Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, 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: 14367614
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 51264 characters in sequence are not A, C, G, or T
File 27 of 31
Found at i:12796081 original size:118 final size:111
Alignment explanation
Indices: 12795776--12796118 Score: 288
Period size: 118 Copynumber: 3.0 Consensus size: 111
12795766 CTATTATAAA
* * * *
12795776 TAAATTATCAACTATTAAAATTTAAAAATAAAATAAAAT-AAAAAATTGATCATAACAATATTCA
1 TAAATTATCAATTATTAATATTT-AAAAT-AAATAAAATAAAAAAATTGATCATAATAAAATT-A
* * * * * * *
12795840 AATTAAATTAAATATTAATATTTAAATTATCACCTATTAATATTTTAA-A-
63 AATT-AATTAAATATTATTTTTTAAAATATTA-ATATTAAAATATTAATAT
* ***
12795889 TAAATTATCAATTATTAATATTT--AA-AAATAAAATAAAATAATT-ACTCATAATATGTTTTAA
1 TAAATTATCAATTATTAATATTTAAAATAAATAAAATAAAAAAATTGA-TCATAATA-AAATTAA
12795950 ATTAAATGT-AATATTAGTTTTTTTAAAATATTAATATTTAAAATATTAATATT
64 ATT-AAT-TAAATATTA--TTTTTTAAAATATTAATA-TTAAAATATTAATA-T
*
12796003 TAAATGATCAATTATTAATATTTAAAGATAAATAAAATAAAAAAATTGATCATAATAAAACTTAA
1 TAAATTATCAATTATTAATATTTAAA-ATAAATAAAATAAAAAAATTGATCATAATAAAA-TTAA
* * * *
12796068 ATTTATTAAAATATTAATATTTTAAAATATTAATGATTAAATTATAAATAT
64 ATTAATT-AAATATT-ATTTTTTAAAATATTAAT-ATTAAAATATTAATAT
12796119 AATATTAATA
Statistics
Matches: 188, Mismatches: 22, Indels: 37
0.76 0.09 0.15
Matches are distributed among these distances:
108 10 0.05
109 30 0.16
110 8 0.04
111 21 0.11
112 1 0.01
113 21 0.11
114 22 0.12
116 3 0.02
117 31 0.16
118 39 0.21
119 2 0.01
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (111 bp):
TAAATTATCAATTATTAATATTTAAAATAAATAAAATAAAAAAATTGATCATAATAAAATTAAAT
TAATTAAATATTATTTTTTAAAATATTAATATTAAAATATTAATAT
Found at i:12796241 original size:23 final size:21
Alignment explanation
Indices: 12796214--12796309 Score: 74
Period size: 22 Copynumber: 4.4 Consensus size: 21
12796204 TTAATCATAA
12796214 TAATATTTAAATTTAATAAATAT
1 TAATATTTAAA-TT-ATAAATAT
* *
12796237 TAATATTTAAAAATATTAATGAT
1 TAATATTT-AAATTATAAAT-AT
12796260 TAA-ATTATAAA-TA-AAATAT
1 TAATATT-TAAATTATAAATAT
*
12796279 TAATATTTAAATTA-ATATTAT
1 TAATATTTAAATTATA-AATAT
12796300 TAATACTTTA
1 TAATA-TTTA
12796310 CATAAAATCT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
19 9 0.15
20 9 0.15
21 11 0.18
22 15 0.24
23 15 0.24
24 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (21 bp):
TAATATTTAAATTATAAATAT
Found at i:12796254 original size:16 final size:17
Alignment explanation
Indices: 12796211--12796256 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
12796201 AAATTAATCA
12796211 TAAT-AATATTTAA-ATT
1 TAATAAATA-TTAATATT
12796227 TAATAAATATTAATATT
1 TAATAAATATTAATATT
12796244 TAA-AAATATTAAT
1 TAATAAATATTAAT
12796257 GATTAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAAATATTAATATT
Found at i:12796282 original size:42 final size:40
Alignment explanation
Indices: 12796220--12796298 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 40
12796210 ATAATAATAT
12796220 TTAAATTTAATAAATATTAATATTTAAA-AATATTAATGA
1 TTAAATTTAATAAATATTAATATTTAAATAATATTAATGA
12796259 TTAAATTATAAATAAAATATTAATATTTAAATTAATATTA
1 TTAAATT-T-AAT-AAATATTAATATTTAAA-TAATATTA
12796299 TTAATACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
39 7 0.20
40 1 0.03
41 3 0.09
42 17 0.49
44 7 0.20
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (40 bp):
TTAAATTTAATAAATATTAATATTTAAATAATATTAATGA
Found at i:12796374 original size:155 final size:154
Alignment explanation
Indices: 12796004--12796374 Score: 457
Period size: 155 Copynumber: 2.4 Consensus size: 154
12795994 ATTAATATTT
* * * *
12796004 AAATGATCAATTATTAATATTT--AAAGATAAATAAAATAAAAAAATTGATCATAATAAAACTTA
1 AAAT-ATCAATTATTAATATTTAAAAAGA-AAATAAAATAAAAATA-TAATCATAATAATATTTA
* * *
12796067 AATTTATTAAAATATTAATATTTTAAAATATTAATGATTAAATTATAAATATAATATTAATATTT
63 AATTTAATAAAATATTAATATTTAAAAATATTAATGATTAAATTATAAATAAAATATTAATATTT
* * **
12796132 AAATGCTCCATTATTAATATTTTATGTA
128 AAAT-CTACATTATTAATACTTTACATA
* * *
12796160 AATTATCAATTAGTAATATTTAAAAAGAAAAATAAATTACAAAAT-TAATCATAATAATATTTAA
1 AAATATCAATTATTAATATTTAAAAAG-AAAATAAAATA-AAAATATAATCATAATAATATTTAA
12796224 ATTTAAT-AAATATTAATATTTAAAAATATTAATGATTAAATTATAAATAAAATATTAATATTTA
64 ATTTAATAAAATATTAATATTTAAAAATATTAATGATTAAATTATAAATAAAATATTAATATTTA
*
12796288 AAT-TAATATTATTAATACTTTACATA
129 AATCT-ACATTATTAATACTTTACATA
* *
12796314 AAATCTCAATTATTAATATTTAAAAAAGAAAATAAAGTAAAAATTATCAATCATAA-AATAT
1 AAATATCAATTATTAATATTT-AAAAAGAAAATAAAATAAAAA-TAT-AATCATAATAATAT
12796375 AAAATGGTAT
Statistics
Matches: 187, Mismatches: 19, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
153 5 0.03
154 45 0.24
155 86 0.46
156 33 0.18
157 13 0.07
158 5 0.03
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (154 bp):
AAATATCAATTATTAATATTTAAAAAGAAAATAAAATAAAAATATAATCATAATAATATTTAAAT
TTAATAAAATATTAATATTTAAAAATATTAATGATTAAATTATAAATAAAATATTAATATTTAAA
TCTACATTATTAATACTTTACATA
Found at i:12796496 original size:26 final size:26
Alignment explanation
Indices: 12796466--12796518 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
12796456 ATTAATATTT
* *
12796466 TAAAATGTTAATGATTAAATTATAAA
1 TAAAATGTTAATAATGAAATTATAAA
12796492 TAAAATGTTAATAATGAAATTATAAA
1 TAAAATGTTAATAATGAAATTATAAA
12796518 T
1 T
12796519 TATTAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.38
Consensus pattern (26 bp):
TAAAATGTTAATAATGAAATTATAAA
Found at i:12796573 original size:153 final size:155
Alignment explanation
Indices: 12796414--12796972 Score: 524
Period size: 159 Copynumber: 3.6 Consensus size: 155
12796404 AAATGGAATT
* * * *
12796414 TAAAAT-AAGTAGTCATTACAATATTTCAATTATAAATAAAATATTAATATTTTAAAATGTTAAT
1 TAAAATAAAGTAATCATAACAATATTT-AAAT-TAAATAAAATATTAATATTTTAAAATATTAAT
* *
12796478 GATTAAATTATAAATAAAATGTTAATAATGAAATTATAAATTATTAATATTTTCAATAAATTATC
64 GATTAAATTATAAATAAAATATTAATAATGAAATTATAAATTATTAATATTTTAAATAAATTATC
*
12796543 AATTA-TAATA-TTGGA-AAAATAAAT
129 AATTACTAATATTTGGAGAAAATAAAA
* * * * *
12796567 TAAAATAAAAAGTAATCATAATAATGTTTAAATTACATAAAATATCAATATTTT-AAATTTTAAT
1 TAAAAT--AAAGTAATCATAACAATATTTAAATTAAATAAAATATTAATATTTTAAAATATTAAT
* * * * * *
12796631 GATTAAATTATAAATTAAATGTCAATATTTG-AATTATCAATTATTAATATATTAAATAAATTAT
64 GATTAAATTATAAATAAAATATTAATA-ATGAAATTATAAATTATTAATATTTTAAATAAATTAT
* * **
12796695 CAACTATTAATATTTAAAAAGAAAATAAAA
128 CAATTACTAATATTT--GGAGAAAATAAAA
* * * * * * **
12796725 TAAAATAAAAAATTGATCAGAACAATATTTAAGTTAAATAAAATATTGATATTATAAGGTATTAA
1 TAAAAT---AAAGTAATCATAACAATATTTAAATTAAATAAAATATTAATATTTTAAAATATTAA
* * * * * *
12796790 TGATTAAATTATAAATAAAATATGAATACTTAAATGATCAAA-TGTTAATA-TTTAAATAATTTA
63 TGATTAAATTATAAATAAAATATTAATAATGAAATTAT-AAATTATTAATATTTTAAATAAATTA
** * *
12796853 AAAATTACGAATATTTGTGAATAAAATAAAA
127 TCAATTACTAATATTTG-G-AGAAAATAAAA
* *** * *
12796884 TAAAAT-AATTAATCATGTTAATATCTAAATTAAATAAAATATTAATATTTGAAAATATTAATGA
1 TAAAATAAAGTAATCATAACAATATTTAAATTAAATAAAATATTAATATTTTAAAATATTAATGA
12796948 TTAAATTATAAATAAAATATTAATA
66 TTAAATTATAAATAAAATATTAATA
12796973 TTTAAATGAT
Statistics
Matches: 329, Mismatches: 62, Indels: 28
0.79 0.15 0.07
Matches are distributed among these distances:
153 75 0.23
154 26 0.08
155 75 0.23
156 16 0.05
157 1 0.00
158 14 0.04
159 77 0.23
160 43 0.13
161 2 0.01
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (155 bp):
TAAAATAAAGTAATCATAACAATATTTAAATTAAATAAAATATTAATATTTTAAAATATTAATGA
TTAAATTATAAATAAAATATTAATAATGAAATTATAAATTATTAATATTTTAAATAAATTATCAA
TTACTAATATTTGGAGAAAATAAAA
Found at i:12796693 original size:27 final size:26
Alignment explanation
Indices: 12796662--12796712 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
12796652 TCAATATTTG
*
12796662 AATTATCAATTATTAATATATTAAATA
1 AATTATCAACTATTAATAT-TTAAATA
12796689 AATTATCAACTATTAATATTTAAA
1 AATTATCAACTATTAATATTTAAA
12796713 AAGAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTATCAACTATTAATATTTAAATA
Found at i:12796967 original size:42 final size:42
Alignment explanation
Indices: 12796901--12797103 Score: 136
Period size: 42 Copynumber: 4.8 Consensus size: 42
12796891 ATTAATCATG
*
12796901 TTAAT-ATCTAAAT-TAAATAAAATATTAATATTTGAAAATA
1 TTAATGATTTAAATATAAATAAAATATTAATATTTGAAAATA
12796941 TTAATGA-TTAAATTATAAATAAAATATTAATATTT-AAATGATTTA
1 TTAATGATTTAAA-TATAAATAAAATATTAATATTTGAAA--A--TA
* * * * **
12796986 TTATGAAGATTTAAAAATAAATGAAAATA--AAAAGTTGATCATA
1 TTA--ATGATTTAAATATAAAT-AAAATATTAATATTTGAAAATA
* * * * *
12797029 ATGAT-ATTTAAAT-TAAATTAAATATTAATATTTTAAAAAA
1 TTAATGATTTAAATATAAATAAAATATTAATATTTGAAAATA
* *
12797069 TTATTGA-TTAAATTATAAATAAAATATAAATATTT
1 TTAATGATTTAAA-TATAAATAAAATATTAATATTT
12797104 TAATGATCAA
Statistics
Matches: 123, Mismatches: 23, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
38 5 0.04
39 5 0.04
40 31 0.25
41 8 0.07
42 38 0.31
43 4 0.03
45 6 0.05
46 5 0.04
47 10 0.08
48 11 0.09
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (42 bp):
TTAATGATTTAAATATAAATAAAATATTAATATTTGAAAATA
Found at i:12796971 original size:133 final size:128
Alignment explanation
Indices: 12796829--12797103 Score: 327
Period size: 128 Copynumber: 2.1 Consensus size: 128
12796819 TTAAATGATC
* * ***
12796829 AAATGTTAATATTTAAATAATTTAAAAATTACGAATATTTGTGAATAAAAT-AAAATAAAATAAT
1 AAATATTAATATTTAAATAATTT----ATTACGAAGATTTAAAAAT-AAATGAAAATAAAA-AAT
** *
12796893 TAATCATGTTAATATCTAAATTAAATAAAATATTAATATTTGAAAATATTAATGATTAAATTATA
60 TAATCATAATAATATCTAAATTAAATAAAATATTAATATTTGAAAAAATTAATGATTAAATTATA
12796958 AATA
125 AATA
* * * *
12796962 AAATATTAATATTTAAATGATTTATTATGAAGATTTAAAAATAAATGAAAATAAAAAGTTGATCA
1 AAATATTAATATTTAAATAATTTATTACGAAGATTTAAAAATAAATGAAAATAAAAAATTAATCA
* * * * *
12797027 TAATGATATTTAAATTAAATTAAATATTAATATTTTAAAAAATTATTGATTAAATTATAAATA
66 TAATAATATCTAAATTAAATAAAATATTAATATTTGAAAAAATTAATGATTAAATTATAAATA
*
12797090 AAATATAAATATTT
1 AAATATTAATATTT
12797104 TAATGATCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
128 79 0.64
129 23 0.19
133 21 0.17
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.39
Consensus pattern (128 bp):
AAATATTAATATTTAAATAATTTATTACGAAGATTTAAAAATAAATGAAAATAAAAAATTAATCA
TAATAATATCTAAATTAAATAAAATATTAATATTTGAAAAAATTAATGATTAAATTATAAATA
Found at i:12796998 original size:155 final size:152
Alignment explanation
Indices: 12796446--12797000 Score: 565
Period size: 155 Copynumber: 3.6 Consensus size: 152
12796436 ATTTCAATTA
* * * *
12796446 TAAATAAAATATTAATATTTTAAAATGTTAATGATTAAATTATAAATAAAATGTTAATAATGAAA
1 TAAATAAAATATTAATA-TTTAAAATATTAATGATTAAATTATAAATAAAATATTAATATTTAAA
* * * * *
12796511 TTATAAATTATTAATATTTTCAATAAATTATCAATTATAATATTGGAAAAATAAATTAAAAT-AA
65 TGATCAATTATTAATA-TTTAAATAAATTATCAATTATAATATTTG-AAAATAAAATAAAATAAA
* * *
12796575 AAAGTAATCATAATAATGTTTAAAT
128 AAATTAATCATGATAATATTTAAAT
* * * * * * * *
12796600 TACATAAAATATCAATATTTTAAATTTTAATGATTAAATTATAAATTAAATGTCAATATTTGAAT
1 TAAATAAAATATTAATATTTAAAATATTAATGATTAAATTATAAATAAAATATTAATATTTAAAT
* *
12796665 TATCAATTATTAATATATTAAATAAATTATCAACTATTAATATTTAAAAAGAAAATAAAATAAAA
66 GATCAATTATTAATAT-TTAAATAAATTATCAATTA-TAATATTT-----GAAAATAAAATAAAA
* * *
12796730 TAAAAAATTGATCA-GAACAATATTTAAGT
124 TAAAAAATTAATCATG-ATAATATTTAAAT
* ** * *
12796759 TAAATAAAATATTGATATTATAAGGTATTAATGATTAAATTATAAATAAAATATGAATACTTAAA
1 TAAATAAAATATTAATATT-TAAAATATTAATGATTAAATTATAAATAAAATATTAATATTTAAA
* * * ** * **
12796824 TGATCAAATGTTAATATTTAAATAATTTAAAAATTACGAATATTTGTGAATAAAATAAAATAAAA
65 TGATCAATTATTAATATTTAAATAAATTATCAATTA-TAATATTTGAAAATAAAATAAAATAAAA
* *
12796889 TAATTAATCATGTTAATATCTAAAT
129 -AATTAATCATGATAATATTTAAAT
12796914 TAAATAAAATATTAATATTTGAAAATATTAATGATTAAATTATAAATAAAATATTAATATTTAAA
1 TAAATAAAATATTAATATTT-AAAATATTAATGATTAAATTATAAATAAAATATTAATATTTAAA
** * *
12796979 TGATTTATTATGAAGATTTAAA
65 TGATCAATTATTAATATTTAAA
12797001 AATAAATGAA
Statistics
Matches: 329, Mismatches: 59, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
152 1 0.00
153 72 0.22
154 41 0.12
155 91 0.28
156 1 0.00
158 14 0.04
159 59 0.18
160 50 0.15
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (152 bp):
TAAATAAAATATTAATATTTAAAATATTAATGATTAAATTATAAATAAAATATTAATATTTAAAT
GATCAATTATTAATATTTAAATAAATTATCAATTATAATATTTGAAAATAAAATAAAATAAAAAA
TTAATCATGATAATATTTAAAT
Found at i:12797154 original size:27 final size:27
Alignment explanation
Indices: 12797105--12797156 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
12797095 TAAATATTTT
* *
12797105 AATGATCAATTTTTAGTAGTTTAAATG
1 AATGATCAATTATTAATAGTTTAAATG
*
12797132 AATGATCAATTATTAATATTTTAAA
1 AATGATCAATTATTAATAGTTTAAA
12797157 AATAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (27 bp):
AATGATCAATTATTAATAGTTTAAATG
Found at i:12797248 original size:21 final size:22
Alignment explanation
Indices: 12797194--12797255 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
12797184 AATATAAAAA
*
12797194 TTAAATAAA-ATAT-TATTA-T
1 TTAAATAAATATTTCTATTATT
*
12797213 TTAAATTAATATTTCTATTATT
1 TTAAATAAATATTTCTATTATT
* *
12797235 TTACATAAAT-TTTCAATTATT
1 TTAAATAAATATTTCTATTATT
12797256 AATATTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 8 0.23
20 3 0.09
21 15 0.43
22 9 0.26
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
TTAAATAAATATTTCTATTATT
Found at i:12798040 original size:16 final size:16
Alignment explanation
Indices: 12798021--12798059 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
12798011 ATGATTATGT
*
12798021 CATCATGTCAAATCGC
1 CATCATGTCAAATCAC
*
12798037 CATCATGTCATATCAC
1 CATCATGTCAAATCAC
12798053 CATCATG
1 CATCATG
12798060 ATGATTGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (16 bp):
CATCATGTCAAATCAC
Found at i:12800273 original size:31 final size:32
Alignment explanation
Indices: 12800236--12800317 Score: 114
Period size: 31 Copynumber: 2.6 Consensus size: 32
12800226 TGTAAAATAT
12800236 AAGGACTAAATTGAATAAAACTTTATAA-TA-
1 AAGGACTAAATTGAATAAAACTTTATAAGTAG
* *
12800266 AAGGGACTAAATTGAATACAATTTTATAAGTAG
1 AA-GGACTAAATTGAATAAAACTTTATAAGTAG
*
12800299 AAAGACTAAATTGAATAAA
1 AAGGACTAAATTGAATAAA
12800318 GCTCTACTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 2 0.04
31 24 0.53
32 17 0.38
33 2 0.04
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.28
Consensus pattern (32 bp):
AAGGACTAAATTGAATAAAACTTTATAAGTAG
Found at i:12801659 original size:23 final size:22
Alignment explanation
Indices: 12801619--12801661 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12801609 AGCAAGTAAG
*
12801619 TTTTTTTTCTTTTTTTATTTAT
1 TTTTTTTTCTTTTCTTATTTAT
*
12801641 TTTTTTTTGTATTTCTTATTT
1 TTTTTTTTCT-TTTCTTATTT
12801662 GTATATATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.09, C:0.05, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTTTTTCTTTTCTTATTTAT
Found at i:12801807 original size:2 final size:2
Alignment explanation
Indices: 12801794--12801834 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
12801784 GTTCAAATAG
* *
12801794 AT AT AT AG AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12801835 GGAAGAGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:12801811 original size:12 final size:12
Alignment explanation
Indices: 12801794--12801834 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
12801784 GTTCAAATAG
12801794 ATATATAGATAT
1 ATATATAGATAT
12801806 ATATATAGATAT
1 ATATATAGATAT
*
12801818 ATATATATATAT
1 ATATATAGATAT
12801830 ATATA
1 ATATA
12801835 GGAAGAGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (12 bp):
ATATATAGATAT
Found at i:12805085 original size:42 final size:43
Alignment explanation
Indices: 12805036--12805119 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
12805026 AAGTATGTAA
12805036 AAAGGTACAC-AGGAACAAGGTAAGAAAGAA-AGGCATACATGG
1 AAAGGTACACGA-GAACAAGGTAAGAAAGAAGAGGCATACATGG
* * * *
12805078 AAAGGTACACGAGAATAAGGTACGAGAGAAGAGGTATACATG
1 AAAGGTACACGAGAACAAGGTAAGAAAGAAGAGGCATACATG
12805120 AAAATGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 25 0.69
43 11 0.31
ACGTcount: A:0.48, C:0.11, G:0.30, T:0.12
Consensus pattern (43 bp):
AAAGGTACACGAGAACAAGGTAAGAAAGAAGAGGCATACATGG
Found at i:12815080 original size:77 final size:77
Alignment explanation
Indices: 12814986--12815264 Score: 344
Period size: 77 Copynumber: 3.6 Consensus size: 77
12814976 NNNNNNNNNN
* * * *
12814986 AATTGTTTCCTACTTTAAAAGCAATTCCTAAAATTAAGGATAGAATTTTAGTTTTGGGTGATTCC
1 AATTGTTTCTTACTTTAAAAGAAATTCCTAAAATTAAGGATAGAATTTTAATTTTGGGTGATTCA
12815051 TAAAGAATAGGA
66 TAAAGAATAGGA
* * *
12815063 AATTGTTTCTTACTTTAAAACAAATTACTAAAATTAAGGATAGAATTTTAATTTTGGATGATTCA
1 AATTGTTTCTTACTTTAAAAGAAATTCCTAAAATTAAGGATAGAATTTTAATTTTGGGTGATTCA
* * *
12815128 TTATGAATAAGA
66 TAAAGAATAGGA
* * * * *
12815140 AATTGTTTCTTATTTTAAAAGAAATTCCTAAAATTAAGGGTAAAATTTTAATTTTTGGTGATTTA
1 AATTGTTTCTTACTTTAAAAGAAATTCCTAAAATTAAGGATAGAATTTTAATTTTGGGTGATTCA
* *
12815205 TAAAGAATTGAA
66 TAAAGAATAGGA
* * * * * *
12815217 AATTATTTCTAATTTTAAAAGAAATT-CTAACATTAAGAATAGTATTTT
1 AATTGTTTCTTACTTTAAAAGAAATTCCTAAAATTAAGGATAGAATTTT
12815265 TAACTTGCAA
Statistics
Matches: 172, Mismatches: 30, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
76 17 0.10
77 155 0.90
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.41
Consensus pattern (77 bp):
AATTGTTTCTTACTTTAAAAGAAATTCCTAAAATTAAGGATAGAATTTTAATTTTGGGTGATTCA
TAAAGAATAGGA
Found at i:12815267 original size:154 final size:154
Alignment explanation
Indices: 12814986--12815264 Score: 389
Period size: 154 Copynumber: 1.8 Consensus size: 154
12814976 NNNNNNNNNN
* * * *
12814986 AATTGTTTCCTACTTTAAAAGCAATTCCTAAAATTAAGGATAGAATTTTAGTTTTGGGTGATTCC
1 AATTGTTTCCTACTTTAAAAGAAATTCCTAAAATTAAGGATAAAATTTTAATTTTGGGTGATTCA
* * * *
12815051 TAAAGAATAGGAAATTGTTTCTTACTTTAAAACAAATTACTAAAATTAAGGATAGAATTTTAATT
66 TAAAGAATAGAAAATTATTTCTAACTTTAAAACAAATTACTAAAATTAAGAATAGAATTTTAATT
12815116 TTGGATGATTCATTATGAATAAGA
131 TTGGATGATTCATTATGAATAAGA
* * * * *
12815140 AATTGTTTCTTATTTTAAAAGAAATTCCTAAAATTAAGGGTAAAATTTTAATTTTTGGTGATTTA
1 AATTGTTTCCTACTTTAAAAGAAATTCCTAAAATTAAGGATAAAATTTTAATTTTGGGTGATTCA
* * * * *
12815205 TAAAGAATTGAAAATTATTTCTAATTTTAAAAGAAATT-CTAACATTAAGAATAGTATTTT
66 TAAAGAATAGAAAATTATTTCTAACTTTAAAACAAATTACTAAAATTAAGAATAGAATTTT
12815265 TAACTTGCAA
Statistics
Matches: 107, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
153 19 0.18
154 88 0.82
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.41
Consensus pattern (154 bp):
AATTGTTTCCTACTTTAAAAGAAATTCCTAAAATTAAGGATAAAATTTTAATTTTGGGTGATTCA
TAAAGAATAGAAAATTATTTCTAACTTTAAAACAAATTACTAAAATTAAGAATAGAATTTTAATT
TTGGATGATTCATTATGAATAAGA
Found at i:12825226 original size:3 final size:3
Alignment explanation
Indices: 12825208--12825243 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
12825198 TTTTACTTAA
*
12825208 TAT T-T TAT TAT GAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12825244 CTGTTATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12825378 original size:13 final size:13
Alignment explanation
Indices: 12825360--12825389 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12825350 GAGGAAAAGA
12825360 TCAAAAATTCTTT
1 TCAAAAATTCTTT
12825373 TCAAAAATTCTTT
1 TCAAAAATTCTTT
12825386 TCAA
1 TCAA
12825390 TCTTAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (13 bp):
TCAAAAATTCTTT
Found at i:12828492 original size:5 final size:5
Alignment explanation
Indices: 12828476--12828516 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
12828466 GGAAATGGCA
*
12828476 TCATT TCCTT TCATT TCATT TCAATT TGCATT TCATT TCAT
1 TCATT TCATT TCATT TCATT TC-ATT T-CATT TCATT TCAT
12828517 CTTCTTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 23 0.72
6 8 0.25
7 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.56
Consensus pattern (5 bp):
TCATT
Found at i:12833563 original size:178 final size:178
Alignment explanation
Indices: 12833223--12833567 Score: 478
Period size: 178 Copynumber: 1.9 Consensus size: 178
12833213 AAAATGTGTT
* *
12833223 ACAAAGAATTTCAAAAGATCTCAAAAACCGATTCTGCCACTTGCATATAAAGGTCACGGTTTTTG
1 ACAAAGAATTTCAAAAGATCTCAAAAACCGATTCTACCACTTGCAGATAAAGGTCACGGTTTTTG
* * * * *
12833288 AATTTTTTGAATGGCAAATCACCTCCTAAAATCCTGAAAATTTATTCTGGAATAGTCCCTTGAGT
66 AATTTTTTGAATGACAAATCACCTCCTAAAATACTAAAAATTTATCCTGGAATAGTCCCATGAGT
* *
12833353 TAGCTATCAGGATAAATTTTATTGGGAATTAAATTCCTAGGTTTAGTC
131 TAGCTATCAGAATAAATTTTATTGGAAATTAAATTCCTAGGTTTAGTC
* * * * * *
12833401 ACAAAGAATTTCAAAAGGTCTCAAAAACTGATTGTATCACTTGCAGATAAAGTTCATGGTTTTTG
1 ACAAAGAATTTCAAAAGATCTCAAAAACCGATTCTACCACTTGCAGATAAAGGTCACGGTTTTTG
*
12833466 AATTTTTTGAATAGACAAATCACCTCCTAAAATACTAAAAATTTATCCTGGTATAG-CTCCATGA
66 AATTTTTTGAAT-GACAAATCACCTCCTAAAATACTAAAAATTTATCCTGGAATAGTC-CCATGA
** * *
12833530 GTTTTCTATTAGAATCAATTTTATT-GAAATTAAATTCC
129 GTTAGCTATCAGAATAAATTTTATTGGAAATTAAATTCC
12833568 AAAATATAGA
Statistics
Matches: 145, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
178 82 0.57
179 63 0.43
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (178 bp):
ACAAAGAATTTCAAAAGATCTCAAAAACCGATTCTACCACTTGCAGATAAAGGTCACGGTTTTTG
AATTTTTTGAATGACAAATCACCTCCTAAAATACTAAAAATTTATCCTGGAATAGTCCCATGAGT
TAGCTATCAGAATAAATTTTATTGGAAATTAAATTCCTAGGTTTAGTC
Found at i:12834904 original size:58 final size:57
Alignment explanation
Indices: 12834824--12834932 Score: 173
Period size: 58 Copynumber: 1.9 Consensus size: 57
12834814 CAAAGCAGCT
* *
12834824 TGCATGTGATAGATTTCTTTTATGCAATTTAATAAATGTTATGCAATGCAAAGTAGTA
1 TGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGC-ATGCAAAGTAGTA
**
12834882 TGCATGTGATAGATTTATTTTATGTGATTTAATAAATGCTATGCATGCAAA
1 TGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCATGCAAA
12834933 CATGAGACCC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 7 0.15
58 40 0.85
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (57 bp):
TGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATGCATGCAAAGTAGTA
Found at i:12844938 original size:3 final size:3
Alignment explanation
Indices: 12844932--12844969 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12844922 TGCTGCTTGC
12844932 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12844970 GGAAGATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12847124 original size:15 final size:15
Alignment explanation
Indices: 12847104--12847134 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12847094 AGTAGTCTCG
12847104 TGGTTTGTTTTTCGT
1 TGGTTTGTTTTTCGT
12847119 TGGTTTGTTTTTCGT
1 TGGTTTGTTTTTCGT
12847134 T
1 T
12847135 AAAGAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.06, G:0.26, T:0.68
Consensus pattern (15 bp):
TGGTTTGTTTTTCGT
Found at i:12851642 original size:19 final size:19
Alignment explanation
Indices: 12851621--12851656 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12851611 TAAAAGTAAA
12851621 AAAAG-CAAAAAAAAAGAC
1 AAAAGACAAAAAAAAAGAC
*
12851639 AAAAGATAAAAAAAAAGA
1 AAAAGACAAAAAAAAAGA
12851657 GAGAAAGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.03
Consensus pattern (19 bp):
AAAAGACAAAAAAAAAGAC
Found at i:12856420 original size:29 final size:29
Alignment explanation
Indices: 12856386--12856454 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
12856376 GAGAATGGAC
12856386 GAGCTTAATATGCAAATGATTGAATTGAT
1 GAGCTTAATATGCAAATGATTGAATTGAT
12856415 GAGCTTAATATGCAAATGATTGAATTGAT
1 GAGCTTAATATGCAAATGATTGAATTGAT
*
12856444 GAGCTTTATAT
1 GAGCTTAATAT
12856455 CCAAGATGGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (29 bp):
GAGCTTAATATGCAAATGATTGAATTGAT
Found at i:12861019 original size:13 final size:13
Alignment explanation
Indices: 12861003--12861027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12860993 AAGCAAAAAG
12861003 AAAAAAAAAAGAT
1 AAAAAAAAAAGAT
12861016 AAAAAAAAAAGA
1 AAAAAAAAAAGA
12861028 GAAAGAAGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.08, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAAGAT
Found at i:12868023 original size:19 final size:19
Alignment explanation
Indices: 12867999--12868035 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12867989 CAAAAAATTA
* *
12867999 TAAATATCATAATATTTAT
1 TAAATATAATAAAATTTAT
12868018 TAAATATAATAAAATTTA
1 TAAATATAATAAAATTTA
12868036 ATATCAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATATAATAAAATTTAT
Found at i:12868047 original size:15 final size:15
Alignment explanation
Indices: 12868020--12868073 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
12868010 ATATTTATTA
12868020 AATATAATAAAATTT
1 AATATAATAAAATTT
*
12868035 AATATCAATAAATTTT
1 AATAT-AATAAAATTT
*
12868051 AACCATAATAAAAATATT
1 AA-TATAAT-AAAAT-TT
12868069 AATAT
1 AATAT
12868074 TTAAATAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 5 0.16
16 14 0.45
17 8 0.26
18 4 0.13
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATAATAAAATTT
Found at i:12872005 original size:2 final size:2
Alignment explanation
Indices: 12872000--12872036 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12871990 ATGTTTTGGT
12872000 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
12872037 CCTATGCACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12875847 original size:15 final size:16
Alignment explanation
Indices: 12875827--12875860 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
12875817 GCTTGTTATC
12875827 TGAATTCAACTCG-TT
1 TGAATTCAACTCGATT
*
12875842 TGAATTCAATTCGATT
1 TGAATTCAACTCGATT
12875858 TGA
1 TGA
12875861 TTAGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (16 bp):
TGAATTCAACTCGATT
Found at i:12876810 original size:24 final size:24
Alignment explanation
Indices: 12876769--12876822 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
12876759 TATTAAAAAG
* *
12876769 ATAATATTATTTTTTATTAATTTT
1 ATAAAATTATTTTATATTAATTTT
*
12876793 A-AAAATTATTATTATATTATTTTT
1 ATAAAATTATT-TTATATTAATTTT
12876817 ATAAAA
1 ATAAAA
12876823 AAAATTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 8 0.32
24 13 0.52
25 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATAAAATTATTTTATATTAATTTT
Found at i:12876900 original size:20 final size:21
Alignment explanation
Indices: 12876851--12876900 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
12876841 TTTTGAATTT
12876851 TTTTAATTGATATAAAAAAAA
1 TTTTAATTGATATAAAAAAAA
*
12876872 TTTAAAATT-A-ATAAAAAAATA
1 TTT-TAATTGATATAAAAAAA-A
12876893 TTTTAATT
1 TTTTAATT
12876901 TTTTTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 13 0.52
21 8 0.32
22 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTAATTGATATAAAAAAAA
Found at i:12876928 original size:6 final size:7
Alignment explanation
Indices: 12876902--12876932 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
12876892 ATTTTAATTT
12876902 TTTTATA
1 TTTTATA
12876909 TTTTATA
1 TTTTATA
12876916 TTTTATA
1 TTTTATA
12876923 -TTTATA
1 TTTTATA
12876929 TTTT
1 TTTT
12876933 TGACAGGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:12876928 original size:13 final size:14
Alignment explanation
Indices: 12876902--12876932 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
12876892 ATTTTAATTT
12876902 TTTTATATTTTATA
1 TTTTATATTTTATA
12876916 TTTTATA-TTTATA
1 TTTTATATTTTATA
12876929 TTTT
1 TTTT
12876933 TGACAGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATATTTTATA
Found at i:12877669 original size:57 final size:53
Alignment explanation
Indices: 12877607--12877739 Score: 176
Period size: 57 Copynumber: 2.4 Consensus size: 53
12877597 TTTTTATCTT
* * *
12877607 TCTTCTCTTCTTCAATCTCTTTAACCTTTTATATTATTTTTTTCCTTTTTATGTTT
1 TCTTCTCTTCTTTAATCTCTTTAACC-TTTAGATTATTTTTTTCCTTTTT-TG-TA
* *
12877663 TCCTTCTCTTCTTTAATCTCTTTAGCCTTTAGATTTTTTTTTTCCTTTTTTGTA
1 T-CTTCTCTTCTTTAATCTCTTTAACCTTTAGATTATTTTTTTCCTTTTTTGTA
*
12877717 TCTTCTCTTCTTTAACCTCTTTA
1 TCTTCTCTTCTTTAATCTCTTTA
12877740 GCTTTTTGAT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
53 21 0.30
54 2 0.03
55 2 0.03
56 22 0.31
57 23 0.33
ACGTcount: A:0.13, C:0.22, G:0.03, T:0.62
Consensus pattern (53 bp):
TCTTCTCTTCTTTAATCTCTTTAACCTTTAGATTATTTTTTTCCTTTTTTGTA
Found at i:12877725 original size:53 final size:55
Alignment explanation
Indices: 12877597--12877757 Score: 193
Period size: 53 Copynumber: 2.9 Consensus size: 55
12877587 CACAACTTTT
* * * * *
12877597 TTTTTATCTT-TCTTCTCTTCTTCAATCTCTTTAACCTTTTATATTATTTTTTTCC
1 TTTTTATGTTATCTTCTCTTCTTTAATCTCTTTAGCC-TTTAGATTTTTTTTTTCC
*
12877652 TTTTTATGTTTTCCTTCTCTTCTTTAATCTCTTTAGCCTTTAGATTTTTTTTTTCC
1 TTTTTATGTTAT-CTTCTCTTCTTTAATCTCTTTAGCCTTTAGATTTTTTTTTTCC
* * * *
12877708 TTTTT-TG-TATCTTCTCTTCTTTAACCTCTTTAGCTTTTTGATTTGTTTTT
1 TTTTTATGTTATCTTCTCTTCTTTAATCTCTTTAGCCTTTAGATTTTTTTTT
12877758 AATTCCTTCC
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
53 36 0.38
54 2 0.02
55 11 0.12
56 22 0.23
57 23 0.24
ACGTcount: A:0.12, C:0.19, G:0.04, T:0.65
Consensus pattern (55 bp):
TTTTTATGTTATCTTCTCTTCTTTAATCTCTTTAGCCTTTAGATTTTTTTTTTCC
Found at i:12877842 original size:96 final size:98
Alignment explanation
Indices: 12877722--12877901 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 98
12877712 TTGTATCTTC
* *
12877722 TCTTCTTTAACCTCTTTAGCTTTTTGATTTGTTTTTAATT-CCT-TCCCACGGTGGACATTTTTT
1 TCTTCTTTAACCTCTTTAGCTTTTTAATTTCTTTTTAATTACCTATCCCA--GTGGACATTTTTT
12877785 TTC-TTGTTTACATTT-TTTAAAAATTTTTTCCTA
64 TTCTTTGTTTACATTTATTTAAAAATTTTTTCCTA
* * * **
12877818 TCTTCTTTAACTTCTTTAGTTTTTTAATTTCTTTTTAATTACTTATCCCAGTGGGTATTTTTTTT
1 TCTTCTTTAACCTCTTTAGCTTTTTAATTTCTTTTTAATTACCTATCCCAGTGGACATTTTTTTT
*
12877883 CTTTGTTTGCATTTATTTA
66 CTTTGTTTACATTTATTTA
12877902 TTTTTTTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
96 50 0.69
97 13 0.18
98 9 0.12
ACGTcount: A:0.17, C:0.16, G:0.08, T:0.59
Consensus pattern (98 bp):
TCTTCTTTAACCTCTTTAGCTTTTTAATTTCTTTTTAATTACCTATCCCAGTGGACATTTTTTTT
CTTTGTTTACATTTATTTAAAAATTTTTTCCTA
Found at i:12878111 original size:23 final size:23
Alignment explanation
Indices: 12878066--12878113 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
12878056 TCTTGATTGC
* *
12878066 ATTTGTTTTTTAAAAGTGGAAGA
1 ATTTGTTTTTAAAAAGTGAAAGA
12878089 ATTTGCTTTTTAAAAAG-GAAAGA
1 ATTTG-TTTTTAAAAAGTGAAAGA
12878112 AT
1 AT
12878114 GGGTCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (23 bp):
ATTTGTTTTTAAAAAGTGAAAGA
Found at i:12878889 original size:21 final size:22
Alignment explanation
Indices: 12878864--12878904 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12878854 ACGATAATTG
12878864 TTGATAACATAACAT-ATTAAT
1 TTGATAACATAACATGATTAAT
**
12878885 TTGATATGATAACATGATTA
1 TTGATAACATAACATGATTA
12878905 TGTGATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (22 bp):
TTGATAACATAACATGATTAAT
Found at i:12878910 original size:21 final size:21
Alignment explanation
Indices: 12878872--12878912 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12878862 TGTTGATAAC
*
12878872 ATAACATATTAATTTGATATG
1 ATAACATATTAATGTGATATG
12878893 ATAACATGATT-ATGTGATAT
1 ATAACAT-ATTAATGTGATAT
12878913 TTTTCACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (21 bp):
ATAACATATTAATGTGATATG
Found at i:12887465 original size:25 final size:26
Alignment explanation
Indices: 12887436--12887488 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
12887426 TCCTCGTACC
*
12887436 TTTTTTATTTTATAAT-ATACTTTTA
1 TTTTTTATTTTATAATCATAATTTTA
*
12887461 TTTTTTATTTTTTAATCATAATTTTA
1 TTTTTTATTTTATAATCATAATTTTA
12887487 TT
1 TT
12887489 AATTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTTATTTTATAATCATAATTTTA
Found at i:12887472 original size:26 final size:25
Alignment explanation
Indices: 12887436--12887488 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
12887426 TCCTCGTACC
*
12887436 TTTTTTATTTTATAAT-ATACTTTTA
1 TTTTTTATTTT-TAATCATAATTTTA
12887461 TTTTTTATTTTTTAATCATAATTTTA
1 TTTTTTA-TTTTTAATCATAATTTTA
12887487 TT
1 TT
12887489 AATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTTATTTTTAATCATAATTTTA
Found at i:12887502 original size:21 final size:21
Alignment explanation
Indices: 12887460--12887502 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
12887450 ATATACTTTT
* *
12887460 ATTTTTTATTTTTTAATCATA
1 ATTTTTTAATTTTTAATAATA
12887481 ATTTTATTAATTTTTAA-AATA
1 ATTTT-TTAATTTTTAATAATA
12887502 A
1 A
12887503 ATAATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTTAATTTTTAATAATA
Found at i:12887534 original size:19 final size:18
Alignment explanation
Indices: 12887512--12887552 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
12887502 AATAATATAA
*
12887512 TAAAAAATATAAATAATG
1 TAAAAAATATAAAAAATG
12887530 CTAAAAAATATAAAAAATG
1 -TAAAAAATATAAAAAATG
12887549 TAAA
1 TAAA
12887553 TTTCTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (18 bp):
TAAAAAATATAAAAAATG
Found at i:12887902 original size:30 final size:29
Alignment explanation
Indices: 12887836--12887914 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
12887826 ATTTAAAATT
* *
12887836 TTTTATATATTTTTATTATATTCAATCAAG
1 TTTT-TATATTTTTATTTTATTCAAACAAG
*
12887866 TCTTTATATTTTTATTTTGAGTT-AAACAAG
1 TTTTTATATTTTTATTTT-A-TTCAAACAAG
12887896 TTTTTATATTTTTATTTTA
1 TTTTTATATTTTTATTTTA
12887915 AATCAAATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 14 0.33
30 27 0.63
31 2 0.05
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (29 bp):
TTTTTATATTTTTATTTTATTCAAACAAG
Found at i:12889520 original size:5 final size:5
Alignment explanation
Indices: 12889512--12889591 Score: 54
Period size: 5 Copynumber: 15.4 Consensus size: 5
12889502 GCAATATTAT
* * * *
12889512 ATAAA ATAAA ATATA TTAAA ATAAA AT-AT ATAAT ATAAGA ATTAGAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA-A A-TA-AA
* * *
12889559 ATTAAA ATAAA ATAAA ATATA AGAAA TTAAA AT
1 A-TAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
12889592 TTATATAATA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
4 3 0.05
5 44 0.75
6 4 0.07
7 7 0.12
8 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (5 bp):
ATAAA
Found at i:12889531 original size:15 final size:15
Alignment explanation
Indices: 12889509--12889542 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
12889499 TTTGCAATAT
12889509 TATA-TAAAATAAAA
1 TATATTAAAATAAAA
12889523 TATATTAAAATAAAA
1 TATATTAAAATAAAA
12889538 TATAT
1 TATAT
12889543 AATATAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TATATTAAAATAAAA
Found at i:12889581 original size:31 final size:33
Alignment explanation
Indices: 12889526--12889592 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
12889516 AATAAAATAT
12889526 ATTAAAATAAAATATATAATATAAG-AATTAGAA
1 ATTAAAATAAAATATATAATATAAGAAATTA-AA
12889559 ATTAAAATAAAATA-A-AATATAAGAAATTAAA
1 ATTAAAATAAAATATATAATATAAGAAATTAAA
12889590 ATT
1 ATT
12889593 TATATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 13 0.39
32 6 0.18
33 14 0.42
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (33 bp):
ATTAAAATAAAATATATAATATAAGAAATTAAA
Found at i:12889619 original size:55 final size:53
Alignment explanation
Indices: 12889512--12889642 Score: 158
Period size: 55 Copynumber: 2.4 Consensus size: 53
12889502 GCAATATTAT
* *
12889512 ATAAAATAAAATATATTAAAA-TAAAATATATAATATAAGAATTAGAAATTAAA
1 ATAAAATAAAATATA-AAAAATTAAAATATATAATATAAGAATAAGAAATTAAA
* *
12889565 ATAAAATAAAATATAAGAAATTAAAATTTATATAATATAGGTAA-AAGAAATTAAA
1 ATAAAATAAAATATAAAAAATTAAAA--TATATAATATAAG-AATAAGAAATTAAA
12889620 ATAAAATATATAATATAAAAAAT
1 ATAAAATA-A-AATATAAAAAAT
12889643 CATATTAAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
52 3 0.04
53 20 0.30
55 30 0.45
56 3 0.04
57 11 0.16
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (53 bp):
ATAAAATAAAATATAAAAAATTAAAATATATAATATAAGAATAAGAAATTAAA
Found at i:12889670 original size:34 final size:32
Alignment explanation
Indices: 12889617--12889703 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 32
12889607 AAAAGAAATT
*
12889617 AAAATAAAATATATAATATAAAAAATCATATTAA
1 AAAATAAAATA-A-AATATAAAAAATCATAATAA
* * *
12889651 AGAAATGAAAATAAAATATACAATATGATAATAA
1 A-AAAT-AAAATAAAATATAAAAAATCATAATAA
12889685 AAAATAAAAATAAAATATA
1 AAAAT-AAAATAAAATATA
12889704 TGACATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 17 0.37
34 18 0.39
35 5 0.11
36 6 0.13
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (32 bp):
AAAATAAAATAAAATATAAAAAATCATAATAA
Found at i:12897551 original size:21 final size:21
Alignment explanation
Indices: 12897527--12897569 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12897517 CTTAACTTCT
*
12897527 TGTTTTAATTAGTTAAAAAAA
1 TGTTCTAATTAGTTAAAAAAA
* *
12897548 TGTTCTAATTTGTTAAAGAAA
1 TGTTCTAATTAGTTAAAAAAA
12897569 T
1 T
12897570 CTTAGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (21 bp):
TGTTCTAATTAGTTAAAAAAA
Found at i:12900257 original size:27 final size:26
Alignment explanation
Indices: 12900220--12900271 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
12900210 CTACTAAATG
*
12900220 TTTTTGTTGAATGCTTATATTTATGC
1 TTTTTGTTGAATGCTTATATCTATGC
*
12900246 TTTTATGTTGAATGTTTATATCTATG
1 TTTT-TGTTGAATGCTTATATCTATG
12900272 TGATTAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (26 bp):
TTTTTGTTGAATGCTTATATCTATGC
Found at i:12900260 original size:40 final size:39
Alignment explanation
Indices: 12900170--12900262 Score: 105
Period size: 40 Copynumber: 2.4 Consensus size: 39
12900160 GGGATTTTTA
* * *
12900170 TATGCTGAATGTTTTTTTGGATGTTTATATCTATGTTTT
1 TATGCTGAATGTTTTTTTGAATGCTTATATCTATGCTTT
* * * *
12900209 TCTACTAAATGTTTTTGTTGAATGCTTATATTTATGCTTT
1 TATGCTGAATGTTTTT-TTGAATGCTTATATCTATGCTTT
*
12900249 TATGTTGAATGTTT
1 TATGCTGAATGTTT
12900263 ATATCTATGT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
39 13 0.31
40 29 0.69
ACGTcount: A:0.20, C:0.06, G:0.16, T:0.57
Consensus pattern (39 bp):
TATGCTGAATGTTTTTTTGAATGCTTATATCTATGCTTT
Found at i:12909205 original size:21 final size:22
Alignment explanation
Indices: 12909170--12909213 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
12909160 ACTCTTAAGT
12909170 AATTTAAAATAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
*
12909192 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
12909213 A
1 A
12909214 TTAATCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTAAAATAAAATAACTTAA
Found at i:12924425 original size:152 final size:152
Alignment explanation
Indices: 12924167--12924448 Score: 485
Period size: 152 Copynumber: 1.9 Consensus size: 152
12924157 ATGGGTAAGC
*
12924167 TGAAATTCTTTCTTGGCCTTCAAATCAAACAATGCAAAAAGGGCATATTCATTAGTCAAAAAAGA
1 TGAAATTCTTTATTGGCCTTCAAATCAAACAATGCAAAAAGGGCATATTCATTAGTCAAAAAAGA
*
12924232 TACATTCAAGATATACTAAAGAAGTTTGATATGCTGGAACTGAAATCAATCAGTACATC-AATGA
66 TACATTCAAGATATACTAAAGAAGTTTGATATGCTGAAACTGAAATCAATCAGTACA-CAAATGA
12924296 GTAGATGAACATGATAAGTGAAT
130 GTAGATGAACATGATAAGTGAAT
* * * *
12924319 TGAAATTCTTTATTGGCCTTCAAATCAAACAATGTAAAGAGGGCATCTTCATTAGTCAAGAAAGA
1 TGAAATTCTTTATTGGCCTTCAAATCAAACAATGCAAAAAGGGCATATTCATTAGTCAAAAAAGA
*
12924384 TACATTCAAGATATACTAAAGAAGTTTGATATGTTGAAACTGAAATCAATCAGTACACAAATGAG
66 TACATTCAAGATATACTAAAGAAGTTTGATATGCTGAAACTGAAATCAATCAGTACACAAATGAG
12924449 CCCCTTCATC
Statistics
Matches: 122, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
151 1 0.01
152 121 0.99
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (152 bp):
TGAAATTCTTTATTGGCCTTCAAATCAAACAATGCAAAAAGGGCATATTCATTAGTCAAAAAAGA
TACATTCAAGATATACTAAAGAAGTTTGATATGCTGAAACTGAAATCAATCAGTACACAAATGAG
TAGATGAACATGATAAGTGAAT
Found at i:12925772 original size:16 final size:17
Alignment explanation
Indices: 12925741--12925776 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
12925731 AGAGAAAAAG
12925741 AACAAAAATCAAAGAAA
1 AACAAAAATCAAAGAAA
*
12925758 AACAAAGAT-AAAGAAA
1 AACAAAAATCAAAGAAA
12925774 AAC
1 AAC
12925777 CCACGGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.75, C:0.11, G:0.08, T:0.06
Consensus pattern (17 bp):
AACAAAAATCAAAGAAA
Found at i:12930219 original size:23 final size:26
Alignment explanation
Indices: 12930176--12930224 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
12930166 TCATACAATA
12930176 ATAATTTTTATTATTTATTTATATAT
1 ATAATTTTTATTATTTATTTATATAT
12930202 ATAATTTTTA-T-TTT-TTTATATAT
1 ATAATTTTTATTATTTATTTATATAT
12930225 GTACATTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 3 0.13
25 1 0.04
26 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
ATAATTTTTATTATTTATTTATATAT
Found at i:12933488 original size:31 final size:29
Alignment explanation
Indices: 12933453--12933523 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
12933443 CTAGTTATTA
12933453 TGGATATTTAATATATCTTGCTTAGCTACTG
1 TGGATA-TT-ATATATCTTGCTTAGCTACTG
*
12933484 TGGATATTGTATATCTTGCTTAGCTACTG
1 TGGATATTATATATCTTGCTTAGCTACTG
*
12933513 TGGATGTTATA
1 TGGATATTATA
12933524 AACATTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 29 0.78
30 2 0.05
31 6 0.16
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (29 bp):
TGGATATTATATATCTTGCTTAGCTACTG
Found at i:12936732 original size:26 final size:26
Alignment explanation
Indices: 12936703--12936757 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
12936693 CAAGATTGAC
* * *
12936703 TTTTAAACACATAGGTATAAGCATCA
1 TTTTAAACACATAGATATAAACACCA
* *
12936729 TTTTAATCTCATAGATATAAACACCA
1 TTTTAAACACATAGATATAAACACCA
12936755 TTT
1 TTT
12936758 AGCATAGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.36
Consensus pattern (26 bp):
TTTTAAACACATAGATATAAACACCA
Found at i:12945435 original size:14 final size:14
Alignment explanation
Indices: 12945418--12945446 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12945408 ATAGGTATAT
12945418 CCCTATCCTATACG
1 CCCTATCCTATACG
12945432 CCCTATCCTATACG
1 CCCTATCCTATACG
12945446 C
1 C
12945447 AAATCAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.45, G:0.07, T:0.28
Consensus pattern (14 bp):
CCCTATCCTATACG
Found at i:12946540 original size:21 final size:22
Alignment explanation
Indices: 12946505--12946548 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
12946495 CTCTTAAAGT
12946505 AATTTAAAATAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
*
12946527 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
12946548 A
1 A
12946549 TTAATCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTAAAATAAAATAACTTAA
Found at i:12953596 original size:73 final size:73
Alignment explanation
Indices: 12953510--12953670 Score: 243
Period size: 73 Copynumber: 2.2 Consensus size: 73
12953500 GAGGTATTGC
* * *
12953510 TAGTCGACTAAGAGCTTATTGCCAAAAACTGAGTTCA-AAGATAGAAACGACTTAATCGACTAAG
1 TAGTCGACTAAGAGCTCACTGCCAAAAACTGAGATCATAAGATAGAAACGACTTAATCGACTAAG
12953574 AAGCAAAGT
66 AAGC-AAGT
* * *
12953583 TAGTCAACTAAGAGCTCACTGCCAAAAGCTGAGATCATAAGATAGAAATGACTTAATCGACTAAG
1 TAGTCGACTAAGAGCTCACTGCCAAAAACTGAGATCATAAGATAGAAACGACTTAATCGACTAAG
*
12953648 AAGCATGT
66 AAGCAAGT
12953656 TAGTCGACTAAGAGC
1 TAGTCGACTAAGAGC
12953671 ATTTTGTTTG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
73 49 0.62
74 30 0.38
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (73 bp):
TAGTCGACTAAGAGCTCACTGCCAAAAACTGAGATCATAAGATAGAAACGACTTAATCGACTAAG
AAGCAAGT
Found at i:12961810 original size:30 final size:30
Alignment explanation
Indices: 12961749--12961820 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
12961739 TTACTTTCTT
* * *
12961749 AACAATCACATTTCTAGTAATCATATCACC
1 AACAATCATATTTCTAATAATCACATCACC
* * *
12961779 AATAATCATATTTCTAATGATCACATTACC
1 AACAATCATATTTCTAATAATCACATCACC
*
12961809 AACAATTATATT
1 AACAATCATATT
12961821 CTCTCTAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.35
Consensus pattern (30 bp):
AACAATCATATTTCTAATAATCACATCACC
Found at i:12967476 original size:10 final size:10
Alignment explanation
Indices: 12967461--12967490 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
12967451 CCTGTTCATA
12967461 TATTTATTAT
1 TATTTATTAT
12967471 TATTTATTAT
1 TATTTATTAT
12967481 TA-TTATTAT
1 TATTTATTAT
12967490 T
1 T
12967491 TAATCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTATTAT
Found at i:12967841 original size:32 final size:32
Alignment explanation
Indices: 12967805--12967876 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
12967795 CTCCTTCTTT
* *
12967805 CTCTCTCTTTCTTCTTCTTTCGCTTTCCTTCC
1 CTCTCTCTTTCTTCTTCTCTCGCCTTCCTTCC
* *
12967837 CTCTCTCTTTCTTCTTCTCTCTCCTTCCTTTC
1 CTCTCTCTTTCTTCTTCTCTCGCCTTCCTTCC
12967869 CTCTCTCT
1 CTCTCTCT
12967877 CGCCACTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.00, C:0.43, G:0.01, T:0.56
Consensus pattern (32 bp):
CTCTCTCTTTCTTCTTCTCTCGCCTTCCTTCC
Found at i:12967872 original size:16 final size:16
Alignment explanation
Indices: 12967829--12967875 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
12967819 TTCTTTCGCT
*
12967829 TTCCTTCCCTCTCT-C
1 TTCCTTTCCTCTCTCC
* *
12967844 TTTCTTCTTCTCTCTCC
1 TTCCTT-TCCTCTCTCC
12967861 TTCCTTTCCTCTCTC
1 TTCCTTTCCTCTCTC
12967876 TCGCCACTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 5 0.20
16 14 0.56
17 6 0.24
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (16 bp):
TTCCTTTCCTCTCTCC
Found at i:12968748 original size:60 final size:60
Alignment explanation
Indices: 12968655--12969807 Score: 999
Period size: 60 Copynumber: 19.2 Consensus size: 60
12968645 ACCTATCTAA
* * * * *
12968655 AAAAAATTGAAATTCCTAGACTTACTCTAGGCTTGACCTATTTCAAAACATGTTCGATTT
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * ** * * *
12968715 TAAAAATTCAAATTT-TCAGACTTAATCTAGGCTTAACCTATCTCAGAATAGGTTTGATTT
1 AAAAAATTGAAATTTCT-AGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * *
12968775 AAAAAATTAAAATTTTTAGACTTAATATAGGCTCGACCTATCTCAAAACAGGTTCGATTT
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * *
12968835 AAAAAATTGAAATTCCTAAACTTAATCTAGGCTCGACCTATC-AAAGAATAGGTTCGACTTA
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAA-AACAGGTTCGA-TTT
* * * * * * *
12968896 AAAAAATTTGAAAATTT-TAAACTTAACCTAGACTCAACCTATCTCAGAATAGGTTGGATTT
1 AAAAAA-TTG-AAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * * *
12968957 AAAAAATTGAAACTCCTAGACTTAATCTAGGCTCAACTTATCT-AAGAATAGATTCGATTT
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAA-AACAGGTTCGATTT
* * * * * * * * * *
12969017 AAAAAAAATAAAATTCCTAGATTTAATCTAGGCTTGCCCAATCTCAAAATAGGTTTGACTT
1 -AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * *
12969078 AAAAAATTGAAATTCCTAGACTTAATCTAGGCTCAACCTATCT-AAGAATAGGTTCAATTT
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAA-AACAGGTTCGATTT
* * * * * *
12969138 AAAAAAATTGAAATTTCTAGACTTAATCTAAGCTTGACCTATCTCAGAATAGGTTCAATTC
1 -AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * * * *
12969199 AAAAAATTAAAATTTCTAGATTTAATTTAGGCTTGACCTAT-TTAAGAATAGATTCGATTTT
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAA-AACAGGTTCGA-TTT
* * * * * *
12969260 AAAAAAATTAAAATTCCTAGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCAATTT
1 -AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * *
12969321 AAAAAATTGAAA-TTCTTAGACTTCATATAGGCTTGACCTAT-TCCACACAGGTTCGATTT
1 AAAAAATTGAAATTTC-TAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * * **
12969380 -AAAGATT-AAATTCCTAGACTTGATCTAGGCTCGACCTATCTCACAACAGATTTTATTT
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * *
12969438 -AAAGATTGAAA-TTCTTAGACTTGATCTAGGCTCGACCTATCTCACAACAAGTTCGACTT
1 AAAAAATTGAAATTTC-TAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * *
12969497 AAAAAATTCAAA-TTCTTAGACTTAATCTAGGCTCAAGCTATCTCAAAACAAGTTTGATTT
1 AAAAAATTGAAATTTC-TAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * ** * * * *
12969557 -AAAAATTGAAATTTTTTGACTTAATCTAGGCTTAACCTATCTCACAATAGGTTTGACTT
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * * * *
12969616 AAAAAATTGAAATTCCTACACTTAATCTGGGCTTGACCTATCTTAAAACAGTTTTGATTT
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * * * *
12969676 -AAAGATTGAAATTCCTAGACTTGATATAGGCTTGACCTATCTCACAACAGGTTCGACTTA
1 AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGA-TTT
* * *
12969736 AAAAGAAGTTGAAATTCCTAAACTTAAT-TGAGGCTCGACCTATCTCAAAACAGGTTTGATTT
1 AAAA-AA-TTGAAATTTCTAGACTTAATCT-AGGCTCGACCTATCTCAAAACAGGTTCGATTT
12969798 -AAAAATTGAA
1 AAAAAATTGAA
12969808 TGCCAACTTA
Statistics
Matches: 900, Mismatches: 162, Indels: 63
0.80 0.14 0.06
Matches are distributed among these distances:
57 25 0.03
58 29 0.03
59 168 0.19
60 413 0.46
61 125 0.14
62 88 0.10
63 52 0.06
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (60 bp):
AAAAAATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTT
Found at i:12968959 original size:182 final size:179
Alignment explanation
Indices: 12968655--12969807 Score: 1095
Period size: 182 Copynumber: 6.4 Consensus size: 179
12968645 ACCTATCTAA
* * * * * *
12968655 AAAAAATTGAAATTCCTAGACTTACTCTAGGCTTGACCTATTTCAAAACATGTTCGATTTTAAAA
1 AAAAAATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCT-AAAATAGGTTCGACTTAAAAA
* * * * *
12968720 ATTCAAATT-TTCAGACTTAATCTAGGCTTAACCTATCTCAGAATAGGTTTGATTTAAAAAATTA
65 ATTGAAATTCCT-AGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCGATTTAAAAAATTG
**
12968784 AAATTTTTAGACTTAATATAGGCTCGACCTATCTCAAAACAGGTTCGATTT
129 AAATTCCTAGACTTAATATAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * *
12968835 AAAAAATTGAAATTCCTAAACTTAATCTAGGCTCGACCTATCAAAGAATAGGTTCGACTTAAAAA
1 AAAAAATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTAA-AATAGGTTCGACTT-AAAA
* * * * *
12968900 AATTTGAAAATT-TTAAACTTAACCTAGACTCAACCTATCTCAGAATAGGTTGGATTTAAAAAAT
64 AA-TTG-AAATTCCTAGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCGATTTAAAAAAT
* * * * * *
12968964 TGAAACTCCTAGACTTAATCTAGGCTCAACTTATCT-AAGAATAGATTCGATTT
127 TGAAATTCCTAGACTTAATATAGGCTCGACCTATCTCAA-AACAGGTTCGATTT
* * * * * *
12969017 AAAAAAAATAAAATTCCTAGATTTAATCTAGGCTTGCCCAATCTCAAAATAGGTTTGACTTAAAA
1 -AAAAAATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCT-AAAATAGGTTCGACTTAAAA
* *
12969082 AATTGAAATTCCTAGACTTAATCTAGGCTCAACCTATCTAAGAATAGGTTCAATTTAAAAAAATT
64 AATTGAAATTCCTAGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCGATTT-AAAAAATT
* * * * * * * *
12969147 GAAATTTCTAGACTTAATCTAAGCTTGACCTATCTCAGAATAGGTTCAATTC
128 GAAATTCCTAGACTTAATATAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * * * *
12969199 AAAAAATTAAAATTTCTAGATTTAATTTAGGCTTGACCTATTTAAGAATAGATTCGATTTTAAAA
1 AAAAAATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTAA-AATAGGTTCGA-CTT-AAA
* *
12969264 AAATTAAAATTCCTAGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCAATTTAAAAAATT
63 AAATTGAAATTCCTAGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCGATTTAAAAAATT
* * * * *
12969329 GAAATTCTTAGACTTCATATAGGCTTGACCTAT-TCCACACAGGTTCGATTT
128 GAAATTCCTAGACTTAATATAGGCTCGACCTATCTCAAAACAGGTTCGATTT
* * * * * * ** * *
12969380 -AAAGATT-AAATTCCTAGACTTGATCTAGGCTCGACCTATCTCACAACAGATTTTA-TTTAAAG
1 AAAAAATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCT-AAAATAGGTTCGACTTAAAAA
* * * * * * * *
12969442 ATTGAAATTCTTAGACTTGATCTAGGCTCGACCTATCTCACAACAAGTTCGACTTAAAAAATTCA
65 ATTGAAATTCCTAGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCGATTTAAAAAATTGA
* * * * * *
12969507 AATTCTTAGACTTAATCTAGGCTCAAGCTATCTCAAAACAAGTTTGATTT
130 AATTCCTAGACTTAATATAGGCTCGACCTATCTCAAAACAGGTTCGATTT
** * * * *
12969557 -AAAAATTGAAATTTTTTGACTTAATCTAGGCTTAACCTATCTCACAATAGGTTTGACTTAAAAA
1 AAAAAATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCT-AAAATAGGTTCGACTTAAAAA
* * ** * * * * * *
12969621 ATTGAAATTCCTACACTTAATCTGGGCTTGACCTATCTTAAAACAGTTTTGATTT-AAAGATTGA
65 ATTGAAATTCCTAGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCGATTTAAAAAATTGA
* * * *
12969685 AATTCCTAGACTTGATATAGGCTTGACCTATCTCACAACAGGTTCGACTTA
130 AATTCCTAGACTTAATATAGGCTCGACCTATCTCAAAACAGGTTCGA-TTT
* * * * *
12969736 AAAAGAAGTTGAAATTCCTAAACTTAAT-TGAGGCTCGACCTATCTCAAAACAGGTTTGA-TTTA
1 AAAA-AA-TTGAAATTCCTAGACTTAATCT-AGGCTTGACCTATCT-AAAATAGGTTCGACTTAA
12969799 AAAATTGAA
62 AAAATTGAA
12969808 TGCCAACTTA
Statistics
Matches: 803, Mismatches: 148, Indels: 43
0.81 0.15 0.04
Matches are distributed among these distances:
176 84 0.10
177 22 0.03
178 84 0.10
179 89 0.11
180 66 0.08
181 121 0.15
182 221 0.28
183 114 0.14
184 2 0.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (179 bp):
AAAAAATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTAAAATAGGTTCGACTTAAAAAA
TTGAAATTCCTAGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCGATTTAAAAAATTGAA
ATTCCTAGACTTAATATAGGCTCGACCTATCTCAAAACAGGTTCGATTT
Found at i:12968964 original size:122 final size:120
Alignment explanation
Indices: 12968654--12969807 Score: 1103
Period size: 122 Copynumber: 9.6 Consensus size: 120
12968644 AACCTATCTA
* * * * * *
12968654 AAAAAAATTGAAATTCCTAGACTTACTCTAGGCTTGACCTATTTCAAAACATGTTCGATTTTAAA
1 AAAAAAATT-AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAAAA
* * * *
12968719 AATTCAAATT-TTCAGACTTAATCTAGGCTTAACCTATCTCAGAATAGGTTTGA-TT
65 AATTGAAATTCCT-AGACTTAATCTAGGCTTGACCTATCTCAGAATAGGTTCGACTT
* ** * *
12968774 TAAAAAATTAAAATTTTTAGACTTAATATAGGCTCGACCTATCTCAAAACAGGTTCGATTTAAAA
1 AAAAAAATT-AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAAAA
* * **
12968839 AATTGAAATTCCTAAACTTAATCTAGGCTCGACCTATCAAAGAATAGGTTCGACTT
65 AATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAGAATAGGTTCGACTT
* * * * * * * *
12968895 AAAAAAATTTGAAAATT-TTAAACTTAACCTAGACTCAACCTATCTCAGAATAGGTTGGATTTAA
1 AAAAAAA-TT--AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAA
* ** * * * *
12968959 AAAATTGAAACTCCTAGACTTAATCTAGGCTCAACTTATCTAAGAATAGATTCGATTT
63 AAAATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAGAATAGGTTCGACTT
* * * * * * *
12969017 AAAAAAAATAAAATTCCTAGATTTAATCTAGGCTTGCCCAATCTCAAAATAGGTTTGACTTAAAA
1 -AAAAAAATTAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAAAA
** * * *
12969082 AATTGAAATTCCTAGACTTAATCTAGGCTCAACCTATCTAAGAATAGGTTCAATTT
65 AATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAGAATAGGTTCGACTT
* * * * * ** *
12969138 AAAAAAATTGAAATTTCTAGACTTAATCTAAGCTTGACCTATCTCAGAATAGGTTCAATTCAAAA
1 AAAAAAATT-AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAAAA
* * * * * * * *
12969203 AATTAAAATTTCTAGATTTAATTTAGGCTTGACCTATTTAAGAATAGATTCGATTTT
65 AATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAGAATAGGTTCGA-CTT
* * * **
12969260 AAAAAAATTAAAATTCCTAGACTTAATCTAGGCTCAACCTATCTCAGAATAGGTTCAATTTAAAA
1 AAAAAAATT-AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAAAA
* * * * *
12969325 AATTGAAATTCTTAGACTTCATATAGGCTTGACCTAT-TCCA-CACAGGTTCGA-TT
65 AATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCT-CAGAATAGGTTCGACTT
* * * * * * *
12969379 -TAAAGATTAAATTCCTAGACTTGATCTAGGCTCGACCTATCTCACAACAGATTTTATTT-AAAG
1 AAAAAAATTAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAAAAA
* * * * * *
12969442 ATTGAAATTCTTAGACTTGATCTAGGCTCGACCTATCTCACAACAAGTTCGACTT
66 ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAGAATAGGTTCGACTT
* * * *
12969497 -AAAAAATTCAAATTCTTAGACTTAATCTAGGCTCAAGCTATCTCAAAACAAGTTTGATTT-AAA
1 AAAAAAATT-AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAAAA
** * * * *
12969560 AATTGAAATTTTTTGACTTAATCTAGGCTTAACCTATCTCACAATAGGTTTGACTT
65 AATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAGAATAGGTTCGACTT
* * * * *
12969616 -AAAAAATTGAAATTCCTACACTTAATCTGGGCTTGACCTATCTTAAAACAGTTTTGATTT-AAA
1 AAAAAAATT-AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAAAA
* * * * *
12969679 GATTGAAATTCCTAGACTTGATATAGGCTTGACCTATCTCACAACAGGTTCGACTT
65 AATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAGAATAGGTTCGACTT
*
12969735 AAAAAGAAGTTGAAATTCCTAAACTTAAT-TGAGGCTCGACCTATCTCAAAACAGGTTTGATTT-
1 AAAAA-AA-TT-AAATTCCTAGACTTAATCT-AGGCTCGACCTATCTCAAAACAGGTTTGATTTA
12969798 AAAAATTGAA
62 AAAAATTGAA
12969808 TGCCAACTTA
Statistics
Matches: 871, Mismatches: 146, Indels: 32
0.83 0.14 0.03
Matches are distributed among these distances:
116 38 0.04
117 54 0.06
118 14 0.02
119 195 0.22
120 115 0.13
121 199 0.23
122 243 0.28
123 13 0.01
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (120 bp):
AAAAAAATTAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCAAAACAGGTTTGATTTAAAAA
ATTGAAATTCCTAGACTTAATCTAGGCTTGACCTATCTCAGAATAGGTTCGACTT
Found at i:12970788 original size:21 final size:21
Alignment explanation
Indices: 12970750--12970789 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12970740 AATCCCTTTC
**
12970750 ATTTTTTTTGTTTATTGTTTT
1 ATTTTTTTCCTTTATTGTTTT
*
12970771 ATTTTTTTCCTTTTTTGTT
1 ATTTTTTTCCTTTATTGTT
12970790 GCTTTTTTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (21 bp):
ATTTTTTTCCTTTATTGTTTT
Found at i:12979354 original size:73 final size:72
Alignment explanation
Indices: 12979180--12979360 Score: 168
Period size: 73 Copynumber: 2.5 Consensus size: 72
12979170 CAGAATGCTC
* * * * *
12979180 TTAGTCGACTAACATTGCTACTTCGTCGATTAAGTCGTCTTTATTTTTTAACCAAGTTTCTGGCA
1 TTAGTCGACTAACATTGCT-CTTAGTCGATTAAGTCGTCTCTATCTCTAAACCAAGTTTCTGGCA
* *
12979245 ATAGGCTC
65 ATAAGCTA
* *** *
12979253 TTAGTCGACTAATAAAACTTCTTAGTCGATTAAGTCGT-TACTGTCTCTAAACCCAA-TTTCTGG
1 TTAGTCGACTAACATTGC-TCTTAGTCGATTAAGTCGTCT-CTATCTCTAAA-CCAAGTTTCTGG
*
12979316 CAGTAAGCTA
63 CAATAAGCTA
* *
12979326 TTAGTCGACTAACATTGTCTCTTGGTCGACTAAGT
1 TTAGTCGACTAACATTG-CTCTTAGTCGATTAAGT
12979361 GTTCTCTGTC
Statistics
Matches: 85, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
72 1 0.01
73 78 0.92
74 6 0.07
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (72 bp):
TTAGTCGACTAACATTGCTCTTAGTCGATTAAGTCGTCTCTATCTCTAAACCAAGTTTCTGGCAA
TAAGCTA
Found at i:12982968 original size:16 final size:18
Alignment explanation
Indices: 12982945--12982991 Score: 71
Period size: 16 Copynumber: 2.7 Consensus size: 18
12982935 TCATTCATAT
*
12982945 ATTTATTATTTTTT-ATT
1 ATTTATTATTTTTTAATC
12982962 A-TTATTATTTTTTAATC
1 ATTTATTATTTTTTAATC
12982979 ATTTATTATTTTT
1 ATTTATTATTTTT
12982992 GGAGCTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 12 0.44
17 4 0.15
18 11 0.41
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTATTATTTTTTAATC
Found at i:12983801 original size:22 final size:22
Alignment explanation
Indices: 12983776--12983828 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
12983766 CCTTTTTTTC
*
12983776 CTTTTTCTTTTTTTATTTCTCT
1 CTTTTTCTTTTTTCATTTCTCT
* * *
12983798 CTTTCTCTTTTTTCCTTTCTTT
1 CTTTTTCTTTTTTCATTTCTCT
12983820 CTTCTTTCT
1 CTT-TTTCT
12983829 CTTTCTTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (22 bp):
CTTTTTCTTTTTTCATTTCTCT
Found at i:12983831 original size:25 final size:25
Alignment explanation
Indices: 12983791--12983857 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 25
12983781 TCTTTTTTTA
12983791 TTTCTCTCTTTCTCTT-TTTTCCTTTC
1 TTTCT-TCTTTCTCTTCTTTTCC-TTC
12983817 TTTCTTCTTTCTCTTTCTTTTCCTTC
1 TTTCTTCTTTCTC-TTCTTTTCCTTC
*
12983843 CTT-TTCTTTCTCTTC
1 TTTCTTCTTTCTCTTC
12983858 CTCCCTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
24 3 0.08
25 17 0.45
26 12 0.32
27 6 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTCTTCTTTCTCTTCTTTTCCTTC
Found at i:12983857 original size:15 final size:15
Alignment explanation
Indices: 12983809--12983859 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
12983799 TTTCTCTTTT
12983809 TTCC-TTTCTTTCTTC
1 TTCCTTTTCTTTC-TC
*
12983824 TTTCTCTTTCTTT-TCC
1 TTCCT-TTTCTTTCT-C
12983840 TTCCTTTTCTTTCTC
1 TTCCTTTTCTTTCTC
12983855 TTCCT
1 TTCCT
12983860 CCCTTTTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 17 0.57
16 6 0.20
17 7 0.23
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCCTTTTCTTTCTC
Found at i:12983864 original size:19 final size:19
Alignment explanation
Indices: 12983823--12983866 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12983813 TTTCTTTCTT
* *
12983823 CTTTCTCTTTCTTTTCCTTC
1 CTTT-TCTTTCTCTTCCTCC
12983843 CTTTTCTTTCTCTTCCTCC
1 CTTTTCTTTCTCTTCCTCC
12983862 CTTTT
1 CTTTT
12983867 TGGCCAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (19 bp):
CTTTTCTTTCTCTTCCTCC
Found at i:12984546 original size:13 final size:13
Alignment explanation
Indices: 12984528--12984556 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
12984518 TTTTGGTTTA
12984528 ATTTATTTATTTT
1 ATTTATTTATTTT
12984541 ATTTATTTATTTT
1 ATTTATTTATTTT
12984554 ATT
1 ATT
12984557 CATAAAGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:12988092 original size:20 final size:20
Alignment explanation
Indices: 12988049--12988091 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
12988039 ATTTTTATGG
12988049 TTTTCAAAATTTATAGATTT
1 TTTTCAAAATTTATAGATTT
12988069 TTTTCAAAAATTTA-A-ATTT
1 TTTTC-AAAATTTATAGATTT
12988088 TTTT
1 TTTT
12988092 TATTGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTCAAAATTTATAGATTT
Found at i:12991877 original size:63 final size:63
Alignment explanation
Indices: 12991768--12991907 Score: 154
Period size: 63 Copynumber: 2.2 Consensus size: 63
12991758 ACACTCATAT
* * * * * * * *
12991768 CCTTAAGAGATATGGAAGTTATATTTTAGCCTCCAGAAGGTGTTGTTAGAGGTTCGCTCTAAG
1 CCTTAAAAGATATGAAAGTTATACTTTAACCTCCAAAAGGTATTGTTAAAGGTTCGATCTAAG
* * * * * *
12991831 CCTTAAAAGATATGAAAGTTATACTTTAACTTTCAAAAGTTATTGTTAAATGTTCTATGTAAG
1 CCTTAAAAGATATGAAAGTTATACTTTAACCTCCAAAAGGTATTGTTAAAGGTTCGATCTAAG
12991894 CCTTAAAAGATATG
1 CCTTAAAAGATATG
12991908 TTGCATTGGT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (63 bp):
CCTTAAAAGATATGAAAGTTATACTTTAACCTCCAAAAGGTATTGTTAAAGGTTCGATCTAAG
Found at i:12995220 original size:11 final size:11
Alignment explanation
Indices: 12995204--12995235 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
12995194 CGGTGAAATT
12995204 ACCAAGCTTTC
1 ACCAAGCTTTC
12995215 ACCAAGCTTTC
1 ACCAAGCTTTC
12995226 ACCAAGCTTT
1 ACCAAGCTTT
12995236 TACAATGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.34, G:0.09, T:0.28
Consensus pattern (11 bp):
ACCAAGCTTTC
Found at i:12995276 original size:35 final size:35
Alignment explanation
Indices: 12995237--12995312 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
12995227 CCAAGCTTTT
12995237 ACAATGGCTTTTCACAA-GCTCAGCCACAACCTTCA
1 ACAATGGCTTTTCA-AAGGCTCAGCCACAACCTTCA
12995272 ACAATGGCTTTTCAAAGGCTCAGCCACAACCTTCA
1 ACAATGGCTTTTCAAAGGCTCAGCCACAACCTTCA
12995307 ACAATG
1 ACAATG
12995313 ATTTTTCTCG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 2 0.05
35 38 0.95
ACGTcount: A:0.33, C:0.32, G:0.13, T:0.22
Consensus pattern (35 bp):
ACAATGGCTTTTCAAAGGCTCAGCCACAACCTTCA
Found at i:13003212 original size:35 final size:36
Alignment explanation
Indices: 13003138--13003214 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
13003128 CCATGCTTTT
*
13003138 ACAATGGCTTTTCACAAGCTCAGCCACAAACCTTCA
1 ACAATGGCTTTCCACAAGCTCAGCCACAAACCTTCA
13003174 ACAATGGCTTTCCA-AAGGCTCAGCCAC-AACCTTCA
1 ACAATGGCTTTCCACAA-GCTCAGCCACAAACCTTCA
13003209 ACAATG
1 ACAATG
13003215 ATTTTTTCGG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 16 0.41
36 23 0.59
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (36 bp):
ACAATGGCTTTCCACAAGCTCAGCCACAAACCTTCA
Found at i:13007321 original size:40 final size:40
Alignment explanation
Indices: 13007261--13007385 Score: 169
Period size: 46 Copynumber: 3.0 Consensus size: 40
13007251 AAATTGAACT
13007261 TCGACTTTGTGAAGCTTGAGGGTGAGAGATTATAGAATCA
1 TCGACTTTGTGAAGCTTGAGGGTGAGAGATTATAGAATCA
* *
13007301 TCGAGTTTGTGAAGCTTGAGGGTGAAGGTAAGAGATTATAGAATCG
1 TCGACTTTGTGAAGCTTGAGGGT----G--AGAGATTATAGAATCA
*
13007347 TCGACTTTGTGAAGCTTGAGGGTGAGAGATTAGAGAATC
1 TCGACTTTGTGAAGCTTGAGGGTGAGAGATTATAGAATC
13007386 GTGCTGATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
40 36 0.48
42 1 0.01
44 1 0.01
46 37 0.49
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.29
Consensus pattern (40 bp):
TCGACTTTGTGAAGCTTGAGGGTGAGAGATTATAGAATCA
Found at i:13007386 original size:40 final size:40
Alignment explanation
Indices: 13007261--13007387 Score: 173
Period size: 40 Copynumber: 3.0 Consensus size: 40
13007251 AAATTGAACT
*
13007261 TCGACTTTGTGAAGCTTGAGGGTGAGAGATTATAGAATCA
1 TCGACTTTGTGAAGCTTGAGGGTGAGAGATTATAGAATCG
*
13007301 TCGAGTTTGTGAAGCTTGAGGGTGAAGGTAAGAGATTATAGAATCG
1 TCGACTTTGTGAAGCTTGAGGGT----G--AGAGATTATAGAATCG
*
13007347 TCGACTTTGTGAAGCTTGAGGGTGAGAGATTAGAGAATCG
1 TCGACTTTGTGAAGCTTGAGGGTGAGAGATTATAGAATCG
13007387 T
1 T
13007388 GCTGATAACG
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
40 38 0.49
42 1 0.01
44 1 0.01
46 37 0.48
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (40 bp):
TCGACTTTGTGAAGCTTGAGGGTGAGAGATTATAGAATCG
Found at i:13011555 original size:5 final size:5
Alignment explanation
Indices: 13011532--13011685 Score: 65
Period size: 5 Copynumber: 31.4 Consensus size: 5
13011522 CTGTTATACT
* * * *
13011532 TAAAA TAAAA -AATAT TAAAA TAAAA T-ATA TAATA TAAGAA T-AAA -AAAT
1 TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA
* ** * **
13011580 TAAAA TAAAA TAAAA TATAAA -AAAT TAAAA T-TTA TATAA TATAGG TAAAA
1 TAAAA TAAAA TAAAA TA-AAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAAA
* * * *
13011630 TAAAA TAAAA TAAAA T-ATA TAATA TAAAA -AATA TATTAA -AAAA TAAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAAA T-AAAA
13011679 TAAAA TA
1 TAAAA TA
13011686 TATAAGATTA
Statistics
Matches: 112, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
4 21 0.19
5 76 0.68
6 15 0.13
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (5 bp):
TAAAA
Found at i:13011587 original size:33 final size:32
Alignment explanation
Indices: 13011532--13011721 Score: 131
Period size: 33 Copynumber: 5.9 Consensus size: 32
13011522 CTGTTATACT
*
13011532 TAAAATAAAAAATATTAAAATAAAATATATAATA
1 TAAAAT-AAAAA-ATTAAAATAAAATATATAAAA
*
13011566 TAAGAATAAAAAATTAAAATAAAATA-A-AATA
1 TAA-AATAAAAAATTAAAATAAAATATATAAAA
* * * **
13011597 TAAAA-AATTAAAATTTATATAATATAGGTAAAA
1 TAAAATAA--AAAATTAAAATAAAATATATAAAA
*
13011630 TAAAAT--AAAA-TAAAATATATAATATAAAAAA
1 TAAAATAAAAAATTAAAATA-A-AATATATAAAA
* * * *
13011661 TATATTAAAAAATAAAAATAAAATATATAAGAT
1 TAAAATAAAAAATTAAAATAAAATATATAA-AA
* * *
13011694 TATAATAATAAATGAAAATAAAATATAT
1 TAAAATAAAAAATTAAAATAAAATATAT
13011722 GACATTAAAA
Statistics
Matches: 125, Mismatches: 19, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
29 7 0.06
30 7 0.06
31 32 0.26
32 9 0.07
33 53 0.42
34 14 0.11
35 3 0.02
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (32 bp):
TAAAATAAAAAATTAAAATAAAATATATAAAA
Found at i:13011591 original size:26 final size:24
Alignment explanation
Indices: 13011532--13011720 Score: 91
Period size: 26 Copynumber: 7.4 Consensus size: 24
13011522 CTGTTATACT
* *
13011532 TAAAATAAAAAATATTAAAATAAAA
1 TAAAATATAAAATA-AAAAATAAAA
13011557 TATATAATATAAGAATAAAAAATTAAAA
1 TA-A-AATATAA-AATAAAAAA-TAAAA
13011585 TAAAATA-AAATATAAAAAATTAAAA
1 TAAAATATAAA-ATAAAAAA-TAAAA
*
13011610 TTTATATAATATAGGTAAA-ATAAAATAAAA
1 --TA-A-AATATA---AAATAAAAAATAAAA
* *
13011640 TAAAATATATAATATAAAAAATATAT
1 TAAAATATA-AA-ATAAAAAATAAAA
* * *
13011666 TAAAAAATAAAA-ATAAAAT-ATA
1 TAAAATATAAAATAAAAAATAAAA
* * *
13011688 TAAGAT-TATAATAATAAATGAAAA
1 TAAAATATAAAATAAAAAAT-AAAA
13011712 TAAAATATA
1 TAAAATATA
13011721 TGACATTAAA
Statistics
Matches: 127, Mismatches: 18, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
21 4 0.03
22 9 0.07
23 6 0.05
24 12 0.09
25 23 0.18
26 27 0.21
27 14 0.11
28 14 0.11
29 4 0.03
30 6 0.05
31 5 0.04
32 1 0.01
33 2 0.02
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (24 bp):
TAAAATATAAAATAAAAAATAAAA
Found at i:13011695 original size:28 final size:28
Alignment explanation
Indices: 13011664--13011732 Score: 66
Period size: 33 Copynumber: 2.3 Consensus size: 28
13011654 TAAAAAATAT
*
13011664 ATTAAAAAATAAAAATAAAATATATAAG
1 ATTAAAAAATAAAAATAAAATATATAAC
* *
13011692 ATTATAATAATAAATGAAAATAAAATATATGAC
1 A-T-T-A-AA-AAATAAAAATAAAATATATAAC
13011725 ATTAAAAA
1 ATTAAAAA
13011733 TATATTTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
28 3 0.09
29 3 0.09
30 2 0.06
31 2 0.06
32 3 0.09
33 20 0.61
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (28 bp):
ATTAAAAAATAAAAATAAAATATATAAC
Found at i:13011712 original size:39 final size:36
Alignment explanation
Indices: 13011627--13011716 Score: 92
Period size: 39 Copynumber: 2.4 Consensus size: 36
13011617 AATATAGGTA
*
13011627 AAATAAAAT-AAAATAAAATATATAATATAAAAAAT
1 AAATAAAATAAAAATAAAATATATAAGATAAAAAAT
* *
13011662 ATATTAAAAAATAAAAATAAAATATATAAGATTATAATAAT
1 A-A--ATAAAATAAAAATAAAATATATAAGA-TA-AAAAAT
13011703 AAATGAAAATAAAA
1 AAAT-AAAATAAAA
13011717 TATATGACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
35 1 0.02
36 1 0.02
38 7 0.16
39 26 0.59
40 3 0.07
41 6 0.14
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (36 bp):
AAATAAAATAAAAATAAAATATATAAGATAAAAAAT
Found at i:13011957 original size:15 final size:15
Alignment explanation
Indices: 13011937--13011993 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
13011927 TTATTTTCGC
**
13011937 TGCAATCACATTGTT
1 TGCAATCACATTACT
*
13011952 TGCAATCATATTACT
1 TGCAATCACATTACT
* *
13011967 TACAATCACATTACC
1 TGCAATCACATTACT
*
13011982 TGTAATCACATT
1 TGCAATCACATT
13011994 GCATTGTAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (15 bp):
TGCAATCACATTACT
Found at i:13012552 original size:6 final size:6
Alignment explanation
Indices: 13012541--13012576 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
13012531 TAAGACAATT
13012541 GAAAAA GAAAAA GAAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA G-AAAAA GAAAAA GAAAAA GAAAA
13012577 TGAGAAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:13012558 original size:13 final size:12
Alignment explanation
Indices: 13012541--13012576 Score: 63
Period size: 13 Copynumber: 2.9 Consensus size: 12
13012531 TAAGACAATT
13012541 GAAAAAGAAAAA
1 GAAAAAGAAAAA
13012553 GAAAAAAGAAAAA
1 G-AAAAAGAAAAA
13012566 GAAAAAGAAAA
1 GAAAAAGAAAA
13012577 TGAGAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAAAA
Found at i:13013859 original size:16 final size:16
Alignment explanation
Indices: 13013838--13013868 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13013828 AAGTTATTAT
*
13013838 GTAGAAGTAGAATAAG
1 GTAGAAATAGAATAAG
13013854 GTAGAAATAGAATAA
1 GTAGAAATAGAATAA
13013869 AAGAGATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (16 bp):
GTAGAAATAGAATAAG
Found at i:13014444 original size:22 final size:21
Alignment explanation
Indices: 13014416--13014462 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
13014406 TATGTTTAAT
*
13014416 TTAATAATTTATTATTAAAGTA
1 TTAATAATTTATTA-TAAAATA
*
13014438 TTAATAATTTGTTATAAAATA
1 TTAATAATTTATTATAAAATA
13014459 TTAA
1 TTAA
13014463 AATAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
TTAATAATTTATTATAAAATA
Found at i:13014568 original size:141 final size:143
Alignment explanation
Indices: 13014291--13014584 Score: 384
Period size: 141 Copynumber: 2.0 Consensus size: 143
13014281 AATTTCTTTT
* * * *
13014291 TTAATAAAATGTTACTAAAATATTAATATGATATTTATGTTAATTTCTTTTTATTTTTTGCCTAT
1 TTAATAAAATGTTACTAAAATATTAAAATAATATTTATGTTAATTTCTTTTTAGTTTTTACCTAT
13014356 TTTCATTTTCCTTTTTTCTCTTTTAATTTCTTTTTTTAAAATATTAAAAATATGTTTAATTTAAT
66 TTTCATTTTCCTTTTTTCTCTTTTAATTTC--TTTTT--AATATTAAAAATATGTTTAATTTAAT
*
13014421 AATTTATTATTAAAGTA
127 AATTTATTATTAAAATA
** * *
13014438 TTAATAATTTGTTA-TAAAATATTAAAATAACT-TTTATTTTAATTTCTTATTTAGTTTTTATCT
1 TTAATAAAATGTTACTAAAATATTAAAATAA-TATTTATGTTAATTTCTT-TTTAGTTTTTACCT
*
13014501 ATTTTCATTTTTCCTTTTTTCTCTTTTAATTTC-TTTT-ATGTT-AAAATAT-TATTAATTTAAT
64 ATTTTCA-TTTTCCTTTTTTCTCTTTTAATTTCTTTTTAATATTAAAAATATGT-TTAATTTAAT
13014562 AATTTATTATTAAAATA
127 AATTTATTATTAAAATA
13014579 TTAATA
1 TTAATA
13014585 TGATATTTTA
Statistics
Matches: 133, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
140 1 0.01
141 39 0.29
142 4 0.03
145 4 0.03
146 29 0.22
147 31 0.23
148 25 0.19
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.57
Consensus pattern (143 bp):
TTAATAAAATGTTACTAAAATATTAAAATAATATTTATGTTAATTTCTTTTTAGTTTTTACCTAT
TTTCATTTTCCTTTTTTCTCTTTTAATTTCTTTTTAATATTAAAAATATGTTTAATTTAATAATT
TATTATTAAAATA
Found at i:13014983 original size:4 final size:4
Alignment explanation
Indices: 13014976--13015000 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13014966 TATATATATA
13014976 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
13015001 GTATTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:13020304 original size:17 final size:17
Alignment explanation
Indices: 13020272--13020305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13020262 TCTCCCTCCT
*
13020272 CACTCCCCCACCCCCCC
1 CACTCCCCCAACCCCCC
*
13020289 CACTCCCCCAAGCCCCC
1 CACTCCCCCAACCCCCC
13020306 TGACCCTCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.76, G:0.03, T:0.06
Consensus pattern (17 bp):
CACTCCCCCAACCCCCC
Found at i:13026979 original size:26 final size:25
Alignment explanation
Indices: 13026950--13027057 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 25
13026940 ATTAAAATAA
13026950 AAAATATAATATAAGAATAAAAAATT
1 AAAATATAATATAA-AATAAAAAATT
*
13026976 AAAATAAAATA-AAATATAAAAAATT
1 AAAATATAATATAAA-ATAAAAAATT
* *
13027001 AAAAT-TTATATAATATGGATAAAAGTATTT
1 AAAATATAATATAA-A---ATAAAA--AATT
*
13027031 AAAATAAAATATAAATATAAAAAATT
1 AAAATATAATATAAA-ATAAAAAATT
13027057 A
1 A
13027058 TATTAAAGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
24 4 0.06
25 19 0.29
26 15 0.23
28 12 0.18
30 9 0.14
31 6 0.09
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAATATAATATAAAATAAAAAATT
Found at i:13026996 original size:50 final size:54
Alignment explanation
Indices: 13026943--13027055 Score: 133
Period size: 53 Copynumber: 2.1 Consensus size: 54
13026933 TGTTATAATT
*
13026943 AAAATAAAAAATATA-ATATAAGAATAAAA-AATTAAAATAAAATA-AAATATAA
1 AAAATAAAATATATATA-ATAAGAATAAAAGAATTAAAATAAAATATAAATATAA
* * * *
13026995 AAAATTAAAATTTATATAATATGGATAAAAGTATTTAAAATAAAATATAAATATAA
1 AAAA-TAAAATATATATAATAAGAATAAAAG-AATTAAAATAAAATATAAATATAA
13027051 AAAAT
1 AAAAT
13027056 TATATTAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
52 4 0.08
53 19 0.37
54 1 0.02
55 15 0.29
56 12 0.24
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (54 bp):
AAAATAAAATATATATAATAAGAATAAAAGAATTAAAATAAAATATAAATATAA
Found at i:13027004 original size:33 final size:33
Alignment explanation
Indices: 13026939--13027004 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
13026929 ATAATGTTAT
* *
13026939 AATTAAAATAAAAAATATAATATAAGAATAAAA
1 AATTAAAATAAAAAAAATAATATAAAAATAAAA
*
13026972 AATTAAAATAAAATAAAAT-ATA-AAAAATTAAA
1 AATTAAAATAAAA-AAAATAATATAAAAATAAAA
13027004 A
1 A
13027005 TTTATATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 9 0.31
33 16 0.55
34 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (33 bp):
AATTAAAATAAAAAAAATAATATAAAAATAAAA
Found at i:13027078 original size:55 final size:53
Alignment explanation
Indices: 13026960--13027117 Score: 131
Period size: 55 Copynumber: 2.9 Consensus size: 53
13026950 AAAATATAAT
* * * * *
13026960 ATAAGAATAAAA-AATTAAAATAAAATA-AAATATAAAAAATTAAAATTTATATA
1 ATAAAAATAAAATATTTAAAATAAAATATAAATATAAAAAATT-ATA-TTAAAAA
***
13027013 ATATGGATAAAAGTATTTAAAATAAAATATAAATATAAAAAATTATATTAAAGAA
1 ATAAAAATAAAA-TATTTAAAATAAAATATAAATATAAAAAATTATATTAAA-AA
* * * *
13027068 ATAAAAATAAAATATATAAAATTATAATAATAAATAAAAATAAAATATAT
1 ATAAAAATAAAATATTTAAAA-TAAAAT-ATAAATATAAA-AAATTATAT
13027118 GACATTAAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
53 10 0.12
54 12 0.14
55 31 0.36
56 24 0.28
57 8 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (53 bp):
ATAAAAATAAAATATTTAAAATAAAATATAAATATAAAAAATTATATTAAAAA
Found at i:13027081 original size:34 final size:33
Alignment explanation
Indices: 13027032--13027116 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 33
13027022 AAAGTATTTA
*
13027032 AAAT-AAAATATAAATATAAAAAATTATATTAAAG
1 AAATAAAAATA-AAATATAAAAAATTATAAT-AAG
* *
13027066 AAATAAAAATAAAATATATAAAATTATAATAAT
1 AAATAAAAATAAAATATAAAAAATTATAATAAG
13027099 AAATAAAAATAAAATATA
1 AAATAAAAATAAAATATA
13027117 TGACATTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 20 0.43
34 21 0.45
35 6 0.13
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (33 bp):
AAATAAAAATAAAATATAAAAAATTATAATAAG
Found at i:13027103 original size:33 final size:34
Alignment explanation
Indices: 13027032--13027117 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 34
13027022 AAAGTATTTA
* *
13027032 AAAT-AAAATATAAATATAAAAAATTATATTAAAG
1 AAATAAAAATA-AAATATATAAAATTATAATAAAG
*
13027066 AAATAAAAATAAAATATATAAAATTATAAT-AAT
1 AAATAAAAATAAAATATATAAAATTATAATAAAG
13027099 AAATAAAAATAAAATATAT
1 AAATAAAAATAAAATATAT
13027118 GACATTAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 21 0.44
34 21 0.44
35 6 0.12
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (34 bp):
AAATAAAAATAAAATATATAAAATTATAATAAAG
Found at i:13027871 original size:32 final size:32
Alignment explanation
Indices: 13027835--13027898 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
13027825 CATTCAGCTA
* *
13027835 TCTTCATGTCGGTCCTCATGCATTATTATTAT
1 TCTTCATGTCAGTCCGCATGCATTATTATTAT
*
13027867 TCTTCATGTCAGTCGGCATGCATTATTATTAT
1 TCTTCATGTCAGTCCGCATGCATTATTATTAT
13027899 CTATATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (32 bp):
TCTTCATGTCAGTCCGCATGCATTATTATTAT
Found at i:13028903 original size:23 final size:21
Alignment explanation
Indices: 13028865--13028911 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
13028855 AAACATAATA
*
13028865 TTTAAAAAATTTTGAATTATT
1 TTTAAAAAATTATGAATTATT
*
13028886 TTTAAAAAATTAAATGAATTTTT
1 TTTAAAAAATT--ATGAATTATT
13028909 TTT
1 TTT
13028912 TATTTTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
23 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTAAAAAATTATGAATTATT
Found at i:13036402 original size:2 final size:2
Alignment explanation
Indices: 13036395--13036430 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13036385 GAACTGTAAT
13036395 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13036431 GATCAACAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13042481 original size:24 final size:24
Alignment explanation
Indices: 13042434--13042482 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
13042424 ATTATATATT
* * *
13042434 AATAATATTTAAATTTTTTTAAAA
1 AATAATATTTAAATATTATCAAAA
13042458 AATAATATTTAAATATTATCAAAA
1 AATAATATTTAAATATTATCAAAA
13042482 A
1 A
13042483 GTAGATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AATAATATTTAAATATTATCAAAA
Found at i:13048085 original size:36 final size:37
Alignment explanation
Indices: 13048038--13048108 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
13048028 AGTTGCTCAG
13048038 AGGGAAAATTTAAGGAGT-TAAGTTCGAGCGGAAGCA
1 AGGGAAAATTTAAGGAGTGTAAGTTCGAGCGGAAGCA
* * *
13048074 AGGGAAAATTTATGGAGTGTAAGTTTGAGTGGAAG
1 AGGGAAAATTTAAGGAGTGTAAGTTCGAGCGGAAG
13048109 TTATGTTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 17 0.55
37 14 0.45
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (37 bp):
AGGGAAAATTTAAGGAGTGTAAGTTCGAGCGGAAGCA
Found at i:13056765 original size:22 final size:21
Alignment explanation
Indices: 13056739--13056901 Score: 139
Period size: 22 Copynumber: 7.4 Consensus size: 21
13056729 GCGTATAATA
*
13056739 ATTTTTGAACTTGCGTTTAAC
1 ATTTTTGAACTTGCGTGTAAC
**
13056760 ATTTTTGAACAAGCCGTGTAAC
1 ATTTTTGAACTTG-CGTGTAAC
*
13056782 AATTTTTGAACTTGCGTCTAAC
1 -ATTTTTGAACTTGCGTGTAAC
**
13056804 ATTTTTGAACAAGGCGTGTAAC
1 ATTTTTGAAC-TTGCGTGTAAC
* *
13056826 AATTTTTTAACTTGTGTGTAAC
1 -ATTTTTGAACTTGCGTGTAAC
*
13056848 ATTTTTGAA-TATGACATGTAAC
1 ATTTTTGAACT-TG-CGTGTAAC
* * *
13056870 ATTTTTTAAACATGGCATGTAAC
1 A-TTTTTGAAC-TTGCGTGTAAC
13056893 ATTTTTGAA
1 ATTTTTGAA
13056902 AAATGGGGTG
Statistics
Matches: 114, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.01
21 31 0.27
22 44 0.39
23 36 0.32
24 1 0.01
25 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (21 bp):
ATTTTTGAACTTGCGTGTAAC
Found at i:13056786 original size:44 final size:44
Alignment explanation
Indices: 13056706--13056901 Score: 203
Period size: 44 Copynumber: 4.4 Consensus size: 44
13056696 TTAGCACAAG
* * * * * *
13056706 GCGTGTAACACATTGTGAACATGGCGTATAATAATTTTTGAACTT
1 GCGTGTAACA-TTTTTGAACAAGACGTGTAACAATTTTTGAACTT
* *
13056751 GCGTTTAACATTTTTGAACAAGCCGTGTAACAATTTTTGAACTT
1 GCGTGTAACATTTTTGAACAAGACGTGTAACAATTTTTGAACTT
* * *
13056795 GCGTCTAACATTTTTGAACAAGGCGTGTAACAATTTTTTAACTT
1 GCGTGTAACATTTTTGAACAAGACGTGTAACAATTTTTGAACTT
* * * * * * *
13056839 GTGTGTAACATTTTTGAATATGACATGTAACATTTTTTAAACATG
1 GCGTGTAACATTTTTGAACAAGACGTGTAACAATTTTTGAAC-TT
*
13056884 GCATGTAACATTTTTGAA
1 GCGTGTAACATTTTTGAA
13056902 AAATGGGGTG
Statistics
Matches: 129, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
44 103 0.80
45 26 0.20
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (44 bp):
GCGTGTAACATTTTTGAACAAGACGTGTAACAATTTTTGAACTT
Found at i:13056870 original size:88 final size:89
Alignment explanation
Indices: 13056721--13056917 Score: 225
Period size: 88 Copynumber: 2.2 Consensus size: 89
13056711 TAACACATTG
* * * * * *
13056721 TGAACATGGCGTATAATAATTTTTGAACTTGCGTTTAACATTTTTGAACAAGCCGTGTAACAATT
1 TGAACAAGGCGTGTAACAATTTTTGAACTTGCGTGTAACATTTTTGAACAAGACATGTAACAATT
* * *
13056786 TTTGAAC-TTGCGTCTAACATTTT
66 TTTAAACATGGCATCTAACATTTT
* * * * *
13056809 TGAACAAGGCGTGTAACAATTTTTTAACTTGTGTGTAACATTTTTGAATATGACATGTAACATTT
1 TGAACAAGGCGTGTAACAATTTTTGAACTTGCGTGTAACATTTTTGAACAAGACATGTAACAATT
*
13056874 TTTAAACATGGCATGTAACATTTT
66 TTTAAACATGGCATCTAACATTTT
* *
13056898 TGAAAAATGGGGTGTAACAA
1 TGAACAA-GGCGTGTAACAA
13056918 CATGACTGAC
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
88 60 0.67
89 19 0.21
90 11 0.12
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (89 bp):
TGAACAAGGCGTGTAACAATTTTTGAACTTGCGTGTAACATTTTTGAACAAGACATGTAACAATT
TTTAAACATGGCATCTAACATTTT
Found at i:13056907 original size:23 final size:23
Alignment explanation
Indices: 13056842--13056916 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
13056832 TTAACTTGTG
* *
13056842 TGTAACATTTTTG-AATATGACA
1 TGTAACATTTTTGAAAAATGGCA
* *
13056864 TGTAACATTTTTTAAACATGGCA
1 TGTAACATTTTTGAAAAATGGCA
**
13056887 TGTAACATTTTTGAAAAATGGGG
1 TGTAACATTTTTGAAAAATGGCA
13056910 TGTAACA
1 TGTAACA
13056917 ACATGACTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 12 0.27
23 33 0.73
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.37
Consensus pattern (23 bp):
TGTAACATTTTTGAAAAATGGCA
Found at i:13062776 original size:21 final size:21
Alignment explanation
Indices: 13062752--13062797 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
13062742 ATGAAGTTAG
*
13062752 AGATGAAGAATGTTTAAATGA
1 AGATGAAGAAGGTTTAAATGA
13062773 AGATGAAGAAGGTTTAAATGA
1 AGATGAAGAAGGTTTAAATGA
13062794 AGAT
1 AGAT
13062798 TATTTTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (21 bp):
AGATGAAGAAGGTTTAAATGA
Found at i:13064643 original size:24 final size:24
Alignment explanation
Indices: 13064610--13064660 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
13064600 CTATGCGCCA
* *
13064610 TGAATAAGGTTGTATACACTTACT
1 TGAATAAGGTTGTATACAATCACT
* *
13064634 TGAATGAGGTTGTTTACAATCACT
1 TGAATAAGGTTGTATACAATCACT
13064658 TGA
1 TGA
13064661 TGTCAAGCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (24 bp):
TGAATAAGGTTGTATACAATCACT
Found at i:13066531 original size:31 final size:31
Alignment explanation
Indices: 13066433--13066915 Score: 279
Period size: 31 Copynumber: 15.6 Consensus size: 31
13066423 CTTGTGGGGG
* *
13066433 CACGCTGAGTGGTAGCAAATTTATGGAGTGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
***
13066464 CACGGAAAGTGGTAGCA-ACTTTATAGG-GTGA
1 CACGCTGAGTGGTAGCAGA-TTTAT-GGCGTGA
* * *
13066495 CACGCTAAGTGGTAGTAGATTTATGGTGTGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
** *
13066526 CACGCTGAGTACTGGCAGATTTATGGCGTGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
* * * *
13066557 CATGCTGAGTGTTGGC-GATTTTATGGCATGA
1 CACGCTGAGTGGTAGCAGA-TTTATGGCGTGA
* ** * *
13066588 CACGTTTTGTGGTAGCAGATTTAAGGTGTGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
** * * *
13066619 CACATTGAGTGGTAGTAGATTTATGGGGTAA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
* * *
13066650 CATGCTGAGTGGTAGCAGATTTATGGGGTAA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
* ** *
13066681 CATGCTGAGTGGTAGCAGATTTATACCATGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
** * * ** *
13066712 CATACTGAGTGCTAGTAGATTTATAACATGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
* * * * * * * * *
13066743 CAAGCTAAGCGCTGGTAAATTTATGACATGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
* * * ** ***
13066774 CACACTGTGTAGTAATAGATTTACAACGTGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
* * *
13066805 CACGTTGAGTGGTAGCAGATTTGTGGGGTGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
* ** **
13066836 CATGCTGAGTGGTAGCAGATTTAAAGTATGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
* ** * *
13066867 CATGCTGAGTGAAAGTAGATTTATGACGTGA
1 CACGCTGAGTGGTAGCAGATTTATGGCGTGA
* *
13066898 CACGCTAACTGGTAGCAG
1 CACGCTGAGTGGTAGCAG
13066916 TATTGAGGTC
Statistics
Matches: 349, Mismatches: 97, Indels: 12
0.76 0.21 0.03
Matches are distributed among these distances:
30 5 0.01
31 339 0.97
32 5 0.01
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (31 bp):
CACGCTGAGTGGTAGCAGATTTATGGCGTGA
Done.