Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 27 of 121
Found at i:4731274 original size:6 final size:6
Alignment explanation
Indices: 4731219--4731275 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
4731209 AGATATACAT
* * * * * *
4731219 AATAAT AATAAA TATAAA AATACA AAGAAA AAAAAA AAGAAA AA-AAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
4731266 AATAAA AATA
1 AATAAA AATA
4731276 CATGATTGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
5 5 0.12
6 37 0.88
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.14
Consensus pattern (6 bp):
AATAAA
Found at i:4731345 original size:20 final size:19
Alignment explanation
Indices: 4731308--4731361 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
4731298 ATTTGGGCCA
* *
4731308 GCCCAAATGTCTGGGTCAG
1 GCCCAATTGTCCGGGTCAG
4731327 GCCCAATTGATCCGGGTCAG
1 GCCCAATTG-TCCGGGTCAG
4731347 GCCCAATTGTCCGGG
1 GCCCAATTGTCCGGG
4731362 CGGACCTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.19, C:0.30, G:0.31, T:0.20
Consensus pattern (19 bp):
GCCCAATTGTCCGGGTCAG
Found at i:4731479 original size:1 final size:1
Alignment explanation
Indices: 4731475--4731549 Score: 96
Period size: 1 Copynumber: 75.0 Consensus size: 1
4731465 TTATTTTTGA
* ** * * *
4731475 TTTTTTTTTTTTATTTTTTTTTTTTTTTTTTTTTTGATTTTTTTTTGTTTTTTTTTATTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4731540 TTTTTTTTTT
1 TTTTTTTTTT
4731550 GGCCGAAGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.04, C:0.00, G:0.04, T:0.92
Consensus pattern (1 bp):
T
Found at i:4731487 original size:20 final size:19
Alignment explanation
Indices: 4731462--4731550 Score: 119
Period size: 20 Copynumber: 4.6 Consensus size: 19
4731452 CAACTCAACA
*
4731462 TTTTTATTTTTGATTTTTT
1 TTTTTTTTTTTGATTTTTT
4731481 TTTTTTATTTTT--TTTTTT
1 TTTTTT-TTTTTGATTTTTT
4731499 TTTTTTTTTTTGATTTTTT
1 TTTTTTTTTTTGATTTTTT
*
4731518 TTTGTTTTTTTTTATTTTTT
1 TTT-TTTTTTTTGATTTTTT
4731538 TGTTTTTTTTTTG
1 T-TTTTTTTTTTG
4731551 GCCGAAGCTC
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.08
18 12 0.19
19 14 0.23
20 29 0.47
21 2 0.03
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.89
Consensus pattern (19 bp):
TTTTTTTTTTTGATTTTTT
Found at i:4731530 original size:44 final size:43
Alignment explanation
Indices: 4731462--4731549 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
4731452 CAACTCAACA
*
4731462 TTTTTATTTTTGATTTTTTTTTTTTATTTTTTTTTTTTTTTTT
1 TTTTTATTTTTGATTTTTTTTTTTTATTTTTTTGTTTTTTTTT
*
4731505 TTTTTGATTTTT-TTTTGTTTTTTTTTATTTTTTTGTTTTTTTTT
1 TTTTT-ATTTTTGATTT-TTTTTTTTTATTTTTTTGTTTTTTTTT
4731549 T
1 T
4731550 GGCCGAAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 8 0.20
44 33 0.80
ACGTcount: A:0.06, C:0.00, G:0.05, T:0.90
Consensus pattern (43 bp):
TTTTTATTTTTGATTTTTTTTTTTTATTTTTTTGTTTTTTTTT
Found at i:4731785 original size:117 final size:118
Alignment explanation
Indices: 4731557--4732107 Score: 961
Period size: 117 Copynumber: 4.7 Consensus size: 118
4731547 TTTGGCCGAA
**
4731557 GCTCCTCTAAACAGGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
1 GCTCCTCTAAACA-GAGGCAACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
4731619 ACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGACTTTGAAAAAGTAAATT
64 ACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCAACGACTTTG-AAAAGTAAATT
4731675 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
1 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
4731740 TTTGAAAATAAATTGCTCCTCTAAACAGAGGC-ACGACTTTGAAAAGTAAATT
66 TTTGAAAATAAATTGCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
4731792 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
1 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
4731857 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC-ACGACTTTGAAAA-TAAATT
66 TTTGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
4731909 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
1 GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
4731974 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
66 TTTGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
4732028 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
4732093 ACTTTGGAAATAAAT
64 ACTTTGAAAATAAAT
4732108 ACTCCTAGAC
Statistics
Matches: 421, Mismatches: 4, Indels: 14
0.96 0.01 0.03
Matches are distributed among these distances:
116 4 0.01
117 226 0.54
118 72 0.17
119 61 0.14
120 5 0.01
121 53 0.13
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (118 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
TTTGAAAATAAATTGCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
Found at i:4731999 original size:197 final size:196
Alignment explanation
Indices: 4731557--4732107 Score: 920
Period size: 197 Copynumber: 2.8 Consensus size: 196
4731547 TTTGGCCGAA
* *
4731557 GCTCCTCTAAACAG-GACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGC-CCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
4731620 CTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAAGTAAATTGCTCCTC
64 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTC
4731682 TAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAA
128 TAAACAGAGGC-ACGACTTTGAAAA-TAAATTGCTCCTCTAAACAGAGGCA-CACGACTTTGAAA
4731747 ATAAATT
190 ATAAATT
4731754 GCTCCTCTAAACAGAGG--CACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGACT
1 GCTCCTCTAAACAGAGGCCCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGACT
4731817 TTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAA
66 TTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAA
4731882 ACAGAGGCACGACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCA-ACGACTTTGAAAAGTAAA
131 ACAGAGGCACGACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCACACGACTTTGAAAA-TAAA
4731946 TT
195 TT
4731948 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
1 GCTCCTCTAAACAGAGGC-CCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
4732013 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTA
65 TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTA
*
4732078 AACAGAGGCACCACGACTTTGGAAATAAAT
130 AACAGAGG---CACGACTTTGAAAATAAAT
4732108 ACTCCTAGAC
Statistics
Matches: 339, Mismatches: 3, Indels: 21
0.93 0.01 0.06
Matches are distributed among these distances:
193 13 0.04
194 27 0.08
195 68 0.20
196 42 0.12
197 161 0.47
198 10 0.03
200 18 0.05
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (196 bp):
GCTCCTCTAAACAGAGGCCCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGACT
TTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAA
ACAGAGGCACGACTTTGAAAATAAATTGCTCCTCTAAACAGAGGCACACGACTTTGAAAATAAAT
T
Found at i:4732140 original size:80 final size:80
Alignment explanation
Indices: 4731557--4732107 Score: 914
Period size: 80 Copynumber: 7.0 Consensus size: 80
4731547 TTTGGCCGAA
* * *
4731557 GCTCCTCTAAACAG-GACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
4731620 CTTTG-AAAGTAAATT
65 CTTTGAAAAGTAAATT
4731635 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
4731698 CTTTGAAAAGTAAATT
65 CTTTGAAAAGTAAATT
4731714 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAA-TAAATTGCTCCTCTAAACAGAGGC-ACGAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
4731777 TTTGAAAAGTAAATT
66 TTTGAAAAGTAAATT
4731792 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
4731855 ACTTTGAAAAGTAAATT
64 ACTTTGAAAAGTAAATT
4731872 GCTCCTCTAAACAGAGG---CACGACTTTGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
4731933 TTTGAAAAGTAAATT
66 TTTGAAAAGTAAATT
4731948 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
4732013 TTTGAAAAGTAAATT
66 TTTGAAAAGTAAATT
4732028 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
*
4732093 ACTTTGGAAA-TAAAT
64 ACTTTGAAAAGTAAAT
4732108 ACTCCTAGAC
Statistics
Matches: 453, Mismatches: 3, Indels: 31
0.93 0.01 0.06
Matches are distributed among these distances:
76 54 0.12
77 29 0.06
78 116 0.26
79 82 0.18
80 146 0.32
81 14 0.03
82 12 0.03
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
TTTGAAAAGTAAATT
Found at i:4733141 original size:16 final size:17
Alignment explanation
Indices: 4733120--4733182 Score: 103
Period size: 16 Copynumber: 3.8 Consensus size: 17
4733110 TTTCATTCAC
4733120 TTTTTC-TTTTTTCCAT
1 TTTTTCATTTTTTCCAT
4733136 TTTTTCATTTTTT-CAT
1 TTTTTCATTTTTTCCAT
4733152 TTTTTCATTTTTTCCATT
1 TTTTTCATTTTTTCCA-T
4733170 TTTTTCATTTTTT
1 TTTTTCATTTTTT
4733183 TTTATTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
16 22 0.50
17 8 0.18
18 14 0.32
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTTTCCAT
Found at i:4733181 original size:1 final size:1
Alignment explanation
Indices: 4733177--4733215 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
4733167 ATTTTTTTCA
* * *
4733177 TTTTTTTTTATTTTTTTATTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4733216 CAAGCATAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.05, C:0.00, G:0.03, T:0.92
Consensus pattern (1 bp):
T
Found at i:4733183 original size:9 final size:9
Alignment explanation
Indices: 4733120--4733201 Score: 93
Period size: 8 Copynumber: 9.6 Consensus size: 9
4733110 TTTCATTCAC
4733120 TTTTTC-TT
1 TTTTTCATT
*
4733128 TTTTCCA-T
1 TTTTTCATT
4733136 TTTTTCA-T
1 TTTTTCATT
4733144 TTTTTCA-T
1 TTTTTCATT
4733152 TTTTTCATT
1 TTTTTCATT
*
4733161 TTTTCCATT
1 TTTTTCATT
4733170 TTTTTCATTT
1 TTTTTCA-TT
*
4733180 TTTTTTATT
1 TTTTTCATT
4733189 TTTTT-ATT
1 TTTTTCATT
4733197 TTTTT
1 TTTTT
4733202 TGTTTTTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
8 36 0.55
9 22 0.33
10 8 0.12
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCATT
Found at i:4733190 original size:8 final size:8
Alignment explanation
Indices: 4733120--4733215 Score: 70
Period size: 8 Copynumber: 11.5 Consensus size: 8
4733110 TTTCATTCAC
*
4733120 TTTTTCTT
1 TTTTTATT
*
4733128 TTTTCCATT
1 TTTT-TATT
*
4733137 TTTTCATT
1 TTTTTATT
*
4733145 TTTTCATT
1 TTTTTATT
*
4733153 TTTTCATT
1 TTTTTATT
*
4733161 TTTTCCATT
1 TTTT-TATT
4733170 TTTTTCATTTT
1 TTTTT-A--TT
4733181 TTTTTATT
1 TTTTTATT
4733189 TTTTTATT
1 TTTTTATT
4733197 TTTTT-TGT
1 TTTTTAT-T
4733205 TTTTT-TT
1 TTTTTATT
4733212 TTTT
1 TTTT
4733216 CAAGCATAGT
Statistics
Matches: 79, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
7 6 0.08
8 50 0.63
9 15 0.19
10 1 0.01
11 7 0.09
ACGTcount: A:0.08, C:0.09, G:0.01, T:0.81
Consensus pattern (8 bp):
TTTTTATT
Found at i:4733190 original size:16 final size:16
Alignment explanation
Indices: 4733115--4733215 Score: 78
Period size: 16 Copynumber: 6.1 Consensus size: 16
4733105 TCCTTTTTCA
*
4733115 TTCACTTTTTCTTTTT
1 TTCATTTTTTCTTTTT
* *
4733131 TCCATTTTTTCATTTT
1 TTCATTTTTTCTTTTT
4733147 TTCATTTTTTCATTTTT
1 TTCATTTTTTC-TTTTT
*
4733164 TCCATTTTTTTCATTTTTT
1 TTCA-TTTTTTC--TTTTT
* *
4733183 TTTATTTTTTTATTTTT
1 TTCA-TTTTTTCTTTTT
**
4733200 TTTGTTTTTT-TTTTT
1 TTCATTTTTTCTTTTT
4733215 T
1 T
4733216 CAAGCATAGT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
15 6 0.08
16 29 0.41
17 15 0.21
18 7 0.10
19 14 0.20
ACGTcount: A:0.09, C:0.11, G:0.01, T:0.79
Consensus pattern (16 bp):
TTCATTTTTTCTTTTT
Found at i:4733202 original size:9 final size:9
Alignment explanation
Indices: 4733151--4733215 Score: 62
Period size: 9 Copynumber: 7.3 Consensus size: 9
4733141 CATTTTTTCA
*
4733151 TTTTTTCAT
1 TTTTTTTAT
**
4733160 TTTTTCCAT
1 TTTTTTTAT
*
4733169 TTTTTTCAT
1 TTTTTTTAT
4733178 TTTTTTT-T
1 TTTTTTTAT
4733186 ATTTTTTTAT
1 -TTTTTTTAT
*
4733196 TTTTTTTGT
1 TTTTTTTAT
4733205 TTTTTTT-T
1 TTTTTTTAT
4733213 TTT
1 TTT
4733216 CAAGCATAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
8 5 0.10
9 44 0.88
10 1 0.02
ACGTcount: A:0.08, C:0.06, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:4733202 original size:18 final size:18
Alignment explanation
Indices: 4733126--4733215 Score: 82
Period size: 16 Copynumber: 5.2 Consensus size: 18
4733116 TCACTTTTTC
* *
4733126 TTTTTTCCATTTTTTCA-
1 TTTTTTTCATTTTTTTAT
*
4733143 -TTTTTTCATTTTTTCA-
1 TTTTTTTCATTTTTTTAT
*
4733159 TTTTTTCCATTTTTTTCAT
1 TTTTTTTCATTTTTTT-AT
*
4733178 TTTTTTTTATTTTTTTAT
1 TTTTTTTCATTTTTTTAT
*
4733196 TTTTTTT-GTTTTTTT-T
1 TTTTTTTCATTTTTTTAT
4733212 TTTT
1 TTTT
4733216 CAAGCATAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
16 20 0.31
17 20 0.31
18 10 0.16
19 14 0.22
ACGTcount: A:0.09, C:0.09, G:0.01, T:0.81
Consensus pattern (18 bp):
TTTTTTTCATTTTTTTAT
Found at i:4738127 original size:15 final size:14
Alignment explanation
Indices: 4738103--4738132 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4738093 TCTTTCTCCT
4738103 TCTTTAGCCTTCTC
1 TCTTTAGCCTTCTC
4738117 TCTTCTAGCCTTCTC
1 TCTT-TAGCCTTCTC
4738132 T
1 T
4738133 AGCATTTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.37, G:0.07, T:0.50
Consensus pattern (14 bp):
TCTTTAGCCTTCTC
Found at i:4743785 original size:158 final size:158
Alignment explanation
Indices: 4743402--4743859 Score: 748
Period size: 152 Copynumber: 2.9 Consensus size: 158
4743392 TAAAATTTTA
* * *
4743402 CCAAGTAATTAGTTGTTGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
*
4743467 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
* *
4743532 ATTTATTAAAG--AAAAATCAAAATCAT
131 ATTAATTAAAGAAAAAAATCAAAATCAG
*
4743558 CC----AATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
* *
4743619 AATTCCCTCACCTCAAGAGTATACAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
4743684 ATTAATTAAAGAAAAAAATCAAAATCAG
131 ATTAATTAAAGAAAAAAATCAAAATCAG
* *
4743712 CCAAGTAATTAATTATCGAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 CCAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
* *
4743777 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
66 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCG
4743842 GATTAATTAAAGAAAAAA
130 GATTAATTAAAGAAAAAA
4743860 GAAAAAAAAA
Statistics
Matches: 279, Mismatches: 16, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
152 127 0.46
154 16 0.06
156 2 0.01
158 92 0.33
159 42 0.15
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (158 bp):
CCAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGG
ATTAATTAAAGAAAAAAATCAAAATCAG
Found at i:4744292 original size:19 final size:19
Alignment explanation
Indices: 4744250--4744296 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
4744240 AGAACACCGG
*
4744250 TGCCGGATTCTGGAAATGT
1 TGCCGGAATCTGGAAATGT
* * *
4744269 CGCCGGAATCTGGAATTTT
1 TGCCGGAATCTGGAAATGT
4744288 TGCCGGAAT
1 TGCCGGAAT
4744297 ATGGCCGGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (19 bp):
TGCCGGAATCTGGAAATGT
Found at i:4744916 original size:3 final size:3
Alignment explanation
Indices: 4744908--4744936 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4744898 ATCTTACAAA
4744908 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4744937 ATATATAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4745049 original size:17 final size:17
Alignment explanation
Indices: 4745029--4745064 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4745019 ATAAAAATAC
4745029 AAAAGAAAAGAAAAAAAA
1 AAAAG-AAAGAAAAAAAA
*
4745047 AAAAGGAAGAAAAAAAA
1 AAAAGAAAGAAAAAAAA
4745064 A
1 A
4745065 TAATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAAAAAA
Found at i:4745125 original size:20 final size:20
Alignment explanation
Indices: 4745103--4745167 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
4745093 TTACCCATTT
* *
4745103 GGGCCAGGCCCAAATGATCT
1 GGGCCAGGCCCAATTGATCC
*
4745123 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
*
4745143 GGGTCAGGCCCAATTGATCC
1 GGGCCAGGCCCAATTGATCC
4745163 GGGCC
1 GGGCC
4745168 CGGACCTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (20 bp):
GGGCCAGGCCCAATTGATCC
Found at i:4745851 original size:14 final size:14
Alignment explanation
Indices: 4745832--4745863 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4745822 AAACAACATT
4745832 TTTTATTTTTTTAG
1 TTTTATTTTTTTAG
4745846 TTTTATTTTTTTAG
1 TTTTATTTTTTTAG
4745860 TTTT
1 TTTT
4745864 GAGATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (14 bp):
TTTTATTTTTTTAG
Found at i:4747557 original size:206 final size:208
Alignment explanation
Indices: 4747138--4747508 Score: 463
Period size: 206 Copynumber: 1.8 Consensus size: 208
4747128 TAAAATTAAA
* * *
4747138 ATTTTAAAGAAAAAAATTTAATTATATTGAAGATTTTCTATAAATATTTCAATACGCTGGTAATA
1 ATTTTAAAGAAAAAAATTTAATTATATTGAAAATTTTCTATAAATACTTCAATACGCTAGTAATA
* * * * *
4747203 TTTTACAAAAAAATCTTCTCACGTAGAGATTTCTTAAAGCATCTCTACTCAAAATACTTTTAGAA
66 TTTAAAAAAAAAATCTTCTCAC-TAGAGATTTCGTAAAGCATCACTACTCAAAATACCTTTAGAA
* *
4747268 TCCCATCATTGGATAAAATTTCTTTTCTTCTCATTTTTATCACTTATATTTTTAATATATTAATC
130 TCCCATCATCGGATAAAATTTCTTTTCTTCTCATTTTTATCACTTATATTTGTAATATATTAATC
4747333 AATTTTTATTTATT
195 AATTTTTATTTATT
* * * *
4747347 ATTTTAAA-AAAAAAA-TT-ATTGTATTGAAAATTTTTTATAAATACTTCAATATGCTAGTAGTA
1 ATTTTAAAGAAAAAAATTTAATTATATTGAAAATTTTCTATAAATACTTCAATACGCTAGTAATA
* * *
4747409 TTTAAAAAAAAAAT-TCTCTCA-TAGAGATTTCGT-AGGCATCACTAGTCGAAATACCTTT-GAA
66 TTTAAAAAAAAAATCT-TCTCACTAGAGATTTCGTAAAGCATCACTACTCAAAATACCTTTAGAA
* *
4747470 TCTCATCGTCGGATAAAAATTT-TTTT-TTCCTACATTTTT
130 TCCCATCATCGGAT-AAAATTTCTTTTCTT-CT-CATTTTT
4747509 TATTAATTTA
Statistics
Matches: 140, Mismatches: 18, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
201 2 0.01
202 20 0.14
203 34 0.24
204 11 0.08
205 1 0.01
206 55 0.39
207 2 0.01
208 7 0.05
209 8 0.06
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.43
Consensus pattern (208 bp):
ATTTTAAAGAAAAAAATTTAATTATATTGAAAATTTTCTATAAATACTTCAATACGCTAGTAATA
TTTAAAAAAAAAATCTTCTCACTAGAGATTTCGTAAAGCATCACTACTCAAAATACCTTTAGAAT
CCCATCATCGGATAAAATTTCTTTTCTTCTCATTTTTATCACTTATATTTGTAATATATTAATCA
ATTTTTATTTATT
Found at i:4748652 original size:24 final size:23
Alignment explanation
Indices: 4748625--4748702 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 23
4748615 TTCTGTTCTA
4748625 ATTTTTTTTTGTATTTCGTTTTGT
1 ATTTTTTTTTGTATTTCGTTTT-T
* * *
4748649 ATTTTGTATTATATTTCGTATTTT
1 ATTTTTTTTTGTATTTCGT-TTTT
* * *
4748673 ATATTTTTATGTATTTTGTTTTT
1 ATTTTTTTTTGTATTTCGTTTTT
4748696 -TTTTTTT
1 ATTTTTTT
4748703 CTGGACAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 6 0.14
23 4 0.09
24 30 0.70
25 3 0.07
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (23 bp):
ATTTTTTTTTGTATTTCGTTTTT
Found at i:4751549 original size:29 final size:30
Alignment explanation
Indices: 4751517--4751574 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
4751507 TTTTTGTTCT
* *
4751517 TGATCT-GCAAATGTTTTCTTACTATTTCA
1 TGATCTAGAAAATATTTTCTTACTATTTCA
*
4751546 TGATCTAATAAAATATTTTCTTACTATTT
1 TGATCT-AGAAAATATTTTCTTACTATTT
4751575 GTTTTTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
31 18 0.75
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (30 bp):
TGATCTAGAAAATATTTTCTTACTATTTCA
Found at i:4754084 original size:6 final size:6
Alignment explanation
Indices: 4754073--4754097 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4754063 ATTAAAAAAA
4754073 ATAAAG ATAAAG ATAAAG ATAAAG A
1 ATAAAG ATAAAG ATAAAG ATAAAG A
4754098 GATAAACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
ATAAAG
Found at i:4754723 original size:16 final size:17
Alignment explanation
Indices: 4754702--4754736 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4754692 TTTGAATTAA
*
4754702 TAAATTGCATTTTT-TT
1 TAAATTACATTTTTGTT
4754718 TAAATTACATTTTTGTT
1 TAAATTACATTTTTGTT
4754735 TA
1 TA
4754737 TACAAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (17 bp):
TAAATTACATTTTTGTT
Found at i:4760382 original size:30 final size:29
Alignment explanation
Indices: 4760346--4760411 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
4760336 TCACATTATG
* *
4760346 TAAAAAATTCAGCAAAATTAAAATTACAGT
1 TAAAAAATTCAACAAAATT-AAATTACAAT
* * *
4760376 TAAAAAATTTAACGAAATTGAATTACAAT
1 TAAAAAATTCAACAAAATTAAATTACAAT
4760405 TAAAAAA
1 TAAAAAA
4760412 CATAATATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (29 bp):
TAAAAAATTCAACAAAATTAAATTACAAT
Found at i:4767919 original size:22 final size:21
Alignment explanation
Indices: 4767883--4767930 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
4767873 TATTCTGTTC
*
4767883 TATTTTTTTTATTTTGTT-TTG
1 TATTTTTATTATTTT-TTATTG
4767904 TATTTTGTATTATTTTTTATTG
1 TATTTT-TATTATTTTTTATTG
4767926 TATTT
1 TATTT
4767931 CATATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (21 bp):
TATTTTTATTATTTTTTATTG
Found at i:4767940 original size:24 final size:24
Alignment explanation
Indices: 4767889--4767962 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
4767879 GTTCTATTTT
*
4767889 TTTTATTTTGTT-TTGTATTT--TG
1 TTTTATTTT-TTATTGTATTTCATA
*
4767911 TATTATTTTTTATTGTATTTCATA
1 TTTTATTTTTTATTGTATTTCATA
*
4767935 TTTTA-TATTTATATGTATTTCATA
1 TTTTATTTTTTAT-TGTATTTCATA
4767959 TTTT
1 TTTT
4767963 TTTGGGACAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 2 0.05
22 16 0.36
23 6 0.14
24 20 0.45
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (24 bp):
TTTTATTTTTTATTGTATTTCATA
Found at i:4768172 original size:51 final size:48
Alignment explanation
Indices: 4768107--4768214 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
4768097 TTGAGGTTCG
*
4768107 ACAACTTTTAAAAATTTAAAATCTGAAAAAGACTCCTCTCAGCAGA-GACTCA
1 ACAAC-TTTAAAAATTT--AATCTGAAAAAG-CTCATCTCAGCAGATG-CTCA
* * *
4768159 ACAACTTTAAAAATTTCATTTTAAAAAGCTCATCTCAGCAGATGCTCA
1 ACAACTTTAAAAATTTAATCTGAAAAAGCTCATCTCAGCAGATGCTCA
4768207 ACAACTTT
1 ACAACTTT
4768215 CAGCAAAGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
48 25 0.49
49 10 0.20
51 11 0.22
52 5 0.10
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (48 bp):
ACAACTTTAAAAATTTAATCTGAAAAAGCTCATCTCAGCAGATGCTCA
Found at i:4768219 original size:21 final size:21
Alignment explanation
Indices: 4768193--4768235 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4768183 AAAGCTCATC
* *
4768193 TCAGCAGATGCTCAACAACTT
1 TCAGCAAAGGCTCAACAACTT
*
4768214 TCAGCAAAGGCTTAACAACTT
1 TCAGCAAAGGCTCAACAACTT
4768235 T
1 T
4768236 AAAATCTCAT
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:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (21 bp):
TCAGCAAAGGCTCAACAACTT
Found at i:4768272 original size:47 final size:47
Alignment explanation
Indices: 4768214--4768719 Score: 567
Period size: 47 Copynumber: 10.7 Consensus size: 47
4768204 TCAACAACTT
* * * * *
4768214 TCAGCAAAGGCTTAACAACTTTAAAATCTCATTTGGAAAAGCTTCTT
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTC
* * *
4768261 TCAACAGAGGCTCAATAACTTTAAAATCTCATTT-AGAAAAGTTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGA-AAAAGCTCCTC
* * * *
4768308 TCAACAGAGGCTCAATAATTTTAAAAATTTCATTTGAAAAAGACTCCTC
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTGAAAAAG-CTCCTC
*
4768357 TCAGCAGAGGCTCAACAA-TTTAAAAATCTCATTTGGAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTGAAAAAGCTCCTC
* * * * *
4768404 TCAGTAGGGGCTCAACAACTTCAAAATCTCTTTTGAAAAAGCTCTTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTC
*
4768451 TCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTGGAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTGAAAAAGCTCCTC
** *
4768499 TCAATAGAGGCTCAACAACTTTAAAATCTCTTTTGAAAAAGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTC
* ** * * *
4768546 TCAACAGAGATTCAATAACTTAAAAAATCTCATTTGAAAAAGCTCCTT
1 TCAGCAGAGGCTCAACAACTT-TAAAATCTCATTTGAAAAAGCTCCTC
*
4768594 TCAGTAGAGGCTCAACAACTTTAAAA--TC--TTGAAAAAGGCTCCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAA-GCTCCTC
* * * *
4768638 TCAGCAGAGGCTCAACGACTTTAAAAT-TCATCTAGAAAAGGGCTTCTC
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TTGAAAA-AGCTCCTC
* *
4768686 TCAGCAGAGGCTCAATAATTTTAAAATCTCATTT
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATTT
4768720 TTTTTCAAAA
Statistics
Matches: 391, Mismatches: 54, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
43 8 0.02
44 30 0.08
45 4 0.01
47 166 0.42
48 157 0.40
49 26 0.07
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (47 bp):
TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTC
Found at i:4768379 original size:95 final size:94
Alignment explanation
Indices: 4768221--4768719 Score: 580
Period size: 95 Copynumber: 5.3 Consensus size: 94
4768211 CTTTCAGCAA
* * * * * *
4768221 AGGCTTAACAACTTTAAAATCTCATTTGGAAAAGCTTCTTTCAACAGAGGCTCAATAACTTTAAA
1 AGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
* **
4768286 ATCTCATTTAGAAAAGTTCCTCTCAACAG
66 ATCTCATTTAGAAAAGCTCCTCTCAGTAG
* * *
4768315 AGGCTCAATAATTTTAAAAATTTCATTTGAAAAAGACTCCTCTCAGCAGAGGCTCAACAA-TTTA
1 AGGCTCAACAACTTT-AAAATCTCATTTGAAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTT-
*
4768379 AAAATCTCATTTGGAAAAGCTCCTCTCAGTAG
63 AAAATCTCATTTAGAAAAGCTCCTCTCAGTAG
* * * *
4768411 GGGCTCAACAACTTCAAAATCTCTTTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAA
1 AGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AA
* *
4768476 AATCTCATTTGGAAAAGCTCCTCTCAATAG
65 AATCTCATTTAGAAAAGCTCCTCTCAGTAG
* * ** * *
4768506 AGGCTCAACAACTTTAAAATCTCTTTTGAAAAAGCTCCTCTCAACAGAGATTCAATAACTTAAAA
1 AGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTT-TAA
*
4768571 AATCTCATTT-GAAAAAGCTCCTTTCAGTAG
65 AATCTCATTTAG-AAAAGCTCCTCTCAGTAG
*
4768601 AGGCTCAACAACTTTAAAA--TC--TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACGACTTTAA
1 AGGCTCAACAACTTTAAAATCTCATTTGAAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAA
* * *
4768662 AAT-TCATCTAGAAAAGGGCTTCTCTCAGCAG
65 AATCTCATTTAGAAAA--GCTCCTCTCAGTAG
* *
4768693 AGGCTCAATAATTTTAAAATCTCATTT
1 AGGCTCAACAACTTTAAAATCTCATTT
4768720 TTTTTCAAAA
Statistics
Matches: 348, Mismatches: 43, Indels: 26
0.83 0.10 0.06
Matches are distributed among these distances:
90 9 0.03
91 14 0.04
92 51 0.15
93 2 0.01
94 38 0.11
95 173 0.50
96 61 0.18
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (94 bp):
AGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
ATCTCATTTAGAAAAGCTCCTCTCAGTAG
Found at i:4768474 original size:143 final size:141
Alignment explanation
Indices: 4768214--4768719 Score: 596
Period size: 143 Copynumber: 3.6 Consensus size: 141
4768204 TCAACAACTT
* * * *
4768214 TCAGCAAAGGCTTAACAACTTTAAAATCTCATTTGGAAAAGCTTCTTTCAACAGAGGCTCAATAA
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGGAAAAGCTCCTCTCAACAGAGGCTCAATAA
* * * * *
4768279 CTTTAAAATCTCATTT-AGAAAAGTTCCTCTCAACAGAGGCTCAATAATTTTAAAAATTTCATTT
66 CTTTAAAATCTCATTTGA-AAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAA-TTCATTT
4768343 GAAAAAGACTCCTC
129 GAAAAAG-CTCCTC
** * *
4768357 TCAGCAGAGGCTCAACAA-TTTAAAAATCTCATTTGGAAAAGCTCCTCTCAGTAGGGGCTCAACA
1 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTGGAAAAGCTCCTCTCAACAGAGGCTCAATA
* *
4768421 ACTTCAAAATCTCTTTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTT
65 ACTTTAAAATCTCATTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TCATTT
*
4768486 GGAAAAGCTCCTC
129 GAAAAAGCTCCTC
** * * **
4768499 TCAATAGAGGCTCAACAACTTTAAAATCTCTTTTGAAAAAGCTCCTCTCAACAGAGATTCAATAA
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGGAAAAGCTCCTCTCAACAGAGGCTCAATAA
* *
4768564 CTTAAAAAATCTCATTTGAAAAAGCTCCTT-TCAGTAGAGGCTCAACAACTTT-AAAA-TC--TT
66 CTT-TAAAATCTCATTTGAAAAAGCT-CTTCTCAGCAGAGGCTCAACAACTTTAAAAATTCATTT
4768624 GAAAAAGGCTCCTC
129 GAAAAA-GCTCCTC
* * * * *
4768638 TCAGCAGAGGCTCAACGACTTTAAAAT-TCATCTAGAAAAGGGCTTCTCTCAGCAGAGGCTCAAT
1 TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGGAAAA--GCTCCTCTCAACAGAGGCTCAAT
*
4768702 AATTTTAAAATCTCATTT
64 AACTTTAAAATCTCATTT
4768720 TTTTTCAAAA
Statistics
Matches: 311, Mismatches: 43, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
138 15 0.05
139 43 0.14
140 25 0.08
142 68 0.22
143 156 0.50
144 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (141 bp):
TCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGGAAAAGCTCCTCTCAACAGAGGCTCAATAA
CTTTAAAATCTCATTTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATTCATTTGA
AAAAGCTCCTC
Found at i:4772076 original size:14 final size:14
Alignment explanation
Indices: 4772054--4772097 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
4772044 CAAAAATGGA
*
4772054 ATGGTAAGAAAATG
1 ATGGAAAGAAAATG
4772068 ATGGAAAGAAAA-G
1 ATGGAAAGAAAATG
4772081 AATGGAAAGTAAAATG
1 -ATGGAAAG-AAAATG
4772097 A
1 A
4772098 AGATGAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.04
14 19 0.73
15 5 0.19
16 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.16
Consensus pattern (14 bp):
ATGGAAAGAAAATG
Found at i:4778004 original size:9 final size:9
Alignment explanation
Indices: 4777985--4778027 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
4777975 CCCAATTTTA
4777985 TTTTA-TAT
1 TTTTATTAT
4777993 TTTTATTAT
1 TTTTATTAT
4778002 TTTTATTAT
1 TTTTATTAT
*
4778011 TATTTTTTAT
1 T-TTTATTAT
4778021 ATTTTAT
1 -TTTTAT
4778028 GTATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 5 0.17
9 13 0.43
10 11 0.37
11 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTATTAT
Found at i:4778006 original size:22 final size:20
Alignment explanation
Indices: 4777979--4778038 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
4777969 GGTAAGCCCA
4777979 ATTTTATTTTATATTTTTATT
1 ATTTTATTTTATATTTTTA-T
4778000 ATTTTTATTATTAT-TTTTTAT
1 A-TTTTATT-TTATATTTTTAT
*
4778021 ATTTTATGTATATATTTT
1 ATTTTAT-TTTATATTTT
4778039 CCTTTGTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 9 0.26
21 8 0.24
22 13 0.38
23 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
ATTTTATTTTATATTTTTAT
Found at i:4778010 original size:12 final size:12
Alignment explanation
Indices: 4777980--4778017 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4777970 GTAAGCCCAA
4777980 TTTTATT-TTAT
1 TTTTATTATTAT
*
4777991 ATTT-TTATTAT
1 TTTTATTATTAT
4778002 TTTTATTATTAT
1 TTTTATTATTAT
4778014 TTTT
1 TTTT
4778018 TATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 2 0.09
11 10 0.43
12 11 0.48
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:4778014 original size:21 final size:22
Alignment explanation
Indices: 4777979--4778038 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 22
4777969 GGTAAGCCCA
*
4777979 ATTTTATTTTATATTTTTATTAT
1 ATTTTATTATATATTTTT-TTAT
4778002 -TTTTATTAT-TA-TTTTTTAT
1 ATTTTATTATATATTTTTTTAT
4778021 ATTTTATGTATATATTTT
1 ATTTTAT-TATATATTTT
4778039 CCTTTGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 4 0.12
20 10 0.31
21 5 0.16
22 10 0.31
23 3 0.09
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (22 bp):
ATTTTATTATATATTTTTTTAT
Found at i:4778107 original size:28 final size:28
Alignment explanation
Indices: 4778053--4778112 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
4778043 TGTATCTATG
* * *
4778053 TATTTATTATTTATTTATTTGTTATTAC
1 TATTTATTATATATGTATTTGTCATTAC
*
4778081 TATTTATTAATATATGTATTT-TCATTAT
1 TATTTATT-ATATATGTATTTGTCATTAC
4778109 TATT
1 TATT
4778113 ATTTTTTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.65
Consensus pattern (28 bp):
TATTTATTATATATGTATTTGTCATTAC
Found at i:4778204 original size:20 final size:20
Alignment explanation
Indices: 4778154--4778204 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
4778144 ATTTTATATG
*
4778154 TATTTTTATTTATCTAGTTA
1 TATTATTATTTATCTAGTTA
4778174 TA-TATTCATTTATCT-GTTA
1 TATTATT-ATTTATCTAGTTA
4778193 TTATTATTATTT
1 -TATTATTATTT
4778205 TTTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 7 0.26
20 16 0.59
21 4 0.15
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (20 bp):
TATTATTATTTATCTAGTTA
Found at i:4778214 original size:49 final size:47
Alignment explanation
Indices: 4778156--4778252 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 47
4778146 TTTATATGTA
*
4778156 TTTTTATTTATCTAGTTATA-TATTCATTTATCTGTTATTATTATTATTT
1 TTTTTATTTATCTAGTAATATTATTCATTTATC--TTATTATTATT-TTT
* * *
4778205 TTTTTATTTATCTTGTAATATTTTTGATTTATCTTATTATTATTTTT
1 TTTTTATTTATCTAGTAATATTATTCATTTATCTTATTATTATTTTT
4778252 T
1 T
4778253 AATTATCTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 4 0.09
48 11 0.26
49 18 0.42
50 10 0.23
ACGTcount: A:0.23, C:0.05, G:0.04, T:0.68
Consensus pattern (47 bp):
TTTTTATTTATCTAGTAATATTATTCATTTATCTTATTATTATTTTT
Found at i:4778258 original size:22 final size:22
Alignment explanation
Indices: 4778196--4778260 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
4778186 TCTGTTATTA
4778196 TTATTATT-TTTTTTATTTATC
1 TTATTATTATTTTTTATTTATC
* * *
4778217 TT-GTAATATTTTTGATTTATC
1 TTATTATTATTTTTTATTTATC
*
4778238 TTATTATTATTTTTTAATTATC
1 TTATTATTATTTTTTATTTATC
4778260 T
1 T
4778261 GTTAATTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
20 3 0.09
21 16 0.46
22 16 0.46
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (22 bp):
TTATTATTATTTTTTATTTATC
Found at i:4778295 original size:18 final size:18
Alignment explanation
Indices: 4778268--4778312 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
4778258 TCTGTTAATT
4778268 TTTTTATTCGTTTATCTAA
1 TTTTT-TTCGTTTATCTAA
*
4778287 TTTTTTTCGTTTATCTGA
1 TTTTTTTCGTTTATCTAA
4778305 TTTCTTTT
1 TTT-TTTT
4778313 TTTTTCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (18 bp):
TTTTTTTCGTTTATCTAA
Found at i:4779146 original size:4 final size:4
Alignment explanation
Indices: 4779133--4779171 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
4779123 AGGTTTTTTT
* *
4779133 TTTA TATA TTTA TTTA TTTA TTTG TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
4779172 GTTTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:4779182 original size:16 final size:16
Alignment explanation
Indices: 4779141--4779175 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
4779131 TTTTTATATA
4779141 TTTATTTATTTATTTG
1 TTTATTTATTTATTTG
4779157 TTTATTTATTTATTTG
1 TTTATTTATTTATTTG
4779173 TTT
1 TTT
4779176 TATTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTATTTATTTATTTG
Found at i:4779370 original size:60 final size:59
Alignment explanation
Indices: 4779306--4779591 Score: 355
Period size: 59 Copynumber: 4.7 Consensus size: 59
4779296 AATAAAATCC
* *
4779306 CAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* *
4779366 CAAAAAAAAAAGTTTTGTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 C--AAAAAAAA--TAT-TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* **
4779430 CAAAAAAAAAAGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTT
1 CAAAAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTT
*
4779492 C--AAAAAATATTTTT-AGGAAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* *
4779549 CAAAAAATAA-ATTTTTGAGGAAAAGTTAAAAGTATCAATTTTC
1 CAAAAAA-AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTC
4779592 TCTACACAAA
Statistics
Matches: 197, Mismatches: 16, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
57 5 0.03
58 4 0.02
59 68 0.35
60 48 0.24
61 5 0.03
62 20 0.10
63 2 0.01
64 45 0.23
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (59 bp):
CAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:4786273 original size:18 final size:18
Alignment explanation
Indices: 4786250--4786285 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
4786240 ATACTATGCT
4786250 TGAAAA-AAAATGAAAAAA
1 TGAAAACAAAAT-AAAAAA
4786268 TGAAAACAAAATAAAAAA
1 TGAAAACAAAATAAAAAA
4786286 AAGTGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (18 bp):
TGAAAACAAAATAAAAAA
Found at i:4786286 original size:19 final size:18
Alignment explanation
Indices: 4786250--4786286 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
4786240 ATACTATGCT
*
4786250 TGAAAAAAAATGAAAAAA
1 TGAAAAAAAATAAAAAAA
4786268 TGAAAACAAAATAAAAAAA
1 TGAAAA-AAAATAAAAAAA
4786287 AGTGAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (18 bp):
TGAAAAAAAATAAAAAAA
Found at i:4787346 original size:41 final size:41
Alignment explanation
Indices: 4787301--4787415 Score: 169
Period size: 41 Copynumber: 2.8 Consensus size: 41
4787291 GATTGTCAAT
* *
4787301 GAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGTTTAAGG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
*
4787342 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTTTGTTTAAAG
1 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
* *
4787383 GAGCAATTTA-TTTTCCAAAGTCGTTGAGCCTCT
1 GAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCT
4787416 AATAAGAGGA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 4 0.06
41 63 0.94
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAAAG
Found at i:4787426 original size:41 final size:42
Alignment explanation
Indices: 4787301--4787458 Score: 153
Period size: 41 Copynumber: 3.8 Consensus size: 42
4787291 GATTGTCAAT
* * *
4787301 GAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGTTTAAG-G
1 GAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGATTAAGAG
* * *
4787342 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTTTGTTTAA-AG
1 GAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGATTAAGAG
* *
4787383 GAGCAATTTA-TTTTCCAAAGTCGTTGAGCCTCT-AATAAGAG
1 GAGCAATTTACTTTT-CAAAGTCGTGGAGCCTCTGATTAAGAG
* * * *
4787424 GAGCCATTTATGTTTCTCAAAGTCGTTGAGTCTCT
1 GAGCAATTTA-CTTT-TCAAAGTCGTGGAGCCTCT
4787459 ACTTAGAAGA
Statistics
Matches: 102, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
40 7 0.07
41 74 0.73
43 20 0.20
44 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (42 bp):
GAGCAATTTACTTTTCAAAGTCGTGGAGCCTCTGATTAAGAG
Found at i:4787677 original size:15 final size:16
Alignment explanation
Indices: 4787649--4787681 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
4787639 AAGCCCAATT
4787649 TTATTTTATATTTTTA
1 TTATTTTATATTTTTA
4787665 TTATTTT-TATTTTTA
1 TTATTTTATATTTTTA
4787680 TT
1 TT
4787682 TTATGCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTATATTTTTA
Found at i:4787736 original size:3 final size:3
Alignment explanation
Indices: 4787715--4787783 Score: 68
Period size: 3 Copynumber: 21.7 Consensus size: 3
4787705 TCTTATGTAT
* *
4787715 TTA TTA TTTA TTTA TTTA TTA TTA CTA TTTA TTA ATA -TA TGTA TTA
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
4787761 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
4787784 TCTTTTTTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
2 2 0.03
3 41 0.69
4 16 0.27
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4787843 original size:22 final size:22
Alignment explanation
Indices: 4787818--4787940 Score: 62
Period size: 20 Copynumber: 5.5 Consensus size: 22
4787808 ATTTTATATG
4787818 TATTTTTATTTATCTAGTTATA
1 TATTTTTATTTATCTAGTTATA
*
4787840 TA--TTCATTTATCT-GTTATTA
1 TATTTTTATTTATCTAGTTA-TA
* *
4787860 TTATTTTTTTTATTTATTTATCTTATAA
1 -TA---TTTTTATTTATCTA-GTTAT-A
4787888 TAATTTTTATTTATCTTA-TTAT-
1 T-ATTTTTATTTATC-TAGTTATA
*
4787910 TATTTTTTAATTATCT-GTTAT-
1 TA-TTTTTATTTATCTAGTTATA
*
4787931 TTTTTTTATT
1 TATTTTTATT
4787941 CGTTTATCTG
Statistics
Matches: 79, Mismatches: 8, Indels: 30
0.68 0.07 0.26
Matches are distributed among these distances:
19 4 0.05
20 19 0.24
21 9 0.11
22 14 0.18
24 4 0.05
25 11 0.14
26 11 0.14
27 2 0.03
28 5 0.06
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (22 bp):
TATTTTTATTTATCTAGTTATA
Found at i:4787850 original size:20 final size:17
Alignment explanation
Indices: 4787818--4787865 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
4787808 ATTTTATATG
*
4787818 TATTTTTATTTATCTAGT
1 TATTATTATTTATCT-GT
4787836 TATATATTCATTTATCTGT
1 TAT-TATT-ATTTATCTGT
4787855 TATTATTATTT
1 TATTATTATTT
4787866 TTTTTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 8 0.30
20 8 0.30
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (17 bp):
TATTATTATTTATCTGT
Found at i:4787879 original size:30 final size:29
Alignment explanation
Indices: 4787835--4787907 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
4787825 ATTTATCTAG
* * * *
4787835 TTATATATTCATTTATCTGTTATTATTATTT
1 TTATTTATTTATTTATC--TTATAATAATTT
4787866 TT-TTTATTTATTTATCTTATAATAATTT
1 TTATTTATTTATTTATCTTATAATAATTT
4787894 TTATTTATCTTATT
1 TTATTTAT-TTATT
4787908 ATTATTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 12 0.33
29 5 0.14
30 17 0.47
31 2 0.06
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.67
Consensus pattern (29 bp):
TTATTTATTTATTTATCTTATAATAATTT
Found at i:4787897 original size:21 final size:22
Alignment explanation
Indices: 4787872--4787925 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4787862 ATTTTTTTTA
4787872 TTTATTTATCTTA-TAATAATT
1 TTTATTTATCTTATTAATAATT
* *
4787893 TTTATTTATCTTATTATTATTT
1 TTTATTTATCTTATTAATAATT
*
4787915 TTTAATTATCT
1 TTTATTTATCT
4787926 GTTATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATTTATCTTATTAATAATT
Found at i:4787980 original size:20 final size:19
Alignment explanation
Indices: 4787931--4787980 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
4787921 TATCTGTTAT
4787931 TTTTTTTATTCGTTTATCTGA
1 TTTTTTT-TT-GTTTATCTGA
4787952 TTTTTTTTTGTTTATCTGA
1 TTTTTTTTTGTTTATCTGA
4787971 TTTCTTTTTT
1 TTT-TTTTTT
4787981 TTCTCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.46
20 8 0.29
21 7 0.25
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.74
Consensus pattern (19 bp):
TTTTTTTTTGTTTATCTGA
Found at i:4788868 original size:20 final size:21
Alignment explanation
Indices: 4788843--4788890 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
4788833 TTTTTTTATA
4788843 TTTATTTATTTATTTAGTTG-
1 TTTATTTATTTATTTAGTTGT
*
4788863 TTTATTTATTTATTTATTTGT
1 TTTATTTATTTATTTAGTTGT
4788884 TTTATTT
1 TTTATTT
4788891 TATTATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (21 bp):
TTTATTTATTTATTTAGTTGT
Found at i:4788894 original size:5 final size:4
Alignment explanation
Indices: 4788841--4788881 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
4788831 AGTTTTTTTA
* *
4788841 TATT TATT TATT TATT TAGT TGTT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T
4788882 GTTTTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:4788937 original size:5 final size:5
Alignment explanation
Indices: 4788920--4789000 Score: 53
Period size: 5 Copynumber: 15.8 Consensus size: 5
4788910 TTTAATGTTC
* *
4788920 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- CTTT- TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
*
4788967 TTTTCA CTTTTA TTTTG TTTTA --TTA TTTTA TTTT
1 TTTT-A -TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4789001 CTTTAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
3 3 0.05
4 6 0.10
5 28 0.45
6 21 0.34
7 4 0.06
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:4788940 original size:6 final size:6
Alignment explanation
Indices: 4788920--4789000 Score: 53
Period size: 6 Copynumber: 13.5 Consensus size: 6
4788910 TTTAATGTTC
* * *
4788920 TTTTAT CTTTA- TTTTAT TTTTAT TTTT-G TTTTACT TTTCTTT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTT-TAT TTTTAT
* *
4788968 TTTCAC TTTTAT TTTGT-T TTATTA- TTTTAT TTT
1 TTTTAT TTTTAT TTT-TAT TT-TTAT TTTTAT TTT
4789001 CTTTAAATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
5 11 0.19
6 36 0.63
7 9 0.16
8 1 0.02
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:4788940 original size:17 final size:17
Alignment explanation
Indices: 4788920--4789000 Score: 55
Period size: 17 Copynumber: 4.9 Consensus size: 17
4788910 TTTAATGTTC
4788920 TTTTATCTTTATTTTAT
1 TTTTATCTTTATTTTAT
* *
4788937 TTTTATTTTTGTTTTA-
1 TTTTATCTTTATTTTAT
*
4788953 CTTT-TCTTT-TTTTAT
1 TTTTATCTTTATTTTAT
* *
4788968 TTTCA-CTTTTATTTTGTT
1 TTTTATC-TTTATTTT-AT
4788986 TTATTAT-TTTATTTT
1 TT-TTATCTTTATTTT
4789001 CTTTAAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
14 5 0.10
15 7 0.14
16 6 0.12
17 18 0.37
18 11 0.22
19 2 0.04
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATCTTTATTTTAT
Found at i:4788975 original size:20 final size:19
Alignment explanation
Indices: 4788927--4789005 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 19
4788917 TTCTTTTATC
*
4788927 TTTATTTTA-TTTT-TATT
1 TTTATTTTACTTTTATTTT
* *
4788944 TTTGTTTTACTTTTCTTTT
1 TTTATTTTACTTTTATTTT
4788963 TTTATTTTCACTTTTATTTT
1 TTTATTTT-ACTTTTATTTT
*
4788983 GTTT-TATTA-TTTTATTTT
1 -TTTATTTTACTTTTATTTT
4789001 CTTTA
1 -TTTA
4789006 AATAAAATCC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
17 8 0.16
18 16 0.31
19 11 0.22
20 13 0.25
21 3 0.06
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (19 bp):
TTTATTTTACTTTTATTTT
Found at i:4789090 original size:59 final size:57
Alignment explanation
Indices: 4789017--4789413 Score: 377
Period size: 59 Copynumber: 6.7 Consensus size: 57
4789007 ATAAAATCCA
*
4789017 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAAA-ATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTC
* * *
4789076 AAAAAAAAAGTTTTTTTTGAGGAAAAGCTGAAAATATCAATTTTTCTCGAAAATAAAAGTTTTC
1 AAAAAAAAA----TTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTCAAAAAT-AAA-TTTTC
** * * * *
4789140 -AAAAATTATTTTTGGGAAAAAGTTAAAAGTATGAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAAATTTTTGGG-AAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTC
* *
4789197 AAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAAAGTTTC
1 AAAAAAAAA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTCAAAAAT-AAATTTTC
* * * *
4789257 TAAAAAATATTTTT-GGAGAAAGTTGAAA-TATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAAATTTTTGGGA-AAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTC
* * * * * * *
4789313 AAAAAATAAATTTTTAAGAAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAA-AAATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTC
** * *
4789372 AAACGAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAAAAATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTC
4789414 CTACACAAAA
Statistics
Matches: 279, Mismatches: 41, Indels: 37
0.78 0.11 0.10
Matches are distributed among these distances:
56 12 0.04
57 32 0.11
58 63 0.23
59 106 0.38
60 16 0.06
61 1 0.00
62 35 0.13
63 9 0.03
64 5 0.02
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAAAAATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAATTTTC
Found at i:4790337 original size:14 final size:14
Alignment explanation
Indices: 4790318--4790349 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4790308 AACAACATTT
4790318 TTTTATTTTTTTAG
1 TTTTATTTTTTTAG
*
4790332 TTTTATTTTTTTTG
1 TTTTATTTTTTTAG
4790346 TTTT
1 TTTT
4790350 GAGATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.84
Consensus pattern (14 bp):
TTTTATTTTTTTAG
Found at i:4790341 original size:15 final size:13
Alignment explanation
Indices: 4790318--4790377 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 13
4790308 AACAACATTT
4790318 TTTTATTTTTTTAG
1 TTTTATTTTTTT-G
4790332 TTTTATTTTTTTTG
1 TTTTA-TTTTTTTG
*
4790346 TTTTGAGATTTTTTG
1 TTTT-A-TTTTTTTG
4790361 TTTGT-TTTGTTTTG
1 TTT-TATTT-TTTTG
4790375 TTT
1 TTT
4790378 CGTATTATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 2 0.05
14 18 0.46
15 18 0.46
16 1 0.03
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:4792088 original size:18 final size:16
Alignment explanation
Indices: 4792053--4792092 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4792043 TTATTATTAA
*
4792053 ACTTTATTTTTATATT
1 ACTTTATTTTTAAATT
4792069 ACTTTATTTTTAAAGTTT
1 ACTTTATTTTTAAA--TT
4792087 ACTTTA
1 ACTTTA
4792093 AAAATTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
18 8 0.38
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (16 bp):
ACTTTATTTTTAAATT
Found at i:4793190 original size:17 final size:16
Alignment explanation
Indices: 4793147--4793191 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
4793137 TTCTGTTCTG
*
4793147 TTTTTTTTTTTTTGTA
1 TTTTTTTTATTTTGTA
*
4793163 TTTTATATTATTTTGTA
1 TTTT-TTTTATTTTGTA
4793180 TTGTTTTTTATT
1 TT-TTTTTTATT
4793192 GTATTTCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 18 0.75
18 2 0.08
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (16 bp):
TTTTTTTTATTTTGTA
Found at i:4793196 original size:22 final size:22
Alignment explanation
Indices: 4793158--4793215 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4793148 TTTTTTTTTT
*
4793158 TTGTATTTTATATTATTTTGTA
1 TTGTATTTTATATTATTTCGTA
*
4793180 TTGTTTTTTAT-TGTATTTCGTA
1 TTGTATTTTATAT-TATTTCGTA
*
4793202 TTTTATATTTATAT
1 TTGTAT-TTTATAT
4793216 GTTTTTCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 22 0.76
23 5 0.17
24 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.69
Consensus pattern (22 bp):
TTGTATTTTATATTATTTCGTA
Found at i:4793807 original size:25 final size:25
Alignment explanation
Indices: 4793779--4793870 Score: 64
Period size: 25 Copynumber: 3.8 Consensus size: 25
4793769 AAAGACTATG
*
4793779 TTATATTTATATTATATAAAATAAA
1 TTATAATTATATTATATAAAATAAA
* *
4793804 TTATAAGTATATTAT-T-ATATATAA
1 TTATAATTATATTATATAAAATA-AA
* * * *
4793828 TTTTAAAT-TATTATATAAATTATA
1 TTATAATTATATTATATAAAATAAA
* * *
4793852 TTGTATTTATAATATATAA
1 TTATAATTATATTATATAA
4793871 TATATTTAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
23 10 0.20
24 16 0.31
25 25 0.49
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTATAATTATATTATATAAAATAAA
Found at i:4798677 original size:6 final size:6
Alignment explanation
Indices: 4798651--4798692 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
4798641 ACAGAATATC
* * *
4798651 TAAAGA TAAAAA AAAAAA TAAAGA TAAAGA TAAAGA TAAAGA
1 TAAAGA TAAAGA TAAAGA TAAAGA TAAAGA TAAAGA TAAAGA
4798693 GATAAACAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (6 bp):
TAAAGA
Found at i:4799274 original size:16 final size:17
Alignment explanation
Indices: 4799253--4799287 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4799243 TTTGAATTAA
*
4799253 TAAATTGCATTTTT-TT
1 TAAATTACATTTTTGTT
4799269 TAAATTACATTTTTGTT
1 TAAATTACATTTTTGTT
4799286 TA
1 TA
4799288 TACAAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (17 bp):
TAAATTACATTTTTGTT
Found at i:4801531 original size:20 final size:21
Alignment explanation
Indices: 4801493--4801531 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4801483 TTATATTGTG
4801493 ACATGTCAATATAAGATATGC
1 ACATGTCAATATAAGATATGC
4801514 ACATG-CAATAATAA-ATAT
1 ACATGTCAAT-ATAAGATAT
4801532 ATATACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (21 bp):
ACATGTCAATATAAGATATGC
Found at i:4808555 original size:17 final size:17
Alignment explanation
Indices: 4808533--4808589 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
4808523 CTCGTGGAGA
4808533 ATTATTTATAGACTCAT
1 ATTATTTATAGACTCAT
* * * * *
4808550 ATTATTAAAATA-TGAGA
1 ATTATTTATAGACTCA-T
4808567 ATTATTTATAGACTCAT
1 ATTATTTATAGACTCAT
4808584 ATTATT
1 ATTATT
4808590 AAAATATGCA
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
16 2 0.07
17 24 0.86
18 2 0.07
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (17 bp):
ATTATTTATAGACTCAT
Found at i:4808572 original size:34 final size:34
Alignment explanation
Indices: 4808529--4808597 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
4808519 TTAGCTCGTG
4808529 GAGAATTATTTATAGACTCATATTATTAAAATAT
1 GAGAATTATTTATAGACTCATATTATTAAAATAT
4808563 GAGAATTATTTATAGACTCATATTATTAAAATAT
1 GAGAATTATTTATAGACTCATATTATTAAAATAT
4808597 G
1 G
4808598 CAAAATTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (34 bp):
GAGAATTATTTATAGACTCATATTATTAAAATAT
Found at i:4809312 original size:5 final size:5
Alignment explanation
Indices: 4809302--4809334 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
4809292 AAATTATGTG
4809302 TTTAT TTTAT TTTAT TTTAT ATTTA- TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTT
4809335 TATATGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:4810991 original size:18 final size:18
Alignment explanation
Indices: 4810964--4811012 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4810954 GTAGTAGTAT
* *
4810964 TATATATATAAATTTATG
1 TATATTTATAAATATATG
*
4810982 TATATTTATAAATATATT
1 TATATTTATAAATATATG
4811000 TATATTATATAAA
1 TATATT-TATAAA
4811013 AAATTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TATATTTATAAATATATG
Found at i:4811018 original size:18 final size:18
Alignment explanation
Indices: 4810963--4811018 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
4810953 AGTAGTAGTA
* **
4810963 TTATATATATAAATTTAT
1 TTATATTTATAAATAAAT
* *
4810981 GTATATTTATAAATATAT
1 TTATATTTATAAATAAAT
4810999 TTATATTATATAAA-AAAT
1 TTATATT-TATAAATAAAT
4811017 TT
1 TT
4811019 TAAAATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTATATTTATAAATAAAT
Found at i:4815919 original size:14 final size:12
Alignment explanation
Indices: 4815893--4815989 Score: 58
Period size: 11 Copynumber: 8.3 Consensus size: 12
4815883 TATAAAATTA
4815893 TTATATTATAAT
1 TTATATTATAAT
*
4815905 TTATATTGATAAA
1 TTATATT-ATAAT
* * *
4815918 TTAAAATAAAAT
1 TTATATTATAAT
* *
4815930 ATATATT-TTAT
1 TTATATTATAAT
*
4815941 TTTTATTA-AAT
1 TTATATTATAAT
4815952 TTATA-TATAAT
1 TTATATTATAAT
* *
4815963 TTTTATTA-ATT
1 TTATATTATAAT
* *
4815974 TTAAATTATTAT
1 TTATATTATAAT
4815986 TTAT
1 TTAT
4815990 TATTTTTATA
Statistics
Matches: 59, Mismatches: 21, Indels: 10
0.66 0.23 0.11
Matches are distributed among these distances:
10 2 0.03
11 28 0.47
12 20 0.34
13 9 0.15
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (12 bp):
TTATATTATAAT
Found at i:4815956 original size:22 final size:22
Alignment explanation
Indices: 4815926--4815993 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
4815916 AATTAAAATA
*
4815926 AAATATATATTTTATTTTTATT
1 AAATTTATATTTTATTTTTATT
* *
4815948 AAATTTATATATAATTTTTATT
1 AAATTTATATTTTATTTTTATT
* *
4815970 AATTTTAAATTATTATTTATTATT
1 AAATTTATATT-TTATTT-TTATT
4815994 TTTATATATC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
22 27 0.73
23 5 0.14
24 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AAATTTATATTTTATTTTTATT
Found at i:4815973 original size:21 final size:21
Alignment explanation
Indices: 4815939--4816002 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
4815929 TATATATTTT
4815939 ATTTTTATTAAATTTATATATA
1 ATTTTTATT-AATTTATATATA
* *
4815961 ATTTTTATTAATTT-TAAATT
1 ATTTTTATTAATTTATATATA
*
4815981 ATTATTTATTATTTTTATATAT
1 ATT-TTTATTA-ATTTATATAT
4816003 CCTGTCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 7 0.20
21 12 0.34
22 12 0.34
23 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTTATTAATTTATATATA
Found at i:4815981 original size:11 final size:11
Alignment explanation
Indices: 4815939--4816000 Score: 51
Period size: 10 Copynumber: 5.8 Consensus size: 11
4815929 TATATATTTT
4815939 ATTTT-TATTA
1 ATTTTATATTA
*
4815949 AATTTATATATA
1 ATTTTATAT-TA
4815961 ATTTT-TATTA
1 ATTTTATATTA
*
4815971 ATTTTAAATT-
1 ATTTTATATTA
4815981 ATTATT-TATTA
1 ATT-TTATATTA
*
4815992 TTTTTATAT
1 ATTTTATAT
4816001 ATCCTGTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
10 19 0.46
11 16 0.39
12 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATATTA
Found at i:4816908 original size:22 final size:22
Alignment explanation
Indices: 4816868--4816909 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4816858 TATTATTTTA
* *
4816868 TTAATTTAAAATTTTTTTAATT
1 TTAATTTAAAATATATTTAATT
*
4816890 TTAATTTTAAATATATTTAA
1 TTAATTTAAAATATATTTAA
4816910 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTAATTTAAAATATATTTAATT
Found at i:4818546 original size:25 final size:25
Alignment explanation
Indices: 4818518--4818609 Score: 64
Period size: 25 Copynumber: 3.8 Consensus size: 25
4818508 AAAGACTATG
*
4818518 TTATATTTATATTATATAAAATAAA
1 TTATAATTATATTATATAAAATAAA
* *
4818543 TTATAAGTATATTAT-T-ATATATAA
1 TTATAATTATATTATATAAAATA-AA
* * * *
4818567 TTTTAAAT-TATTATATAAATTATA
1 TTATAATTATATTATATAAAATAAA
* * *
4818591 TTGTATTTATAATATATAA
1 TTATAATTATATTATATAA
4818610 TATATTTAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
23 10 0.20
24 16 0.31
25 25 0.49
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TTATAATTATATTATATAAAATAAA
Found at i:4819763 original size:30 final size:30
Alignment explanation
Indices: 4819724--4819781 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
4819714 TTATGACATG
4819724 AAAGCTACAT-TCATAATCACATGATTAGGT
1 AAAGCTACATATC-TAATCACATGATTAGGT
*
4819754 AAAGTTACATATCTAATCACATGATTAG
1 AAAGCTACATATCTAATCACATGATTAG
4819782 ACACCAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (30 bp):
AAAGCTACATATCTAATCACATGATTAGGT
Found at i:4820129 original size:17 final size:17
Alignment explanation
Indices: 4820097--4820131 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4820087 TTTCTATAAA
*
4820097 TCAATAACTACGTTTCT
1 TCAATAACTACATTTCT
*
4820114 TCAATAACTATATTTCT
1 TCAATAACTACATTTCT
4820131 T
1 T
4820132 GTAAAAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (17 bp):
TCAATAACTACATTTCT
Found at i:4820828 original size:29 final size:30
Alignment explanation
Indices: 4820796--4820853 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
4820786 TTTTTGTTCT
* *
4820796 TGATCT-GCAAATGTTTTCTTACTATTTCA
1 TGATCTAGAAAATATTTTCTTACTATTTCA
*
4820825 TGATCTAATAAAATATTTTCTTACTATTT
1 TGATCT-AGAAAATATTTTCTTACTATTT
4820854 GTTTTTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
31 18 0.75
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (30 bp):
TGATCTAGAAAATATTTTCTTACTATTTCA
Found at i:4822018 original size:40 final size:40
Alignment explanation
Indices: 4821944--4822044 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
4821934 AAAATAATAC
* * *
4821944 ATTGGATTTCATAATCAATCA-ACATCAATCGAGCAATGTA
1 ATTGCATTCCATAATCAAT-AGACATCAATCGAGCAATATA
*
4821984 ATTGCATTCCATAATCAATAGACAGT-AATTGAGCAATATA
1 ATTGCATTCCATAATCAATAGACA-TCAATCGAGCAATATA
4822024 ATTGCATTCCATAATCAATAG
1 ATTGCATTCCATAATCAATAG
4822045 TAGTCTAATA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 53 0.96
41 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (40 bp):
ATTGCATTCCATAATCAATAGACATCAATCGAGCAATATA
Found at i:4824056 original size:17 final size:17
Alignment explanation
Indices: 4824034--4824069 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4824024 TTTGAATTAA
* *
4824034 TAAATTGCATTTTTTTT
1 TAAATTACATTTTTGTT
4824051 TAAATTACATTTTTGTT
1 TAAATTACATTTTTGTT
4824068 TA
1 TA
4824070 TACAAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TAAATTACATTTTTGTT
Found at i:4824906 original size:24 final size:24
Alignment explanation
Indices: 4824873--4824919 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4824863 TCTGTCAGGC
* *
4824873 TGCTTTTGCATTTTTGCTTCTATT
1 TGCTTCTGCATTTCTGCTTCTATT
4824897 TGCTTCTGCATTTCTGCTTCTAT
1 TGCTTCTGCATTTCTGCTTCTAT
4824920 CTGCCACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.09, C:0.21, G:0.13, T:0.57
Consensus pattern (24 bp):
TGCTTCTGCATTTCTGCTTCTATT
Found at i:4827317 original size:20 final size:21
Alignment explanation
Indices: 4827279--4827317 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4827269 TTATATTGTG
4827279 ACATGTCAATATAAGATATGC
1 ACATGTCAATATAAGATATGC
4827300 ACATG-CAATAATAA-ATAT
1 ACATGTCAAT-ATAAGATAT
4827318 ATATACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (21 bp):
ACATGTCAATATAAGATATGC
Found at i:4834444 original size:16 final size:17
Alignment explanation
Indices: 4834425--4834458 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
4834415 TTCCATTGAA
4834425 TTTTATTTT-TGTATTT
1 TTTTATTTTATGTATTT
4834441 TTTTATTTTATGTATTT
1 TTTTATTTTATGTATTT
4834458 T
1 T
4834459 AGTACTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATGTATTT
Found at i:4839587 original size:17 final size:18
Alignment explanation
Indices: 4839541--4839595 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
4839531 TTTTTGACAA
*
4839541 TTTGTTAAATTAACTATT
1 TTTGTTAAATTAAATATT
* *
4839559 TTCGTTTTAATTAAAT-TT
1 TTTG-TTAAATTAAATATT
4839577 TTTGTTAAATTAAAATATT
1 TTTGTTAAATT-AAATATT
4839596 CATTAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 6 0.21
18 12 0.41
19 11 0.38
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTGTTAAATTAAATATT
Found at i:4844030 original size:30 final size:29
Alignment explanation
Indices: 4843996--4844063 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
4843986 ATTTTCATCC
4843996 AATTAAGGGTTCAATTGAATTAAAATAAAA
1 AATTAAGGGTTCAATT-AATTAAAATAAAA
* *
4844026 AATTAAGAGTTCAATTAATTACAATAAAA
1 AATTAAGGGTTCAATTAATTAAAATAAAA
*
4844055 TATTAAGGG
1 AATTAAGGG
4844064 CATAAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.31
Consensus pattern (29 bp):
AATTAAGGGTTCAATTAATTAAAATAAAA
Found at i:4844322 original size:14 final size:14
Alignment explanation
Indices: 4844303--4844332 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4844293 AGGGAAAGGT
4844303 TATATACACATAAA
1 TATATACACATAAA
*
4844317 TATATACATATAAA
1 TATATACACATAAA
4844331 TA
1 TA
4844333 GACATATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (14 bp):
TATATACACATAAA
Found at i:4847449 original size:3 final size:3
Alignment explanation
Indices: 4847432--4847485 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
4847422 CAAATTTGAC
4847432 TAT TA- TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4847478 TAT TAT TA
1 TAT TAT TA
4847486 AAAAAAAAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.08
3 45 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4847727 original size:25 final size:25
Alignment explanation
Indices: 4847706--4847771 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 25
4847696 TGCAAAAACT
4847706 AAAAGAAGATAGAACAA-AAAAAAAA
1 AAAAGAAGA-AGAACAATAAAAAAAA
* *
4847731 AAAAGAGGAACACACAATAAAAAAAA
1 AAAAGAAGAAGA-ACAATAAAAAAAA
4847757 AAAAGAAGAAGAACA
1 AAAAGAAGAAGAACA
4847772 GCAAACACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 2 0.06
25 15 0.43
26 18 0.51
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.03
Consensus pattern (25 bp):
AAAAGAAGAAGAACAATAAAAAAAA
Found at i:4847753 original size:29 final size:29
Alignment explanation
Indices: 4847721--4847790 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
4847711 AAGATAGAAC
* *
4847721 AAAAAAAAAAAAAAGAGGAACA-CACAATA
1 AAAAAAAAAAAAAAGAAGAACAGCA-AACA
*
4847750 AAAAAAAAAAAGAAGAAGAACAGCAAACA
1 AAAAAAAAAAAAAAGAAGAACAGCAAACA
*
4847779 CAAAAAAAAAAA
1 AAAAAAAAAAAA
4847791 TTTCCCGAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 33 0.94
30 2 0.06
ACGTcount: A:0.79, C:0.10, G:0.10, T:0.01
Consensus pattern (29 bp):
AAAAAAAAAAAAAAGAAGAACAGCAAACA
Found at i:4848379 original size:6 final size:6
Alignment explanation
Indices: 4848327--4848469 Score: 71
Period size: 6 Copynumber: 24.3 Consensus size: 6
4848317 GTTTCACAGG
* * * *
4848327 TTTTTC TTTTT- TTTTTC TTTTTA TTTTTCA TTTTGA TTTTGA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA
** * * * *
4848375 TTTTTTA TGCTTA TTTTTA -TGTTA TTTTT- TTGTGA -TGTTA -TTTTA
1 -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * * * * * * *
4848420 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
4848468 TT
1 TT
4848470 GTAATTTTAT
Statistics
Matches: 117, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
5 20 0.17
6 86 0.74
7 11 0.09
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:4848390 original size:25 final size:25
Alignment explanation
Indices: 4848344--4848404 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
4848334 TTTTTTTTTC
* *
4848344 TTTTTATTTTTCATTTTGATTTTGA
1 TTTTTATTTTTTATCTTGATTTTGA
*
4848369 TTTTTATTTTTTATGCTT-ATTTTTA
1 TTTTTATTTTTTAT-CTTGATTTTGA
*
4848394 -TGTTATTTTTT
1 TTTTTATTTTTT
4848405 TGTGATGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 10 0.32
25 19 0.61
26 2 0.06
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (25 bp):
TTTTTATTTTTTATCTTGATTTTGA
Found at i:4848423 original size:3 final size:3
Alignment explanation
Indices: 4848412--4848486 Score: 111
Period size: 3 Copynumber: 26.0 Consensus size: 3
4848402 TTTTGTGATG
4848412 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
4848459 TTA TTA TTA TTG TAA TT- TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4848487 CTTGTAATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
2 6 0.09
3 59 0.91
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4848709 original size:23 final size:22
Alignment explanation
Indices: 4848675--4848717 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
4848665 ATATTTTTTC
*
4848675 TAAAAAAATAAATAATAAATAA
1 TAAAAAAATAAAAAATAAATAA
4848697 TAAATAAAATAAAAAATAAAT
1 TAAA-AAAATAAAAAATAAAT
4848718 TGTTTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAAAAAATAAAAAATAAATAA
Found at i:4852693 original size:12 final size:12
Alignment explanation
Indices: 4852676--4852700 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4852666 CAAATGACTA
4852676 AGACTCAAAAAG
1 AGACTCAAAAAG
4852688 AGACTCAAAAAG
1 AGACTCAAAAAG
4852700 A
1 A
4852701 AATGGCTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (12 bp):
AGACTCAAAAAG
Found at i:4860927 original size:39 final size:39
Alignment explanation
Indices: 4860876--4861006 Score: 156
Period size: 39 Copynumber: 3.3 Consensus size: 39
4860866 GCCTCTCAGA
4860876 TTTTAATATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCT
1 TTTTAA-ATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCT
* * *
4860916 TTTTGAATTTAAAGTTTGTTACCTCTGGTGAGAGGAGCT
1 TTTTAAATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCT
* * * *
4860955 TTCTAACATTTAAAGTTTATTGCC-CTTGGTCAGAAGAGTT
1 TTTTAA-ATTTAAAGTTTGTTGCCTC-TGGTCAGAGGAGCT
*
4860995 TTTTAATTTTAA
1 TTTTAAATTTAA
4861007 GAGCCTCTGG
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 41 0.53
40 36 0.47
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (39 bp):
TTTTAAATTTAAAGTTTGTTGCCTCTGGTCAGAGGAGCT
Found at i:4861138 original size:39 final size:38
Alignment explanation
Indices: 4861086--4861410 Score: 310
Period size: 39 Copynumber: 8.4 Consensus size: 38
4861076 TTTTATCAGA
* ** * *
4861086 TTTTTAATTTAAAGTTTGTTGTGTTTGATTAAAGGAGT
1 TTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* *
4861124 TTTTGGAATTTAAAGTTTGTTGCCTCTGGTCAAAGGAGCC
1 TTTT-GAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAG-C
* * * * * * *
4861164 CTTTGAATTTAAAGTTTATTACCTCTGGTGAGAGGAGT
1 TTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* *
4861202 TATTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGC
1 T-TTTGA-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* * *
4861242 TTTTAGAATTTAAAGTTTATTGCCTTTGATTAAATGAGC
1 TTTT-GAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
* * * *
4861281 TTTTGGATTTAAAGTTTGTTACCTTTGGTGATAGGAGCC
1 TTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAG-C
* *
4861320 TTTTGAATTTAAAGTTTGTTACATTTGGTTAAAGGAGC
1 TTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
** * *
4861358 TTTTGAATTTAAAGTTCATTGCCTCTAG-TAAGAGGAGC
1 TTTTGAATTTAAAGTTTGTTGCCTTTGGTTAA-AGGAGC
4861396 TTTCTGAATTTAAAG
1 TTT-TGAATTTAAAG
4861411 CTTTATAGCT
Statistics
Matches: 236, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.01
38 62 0.26
39 141 0.60
40 30 0.13
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (38 bp):
TTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC
Found at i:4861306 original size:77 final size:77
Alignment explanation
Indices: 4861086--4861416 Score: 308
Period size: 77 Copynumber: 4.2 Consensus size: 77
4861076 TTTTATCAGA
* * *** * *
4861086 TTTTTAATTTAAAGTTTGTTGTGTTTGATTAAAGGAGTTTTTGGAATTTAAAGTTTGTTGCCTCT
1 TTTTGAATTTAAAGTTTATTACCTTTGATTAAAGGAGCTTTTGG-ATTTAAAGTTTGTTGCCTTT
4861151 GGTCAAAGGAGCC
65 GGTCAAAGGAGCC
* * * * * * **
4861164 CTTTGAATTTAAAGTTTATTACCTCTGGTGAGAGGAGTTATTTAACATTTAAAGTTTGTTGCCTT
1 TTTTGAATTTAAAGTTTATTACCTTTGATTAAAGGAGCT-TTT-GGATTTAAAGTTTGTTGCCTT
* *
4861229 TGGTTAAAAGAG-C
64 TGGTCAAAGGAGCC
* * *
4861242 TTTTAGAATTTAAAGTTTATTGCCTTTGATTAAATGAGCTTTTGGATTTAAAGTTTGTTACCTTT
1 TTTT-GAATTTAAAGTTTATTACCTTTGATTAAAGGAGCTTTTGGATTTAAAGTTTGTTGCCTTT
* *
4861307 GGTGATAGGAGCC
65 GGTCAAAGGAGCC
* * * * ** * *
4861320 TTTTGAATTTAAAGTTTGTTACATTTGGTTAAAGGAGCTTTTGAATTTAAAGTTCATTGCCTCTA
1 TTTTGAATTTAAAGTTTATTACCTTTGATTAAAGGAGCTTTTGGATTTAAAGTTTGTTGCCTTTG
4861385 GT-AAGAGGAG-C
66 GTCAA-AGGAGCC
4861396 TTTCTGAATTTAAAGCTTTAT
1 TTT-TGAATTTAAAG-TTTAT
4861417 AGCTTCTGTT
Statistics
Matches: 204, Mismatches: 42, Indels: 14
0.78 0.16 0.05
Matches are distributed among these distances:
76 5 0.02
77 95 0.47
78 45 0.22
79 59 0.29
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.44
Consensus pattern (77 bp):
TTTTGAATTTAAAGTTTATTACCTTTGATTAAAGGAGCTTTTGGATTTAAAGTTTGTTGCCTTTG
GTCAAAGGAGCC
Found at i:4861632 original size:4 final size:4
Alignment explanation
Indices: 4861595--4861646 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
4861585 TTGACTACTA
* * *
4861595 TATT TTTT TATT AATAT TATT AATAT TA-T TATT TATT TATT TATT TATT
1 TATT TATT TATT TAT-T TATT TAT-T TATT TATT TATT TATT TATT TATT
4861644 TAT
1 TAT
4861647 AAAAAAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
3 3 0.08
4 31 0.79
5 5 0.13
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:4862455 original size:6 final size:6
Alignment explanation
Indices: 4862422--4862546 Score: 65
Period size: 6 Copynumber: 20.0 Consensus size: 6
4862412 AGGTTTTTCC
* * * *
4862422 TTTTCT TTTTCT TTTTAT TTTCTGT TTTGAT TTTTAT TTTTATT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT TTTTA-T TTTTAT
* * * * * *
4862472 GTTGAT TTTTAT GTTATT-T TTTTAT GATGTTAT TGTTAT TATTAT TATTAT
1 TTTTAT TTTTAT -TT-TTAT TTTTAT --TTTTAT TTTTAT TTTTAT TTTTAT
* *
4862523 TATTAT TATTTAT TATT-T TTTTAT
1 TTTTAT T-TTTAT TTTTAT TTTTAT
4862547 GCTTGTAATA
Statistics
Matches: 96, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
5 6 0.06
6 64 0.67
7 19 0.20
8 7 0.07
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:4862461 original size:25 final size:25
Alignment explanation
Indices: 4862427--4862491 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
4862417 TTTCCTTTTC
* * *
4862427 TTTTTCTTTTTATTTTCTGTTTTGA
1 TTTTTATTTTTATTTTCTATGTTGA
*
4862452 TTTTTATTTTTATTTTTTATGTTGA
1 TTTTTATTTTTATTTTCTATGTTGA
*
4862477 TTTTTA-TGTTATTTT
1 TTTTTATTTTTATTTT
4862492 TTTATGATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 8 0.23
25 27 0.77
ACGTcount: A:0.12, C:0.03, G:0.08, T:0.77
Consensus pattern (25 bp):
TTTTTATTTTTATTTTCTATGTTGA
Found at i:4862468 original size:19 final size:19
Alignment explanation
Indices: 4862433--4862483 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
4862423 TTTCTTTTTC
*
4862433 TTTTTATTTTCT-GTTTTGA
1 TTTTTATTTT-TATTTTTGA
*
4862452 TTTTTATTTTTATTTTTTA
1 TTTTTATTTTTATTTTTGA
* *
4862471 TGTTGATTTTTAT
1 TTTTTATTTTTAT
4862484 GTTATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTTATTTTTATTTTTGA
Found at i:4862492 original size:25 final size:25
Alignment explanation
Indices: 4862448--4862497 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
4862438 ATTTTCTGTT
*
4862448 TTGATTTTTATTTTTATTTTTTATG
1 TTGATTTTTATTTATATTTTTTATG
4862473 TTGATTTTTATGTTAT-TTTTTTATG
1 TTGATTTTTAT-TTATATTTTTTATG
4862498 ATGTTATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.74
Consensus pattern (25 bp):
TTGATTTTTATTTATATTTTTTATG
Found at i:4862513 original size:3 final size:3
Alignment explanation
Indices: 4862501--4862539 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
4862491 TTTTATGATG
*
4862501 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT
4862540 TTTTTATGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4863126 original size:18 final size:18
Alignment explanation
Indices: 4863103--4863140 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4863093 ATTAAAGAAT
4863103 AAATAACACAAAAT-TTTA
1 AAATAAC-CAAAATATTTA
*
4863121 AAATAACCATAATATTTA
1 AAATAACCAAAATATTTA
4863139 AA
1 AA
4863141 TTACATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAACCAAAATATTTA
Found at i:4863847 original size:2 final size:2
Alignment explanation
Indices: 4863808--4863833 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4863798 AGTGTAAAGG
4863808 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4863834 GAGGAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4864300 original size:28 final size:29
Alignment explanation
Indices: 4864245--4864299 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
4864235 TCGTTTAGTT
*
4864245 TATCTAAATAAATCTAAAAAAATATTTTC
1 TATCTAAATAAATCCAAAAAAATATTTTC
*
4864274 TATC-AAATAAATCC-AATAAATATTTT
1 TATCTAAATAAATCCAAAAAAATATTTT
4864300 TTATAGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
28 9 0.38
29 4 0.17
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (29 bp):
TATCTAAATAAATCCAAAAAAATATTTTC
Found at i:4864847 original size:2 final size:2
Alignment explanation
Indices: 4864840--4864865 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4864830 CTGCTTGTAC
4864840 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4864866 TCATTGTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4874400 original size:3 final size:3
Alignment explanation
Indices: 4874392--4874422 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4874382 AACTCTATAT
4874392 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
4874423 AGGCTTATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:4877662 original size:19 final size:20
Alignment explanation
Indices: 4877634--4877671 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4877624 TTTTTTTTCA
4877634 TTTGTCATTT-GATATTATG
1 TTTGTCATTTAGATATTATG
*
4877653 TTTGTTATTTAGATATTAT
1 TTTGTCATTTAGATATTAT
4877672 CACTTTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.24, C:0.03, G:0.13, T:0.61
Consensus pattern (20 bp):
TTTGTCATTTAGATATTATG
Done.