTATATCGTTAAACACTTTTAGTCTGAAAATATAAATTTAAATATTTATTT
450 AAAAATTAAAATTTATATATCGTTAAACACTTTTAGTCT-AAAATATAAATTTAAATATTTATTT
* * * *
6800188 TTTACTAAAATTAGATTTTTTTTTTACTTAATTGATTTGTTACATTAATTCTCACACGTTTATGT
514 TTTACTAAAATTAGATTTTTTTTTTACTTAATTGACTTATTACATTAACTCTCACACGTTTACGT
* * *
6800253 TAAGATTTAAAATTTAGTTATTCCACTTTTATAAGTTTTTTACATTAATTCTCACAGTTTTACGT
579 TAAGATTTAAAATTTAGTTATTCCACTTTTATAAG-TTTTTACGTCAATTCTTACAGTTTTACGT
*
6800318 TAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTATTTTTATTTAAAAAT
643 TAAGACTTATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTATTTTTATTTAAAAAA
* * * *
6800383 TAAAATTTGTATATTGTTATATACTTCTAACTTGATAATAT
708 TAAAATTTATATATCGTTACATACTTCTAACTCGATAATAT
* *
6800424 AAATATAAATGA-TTATTTTTTATTAAAATTAAAATTTTTTACTTAATTAACTTATTACGTTAAC
1 AAATATAAAT-ACTTATTTTTTATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAAC
* * *
6800488 TCTCACACATTTACGTTAAATTTTAAAATTTAGTTAATTTACCGTTATAAGTTTTTATGTCAATT
65 TCTCACACATTTACGTTAAAATTTAAAATTTAGTTATTTTACCTTTATAAGTTTTTATGTCAATT
* ** * * *
6800553 CTTATAATTTTATATCAAGGCTTTTTTATGTCAATTTTGAACAATAAATATTTTTACTCTTATTA
130 CTTATAGTTTTACGTCAAGACTTTTCTATGTCAATTTTAAAC-AT-AATATTTTTAC-CTTATTA
* * * * * *
6800618 TTCTTTATTTAAAAGTAAAAATTTGA-ATATCATTACATACTTTCAGTCTG-ATAATAT-AA--T
192 TT-TTTATTTAAAAATTAAAATTT-ATATATCGTTAAATACTTTTAGTC-GAAGAATATAAATTT
* * * * * * * *
6800678 AAATGTTTATATTTTTATTAAAATTAAATTTTTTTACTTAATTAATTTATTACATTAACTTTCAA
254 AAATATTTAT-TTTTTAATAAAATTAAATTTTTTTACTTAATTGACTTGTTACGTTAACTCTCAT
* *
6800743 ATATTTA-CATTAAGATTTAAAATTTAGTTATTTCACCTTTATAAGTTTTTACATCAATTTTTAT
318 ATATTTATC-TTAAGATTTAAAATTTAATTATTTCACCTTTATAAGTTTTTACATCAATTATTAT
* ** * * *
6800807 AGTTTTACTTCAAGGCTTATATATGTCAATATTGAACTATAA-T-TTTT-TTATTATTATTCTTT
382 AGTTTTACGTCAAGATTTTTA-ATGTCCATTTTGAACTATAATTATTTTATTATTATTATTCTTT
* * *
6800869 ATTTAAAAATTAAAATTTATATATCGTTAACCACTTTTAGCACAAAAATATAAATTTAAAT-TTT
446 ATTTAAAAATTAAAATTTATATATCGTTAAACACTTTTAG-TCTAAAATATAAATTTAAATATTT
** * * *
6800933 -TTTTCCATTAAAATTAGA---TTTTTTTACTTAATTGACATATTACATTAACTCTCACACATTT
510 ATTTTTTACTAAAATTAGATTTTTTTTTTACTTAATTGACTTATTACATTAACTCTCACACGTTT
* * *
6800994 ACGTTAAGATTTAAAATTTAATTATTTCA-TCTTTATAAGTTTTTACGTCAATTGTTACAGTTTT
575 ACGTTAAGATTTAAAATTTAGTTATTCCACT-TTTATAAGTTTTTACGTCAATTCTTACAGTTTT
* *
6801058 ACGTCAAAACTTA
639 ACGTTAAGACTTA
6801071 AAAATTAAAA
Statistics
Matches: 1223, Mismatches: 140, Indels: 70
0.85 0.10 0.05
Matches are distributed among these distances:
738 137 0.11
739 9 0.01
740 9 0.01
744 33 0.03
745 72 0.06
746 2 0.00
748 15 0.01
749 3 0.00
750 71 0.06
751 4 0.00
752 202 0.17
753 166 0.14
754 408 0.33
755 90 0.07
756 2 0.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (748 bp):
AAATATAAATACTTATTTTTTATTAAAATTAGACTTTTTTACTTAATTAACTTATTACGTTAACT
CTCACACATTTACGTTAAAATTTAAAATTTAGTTATTTTACCTTTATAAGTTTTTATGTCAATTC
TTATAGTTTTACGTCAAGACTTTTCTATGTCAATTTTAAACATAATATTTTTACCTTATTATTTT
TATTTAAAAATTAAAATTTATATATCGTTAAATACTTTTAGTCGAAGAATATAAATTTAAATATT
TATTTTTTAATAAAATTAAATTTTTTTACTTAATTGACTTGTTACGTTAACTCTCATATATTTAT
CTTAAGATTTAAAATTTAATTATTTCACCTTTATAAGTTTTTACATCAATTATTATAGTTTTACG
TCAAGATTTTTAATGTCCATTTTGAACTATAATTATTTTATTATTATTATTCTTTATTTAAAAAT
TAAAATTTATATATCGTTAAACACTTTTAGTCTAAAATATAAATTTAAATATTTATTTTTTACTA
AAATTAGATTTTTTTTTTACTTAATTGACTTATTACATTAACTCTCACACGTTTACGTTAAGATT
TAAAATTTAGTTATTCCACTTTTATAAGTTTTTACGTCAATTCTTACAGTTTTACGTTAAGACTT
ATCTATGTCAATTTTAAACTATAATTATTTTTATCCTTATTATTTTTATTTAAAAAATAAAATTT
ATATATCGTTACATACTTCTAACTCGATAATAT
Found at i:6801211 original size:200 final size:197
Alignment explanation
Indices: 6800871--6801261 Score: 550
Period size: 200 Copynumber: 2.0 Consensus size: 197
6800861 TATTCTTTAT
* *
6800871 TTAAAAATTAAAATTTATATATCGTTAACCACTTTTAGCACAAAAATATAAATTTAAATTTTTTT
1 TTAAAAATTAAAATTTATATATCGTTAAACACATTTAGCACAAAAATATAAATTTAAATTTTTTT
*
6800936 TCCATTAAAATTAGATTTTTTTACTTAATTGACATATTACATTAACTCTCACACATTTACGTTAA
66 TCCACTAAAATTAGATTTTTTTACTTAATTGACATATTACATTAACTCTCACACATTTACGTTAA
* ** * *
6801001 GATTTAAAATTTAATTATTTCATC-TTTATAAGTTTTTACGTCAATTGTTACAGTTTTACGTCAA
131 GATTTAAAATTTAATTATTCCA-CATTTATAAGTTTTTAAATCAATTCTTACAGTTTAACGTCAA
6801065 AAC
195 AAC
* ** * *
6801068 TTAAAAATTAAAATTTGTATATCGTTAAACACATTTAGTTCGAGAATATAAATTTAAATATTTAT
1 TTAAAAATTAAAATTTATATATCGTTAAACACATTTAGCACAAAAATATAAATTTAAAT-TTT-T
* * * * * *
6801133 TTTTCACTAAAGTTAGATTTTTTTTACTTAATTGACTTGTTACATTAACTTTCACGCATTTACGT
64 TTTCCACTAAAATTAGA-TTTTTTTACTTAATTGACATATTACATTAACTCTCACACATTTACGT
* *
6801198 TAAGATTTAAAATTTAGTTATTCCACATTTATAAGTTTTTAAATCAATTCTTATAGTTTAACGT
128 TAAGATTTAAAATTTAATTATTCCACATTTATAAGTTTTTAAATCAATTCTTACAGTTTAACGT
6801262 TGAGGCTTTT
Statistics
Matches: 169, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
197 52 0.31
198 3 0.02
199 16 0.09
200 98 0.58
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.45
Consensus pattern (197 bp):
TTAAAAATTAAAATTTATATATCGTTAAACACATTTAGCACAAAAATATAAATTTAAATTTTTTT
TCCACTAAAATTAGATTTTTTTACTTAATTGACATATTACATTAACTCTCACACATTTACGTTAA
GATTTAAAATTTAATTATTCCACATTTATAAGTTTTTAAATCAATTCTTACAGTTTAACGTCAAA
AC
Found at i:6801712 original size:224 final size:229
Alignment explanation
Indices: 6801279--6801713 Score: 553
Period size: 229 Copynumber: 1.9 Consensus size: 229
6801269 TTTCTATGTT
*
6801279 AATTTTCAACTATAATTATTTTTATCTTTATTATTTTTTATTTAAAAATTAAAATTTATATATTG
1 AATTTTCAACTATAATTATTTTTATCTTTATTATTTTTTATTTAAAAATTAAAATTTATATATCG
* * * *
6801344 TTAAATACTTTTAATTCCAGAATATAAATATAAATGTTTATTTTTTACTAAAATTAGAGTTTTTT
66 TTAAACAATTTTAATTCCAGAATATAAATATAAATATTTATTTTTTACTAAAATTAGAG-ATTTT
** *
6801409 ACTTAATTGACTTGTTATGTTAACTTTCACATATTTACATTAAGATTTAAAATTTATTTATTTAA
130 A-TTAATTGACTTGTTACATTAACTTTCACATATTTACATTAAGATTTAAAATTTAGTTATTTAA
* *
6801474 CTTTTATAAGTTTTTACGTCTAGGCTTATTTTTATC
194 CCTTTACAAGTTTTTACGTCTAGGCTTATTTTTATC
* *
6801510 AATTTTGAACTATAATTA-TTTTAT-TATTTTTA-TTTTTATTTAAAAATTAAAATTTATATATC
1 AATTTTCAACTATAATTATTTTTATCT-TTATTATTTTTTATTTAAAAATTAAAATTTATATATC
* ** * * *
6801572 GTTAAACAATTTTAGTTTGAGAATATAAGTTTAAATATTTATTTTTTATTAAAATTA-A-ATTTT
65 GTTAAACAATTTTAATTCCAGAATATAAATATAAATATTTATTTTTTACTAAAATTAGAGATTTT
* * ** *
6801635 -TTAATTGACTTGTTACATTAACTTTTA-TTCATTTATGTTAAGATTTTAAATTTAGTTATTCT-
130 ATTAATTGACTTGTTACATTAACTTTCACAT-ATTTACATTAAGATTTAAAATTTAGTTATT-TA
*
6801697 ACCTTTACGAGTTTTTA
193 ACCTTTACAAGTTTTTA
6801714 TGTCAATTCT
Statistics
Matches: 177, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
223 1 0.01
224 64 0.36
225 1 0.01
226 4 0.02
228 1 0.01
229 78 0.44
230 11 0.06
231 17 0.10
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (229 bp):
AATTTTCAACTATAATTATTTTTATCTTTATTATTTTTTATTTAAAAATTAAAATTTATATATCG
TTAAACAATTTTAATTCCAGAATATAAATATAAATATTTATTTTTTACTAAAATTAGAGATTTTA
TTAATTGACTTGTTACATTAACTTTCACATATTTACATTAAGATTTAAAATTTAGTTATTTAACC
TTTACAAGTTTTTACGTCTAGGCTTATTTTTATC
Found at i:6806598 original size:31 final size:31
Alignment explanation
Indices: 6806538--6806598 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
6806528 TTTTGAATTT
* *
6806538 TTGTTTTGTTATATTTTATGTTGTTATTATG
1 TTGTTTTGTTATATTTTATGTTATAATTATG
6806569 TTGTTTTGTTATAATTATT-T-TTATAATTAT
1 TTGTTTTGTTAT-ATT-TTATGTTATAATTAT
6806599 TGATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 20 0.77
32 4 0.15
33 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.67
Consensus pattern (31 bp):
TTGTTTTGTTATATTTTATGTTATAATTATG
Found at i:6811967 original size:6 final size:6
Alignment explanation
Indices: 6811956--6811984 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6811946 AAATGGTGTC
6811956 GCTGAG GCTGAG GCTGAG GCTGAG GCTGA
1 GCTGAG GCTGAG GCTGAG GCTGAG GCTGA
6811985 CGTGTCTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.17
Consensus pattern (6 bp):
GCTGAG
Done.