Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2822058
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 15
Found at i:1735049 original size:30 final size:30
Alignment explanation
Indices: 1735013--1735071 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1735003 GTAAAACATA
*
1735013 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTGTT
*
1735043 TTCAAAGTTTATGTTTCAATAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
1735072 CTCAAAGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:1735217 original size:102 final size:102
Alignment explanation
Indices: 1735026--1735341 Score: 521
Period size: 100 Copynumber: 3.1 Consensus size: 102
1735016 AAAGATTTTG
* * *
1735026 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAATAGAAACTGTCTCAAAGGAGACAAAA-TT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
1735090 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTA
*
1735128 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1735193 GTTTCAAGGGAAACTATCTCAAGAGAGAC--AATTTA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTA
*
1735228 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
* * *
1735293 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTG
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTA
1735330 TTTCAAGGGAAA
1 TTTCAAGGGAAA
1735342 CTGTCTCAAG
Statistics
Matches: 201, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
100 96 0.48
101 45 0.22
102 60 0.30
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTA
Found at i:1735819 original size:18 final size:18
Alignment explanation
Indices: 1735792--1735827 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1735782 TGTTGAATCC
* *
1735792 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
1735810 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
1735828 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:1736315 original size:22 final size:22
Alignment explanation
Indices: 1736238--1736308 Score: 124
Period size: 22 Copynumber: 3.2 Consensus size: 22
1736228 TTGTGTTTGG
*
1736238 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
1736260 TCAAAGGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
1736282 TCAAAGGTTTGACATTGGATGC
1 TCAAAGGTTTGACATTTGATGC
1736304 TCAAA
1 TCAAA
1736309 AGATTGATGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:1736982 original size:8 final size:7
Alignment explanation
Indices: 1736971--1737043 Score: 60
Period size: 8 Copynumber: 9.9 Consensus size: 7
1736961 TTTTTGCTTT
1736971 TTTTTTCC
1 TTTTTT-C
1736979 TTTTGTTC
1 TTTT-TTC
*
1736987 TTGTTTC
1 TTTTTTC
1736994 TCTTTTTC
1 T-TTTTTC
1737002 TTTGTTT-
1 TTT-TTTC
1737009 TTTTTT-
1 TTTTTTC
*
1737015 TTTTTGC
1 TTTTTTC
1737022 TTTTTTGC
1 TTTTTT-C
1737030 TTCTTTTC
1 TT-TTTTC
1737038 TTTTTT
1 TTTTTT
1737044 GTTCTTGATT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
6 8 0.15
7 18 0.33
8 23 0.42
9 6 0.11
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:1738208 original size:8 final size:8
Alignment explanation
Indices: 1738191--1738230 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
1738181 AAATGTAGAT
1738191 AAAAATGC
1 AAAAATGC
*
1738199 AAAAAGGC
1 AAAAATGC
1738207 AAAAATGC
1 AAAAATGC
1738215 -AAAATGC
1 AAAAATGC
*
1738222 AAGAATGC
1 AAAAATGC
1738230 A
1 A
1738231 CGAAATGTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.10
Consensus pattern (8 bp):
AAAAATGC
Found at i:1738218 original size:15 final size:15
Alignment explanation
Indices: 1738191--1738230 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1738181 AAATGTAGAT
1738191 AAAAATGCAAAAAGGC
1 AAAAATGC-AAAAGGC
*
1738207 AAAAATGCAAAATGC
1 AAAAATGCAAAAGGC
*
1738222 AAGAATGCA
1 AAAAATGCA
1738231 CGAAATGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.10
Consensus pattern (15 bp):
AAAAATGCAAAAGGC
Found at i:1738774 original size:18 final size:18
Alignment explanation
Indices: 1738751--1738790 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
1738741 ATTAGTCTTT
1738751 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
1738769 CAGAAGTGGATGTGAATC
1 CAGAAGTGGATGTGAATC
1738787 CAGA
1 CAGA
1738791 CTTGAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.33, T:0.20
Consensus pattern (18 bp):
CAGAAGTGGATGTGAATC
Found at i:1740280 original size:21 final size:22
Alignment explanation
Indices: 1740256--1740307 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
1740246 AGAGTGTGTT
1740256 GATACCCC-TTCAACGTGTATC
1 GATACCCCTTTCAACGTGTATC
* *
1740277 GATACCCTCTTTGAATGTGTATC
1 GATACCC-CTTTCAACGTGTATC
1740300 GATACCCC
1 GATACCCC
1740308 CTAAGGGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 7 0.26
22 2 0.07
23 18 0.67
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (22 bp):
GATACCCCTTTCAACGTGTATC
Found at i:1743070 original size:74 final size:74
Alignment explanation
Indices: 1742950--1743137 Score: 247
Period size: 74 Copynumber: 2.5 Consensus size: 74
1742940 TAAATAGGGA
*
1742950 GGTACTGATACCCCTCATAGGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAG
1 GGTACCGATACCCCTCATA-GG-GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAG
*
1743015 ATTG-CCTAATG
64 AATGCCCT-ATG
* * ** *
1743026 GGTTCCGATACCCCTCATAGGGTACCGATACCCTTATGTGAATTTTGGCTCCGAGAAAAATAGAA
1 GGTACCGATACCCCTCATAGGGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAGAA
1743091 TGCCCTATG
66 TGCCCTATG
*
1743100 GGTACCGATA-CCCTCTTAGAGGTACCGATACCCC-ATGC
1 GGTACCGATACCCCTCATAG-GGTACCGATACCCCTATGC
1743138 TCCCAGCAGT
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
73 11 0.11
74 66 0.67
75 5 0.05
76 17 0.17
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (74 bp):
GGTACCGATACCCCTCATAGGGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAGAA
TGCCCTATG
Found at i:1746520 original size:24 final size:27
Alignment explanation
Indices: 1746468--1746526 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 27
1746458 TGCAGGTAAA
* *
1746468 ATGATCATATTGCATAGTCGATGACAT
1 ATGATTATATTGCATAGTCGATGAAAT
1746495 ATGATTATA-TGCAT-GT-GATGAAAT
1 ATGATTATATTGCATAGTCGATGAAAT
*
1746519 ATAATTAT
1 ATGATTAT
1746527 GGAAATATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.48
25 2 0.07
26 5 0.17
27 8 0.28
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (27 bp):
ATGATTATATTGCATAGTCGATGAAAT
Found at i:1747210 original size:19 final size:18
Alignment explanation
Indices: 1747182--1747238 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
1747172 TAGAAATTTA
1747182 AAAATGTGAAGGTGTCTT
1 AAAATGTGAAGGTGTCTT
1747200 AAAATGATGAA---G--TT
1 AAAATG-TGAAGGTGTCTT
*
1747214 AGAAATGTGGAGGTGTCTT
1 A-AAATGTGAAGGTGTCTT
1747233 AAAATG
1 AAAATG
1747239 ATGATTAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
14 6 0.19
15 5 0.16
16 1 0.03
17 1 0.03
18 11 0.35
19 7 0.23
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.30
Consensus pattern (18 bp):
AAAATGTGAAGGTGTCTT
Found at i:1749372 original size:19 final size:20
Alignment explanation
Indices: 1749341--1749378 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
1749331 TTTGTATAAG
1749341 TATTAATGATATA-ATTATA
1 TATTAATGATATATATTATA
1749360 TATTACATG-TATATATTAT
1 TATTA-ATGATATATATTAT
1749379 GTATAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTAATGATATATATTATA
Found at i:1749546 original size:21 final size:23
Alignment explanation
Indices: 1749494--1749566 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 23
1749484 ATTTTAAAAA
*
1749494 TATATTTAATATTTTTG-GTAATTT
1 TATATTT-AT-TTTTTGAATAATTT
* * *
1749518 AATTTTTA-TTTTT-AATATTTT
1 TATATTTATTTTTTGAATAATTT
1749539 TATATTTATTTTTTGAATAATTT
1 TATATTTATTTTTTGAATAATTT
1749562 TATAT
1 TATAT
1749567 CTTAAATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
21 16 0.41
22 5 0.13
23 13 0.33
24 5 0.13
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
TATATTTATTTTTTGAATAATTT
Found at i:1749982 original size:21 final size:21
Alignment explanation
Indices: 1749965--1750004 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1749955 TTTCTAATTT
*
1749965 TTAAATTTTAAATCCTAAATA
1 TTAAAGTTTAAATCCTAAATA
*
1749986 TTAAAGTTTAAATTCTAAA
1 TTAAAGTTTAAATCCTAAA
1750005 CTTTAATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (21 bp):
TTAAAGTTTAAATCCTAAATA
Found at i:1750010 original size:21 final size:20
Alignment explanation
Indices: 1749964--1750010 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1749954 ATTTCTAATT
*
1749964 TTTAAATTTTAAATCCTAAA
1 TTTAAAGTTTAAATCCTAAA
*
1749984 TATTAAAGTTTAAATTCTAAA
1 T-TTAAAGTTTAAATCCTAAA
1750005 CTTTAA
1 -TTTAA
1750011 TCTTTAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTAAAGTTTAAATCCTAAA
Found at i:1750982 original size:2 final size:2
Alignment explanation
Indices: 1750975--1751008 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1750965 ATAAGCATCA
1750975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1751009 GCGAAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1752635 original size:24 final size:24
Alignment explanation
Indices: 1752603--1752718 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
1752593 TTCGATTTGA
*
1752603 ATTCTGATCTGATAGTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
1752627 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
1752651 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
1752675 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
1752698 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
1752719 TTGAATTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1752656 original size:12 final size:12
Alignment explanation
Indices: 1752619--1752681 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
1752609 ATCTGATAGT
1752619 TGACATGGATTC
1 TGACATGGATTC
1752631 TGATC-T-GATATC
1 TGA-CATGGAT-TC
1752643 TGACATGGATTC
1 TGACATGGATTC
* *
1752655 TGATAT-GATAC
1 TGACATGGATTC
*
1752666 TTGACTTGGATTC
1 -TGACATGGATTC
1752679 TGA
1 TGA
1752682 TCTGTTACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
11 8 0.20
12 24 0.60
13 8 0.20
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:1752719 original size:48 final size:48
Alignment explanation
Indices: 1752603--1752721 Score: 161
Period size: 48 Copynumber: 2.5 Consensus size: 48
1752593 TTCGATTTGA
* * *
1752603 ATTCTGATCTGATAGTTGACATGGATTCTGATCTGATATCTGACATGG
1 ATTCTGATATGATACTTGACTTGGATTCTGATCTGATATCTGACATGG
* *
1752651 ATTCTGATATGATACTTGACTTGGATTCTGATCTGTTA-CTTGACCT-G
1 ATTCTGATATGATACTTGACTTGGATTCTGATCTGATATC-TGACATGG
1752698 ATTTCTGATATGATACTTGACTTG
1 A-TTCTGATATGATACTTGACTTG
1752722 AATTATGTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
47 3 0.05
48 61 0.95
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (48 bp):
ATTCTGATATGATACTTGACTTGGATTCTGATCTGATATCTGACATGG
Found at i:1754890 original size:22 final size:22
Alignment explanation
Indices: 1754865--1754915 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
1754855 CTTTGACTGG
1754865 CTTTGACCGGACATTAAACGAC
1 CTTTGACCGGACATTAAACGAC
*
1754887 CTTTGACCGGGCATTAAACGAC
1 CTTTGACCGGACATTAAACGAC
1754909 CTTTGAC
1 CTTTGAC
1754916 TTTGACCGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (22 bp):
CTTTGACCGGACATTAAACGAC
Found at i:1756192 original size:18 final size:18
Alignment explanation
Indices: 1756166--1756200 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1756156 TCGAAAGGAC
*
1756166 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1756184 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
1756201 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1757280 original size:24 final size:24
Alignment explanation
Indices: 1757252--1757367 Score: 148
Period size: 24 Copynumber: 4.8 Consensus size: 24
1757242 TTCGATTTGA
1757252 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
1757276 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
* *
1757300 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
1757324 ATTCTGATCT-ATTACTTGACCT-G
1 ATTCTGATCTGA-TACTTGACATGG
*
1757347 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
1757368 TTGAATTATG
Statistics
Matches: 82, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
23 4 0.05
24 76 0.93
25 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1757305 original size:12 final size:12
Alignment explanation
Indices: 1757268--1757330 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
1757258 ATCTGATACT
1757268 TGACATGGATTC
1 TGACATGGATTC
1757280 TGATC-T-GATATC
1 TGA-CATGGAT-TC
1757292 TGACATGGATTC
1 TGACATGGATTC
* *
1757304 TGATAT-GATAC
1 TGACATGGATTC
*
1757315 TTGACTTGGATTC
1 -TGACATGGATTC
1757328 TGA
1 TGA
1757331 TCTATTACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
11 8 0.20
12 24 0.60
13 8 0.20
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:1757368 original size:48 final size:48
Alignment explanation
Indices: 1757252--1757370 Score: 163
Period size: 48 Copynumber: 2.5 Consensus size: 48
1757242 TTCGATTTGA
* *
1757252 ATTCTGATCTGATACTTGACATGGATTCTGATCTGATATCTGACATGG
1 ATTCTGATATGATACTTGACTTGGATTCTGATCTGATATCTGACATGG
*
1757300 ATTCTGATATGATACTTGACTTGGATTCTGATCT-AT-TACTTGACCT-G
1 ATTCTGATATGATACTTGACTTGGATTCTGATCTGATAT-C-TGACATGG
1757347 ATTTCTGATATGATACTTGACTTG
1 A-TTCTGATATGATACTTGACTTG
1757371 AATTATGTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 1 0.02
47 5 0.08
48 59 0.91
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.41
Consensus pattern (48 bp):
ATTCTGATATGATACTTGACTTGGATTCTGATCTGATATCTGACATGG
Found at i:1763763 original size:25 final size:25
Alignment explanation
Indices: 1763729--1763779 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1763719 CCTTTAAACG
1763729 TGGGCTTGAAAATGCTATTGGCGTT
1 TGGGCTTGAAAATGCTATTGGCGTT
1763754 TGGGCTTGAAAATGCTATTGGCGTT
1 TGGGCTTGAAAATGCTATTGGCGTT
1763779 T
1 T
1763780 TAATTTTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.31, T:0.37
Consensus pattern (25 bp):
TGGGCTTGAAAATGCTATTGGCGTT
Found at i:1765121 original size:31 final size:31
Alignment explanation
Indices: 1765075--1765202 Score: 229
Period size: 31 Copynumber: 4.1 Consensus size: 31
1765065 AGCTTGTATA
* *
1765075 GTAATATGTCCATATGTCCCGAAGAACATAG
1 GTAATCTGTCAATATGTCCCGAAGAACATAG
*
1765106 GTAATCTGTCAATATGTCCCAAAGAACATAG
1 GTAATCTGTCAATATGTCCCGAAGAACATAG
1765137 GTAATCTGTCAATATGTCCCGAAGAACATAG
1 GTAATCTGTCAATATGTCCCGAAGAACATAG
1765168 GTAATCTGTCAATATGTCCCGAAGAACATAG
1 GTAATCTGTCAATATGTCCCGAAGAACATAG
1765199 GTAA
1 GTAA
1765203 CCCTCGACTC
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 93 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAATCTGTCAATATGTCCCGAAGAACATAG
Found at i:1769603 original size:31 final size:31
Alignment explanation
Indices: 1769560--1769712 Score: 191
Period size: 31 Copynumber: 4.9 Consensus size: 31
1769550 TAATAATCTA
* * *
1769560 TCCATATGTCCCGAATAACATAGGTAATTTG
1 TCCATATGTCCCGAAGAACATAAGTAATATG
*
1769591 TCCATATATCCCGAA-AATCATAAGTAATATG
1 TCCATATGTCCCGAAGAA-CATAAGTAATATG
* *
1769622 TCCATATGTCCCGAAGAAGATAAGTAATATATA
1 TCCATATGTCCCGAAGAACATAAGT-A-ATATG
*
1769655 TCCATATGTCCCGAAGAAGATAAGTAATATG
1 TCCATATGTCCCGAAGAACATAAGTAATATG
* *
1769686 TCCATATATCCCGAAGAACATAGGTAA
1 TCCATATGTCCCGAAGAACATAAGTAA
1769713 CCCTCGACTC
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
30 2 0.02
31 73 0.68
32 4 0.04
33 29 0.27
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (31 bp):
TCCATATGTCCCGAAGAACATAAGTAATATG
Found at i:1769679 original size:64 final size:62
Alignment explanation
Indices: 1769560--1769712 Score: 209
Period size: 64 Copynumber: 2.4 Consensus size: 62
1769550 TAATAATCTA
* *
1769560 TCCATATGTCCCGAATAACATAGGTAATTTGTCCATATATCCCGAAAATCATAAGTAATATG
1 TCCATATGTCCCGAAGAACATAGGTAATTTATCCATATATCCCGAAAATCATAAGTAATATG
* * * *
1769622 TCCATATGTCCCGAAGAAGATAAGTAATATATATCCATATGTCCCGAAGAA-GATAAGTAATATG
1 TCCATATGTCCCGAAGAACATAGGTAAT-T-TATCCATATATCCCGAA-AATCATAAGTAATATG
*
1769686 TCCATATATCCCGAAGAACATAGGTAA
1 TCCATATGTCCCGAAGAACATAGGTAA
1769713 CCCTCGACTC
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
62 25 0.32
63 1 0.01
64 51 0.65
65 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (62 bp):
TCCATATGTCCCGAAGAACATAGGTAATTTATCCATATATCCCGAAAATCATAAGTAATATG
Found at i:1771638 original size:16 final size:17
Alignment explanation
Indices: 1771619--1771651 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1771609 CATATCTCTT
1771619 ATCTC-TTGTTCATATG
1 ATCTCTTTGTTCATATG
1771635 ATCTCTTTTGTTCATAT
1 ATCTC-TTTGTTCATAT
1771652 CATATATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (17 bp):
ATCTCTTTGTTCATATG
Found at i:1775995 original size:29 final size:29
Alignment explanation
Indices: 1775953--1776061 Score: 175
Period size: 29 Copynumber: 3.8 Consensus size: 29
1775943 AAACTAAATT
*
1775953 GATGTCATTACTTACATCAATTAGGTGAA
1 GATGTCATTTCTTACATCAATTAGGTGAA
1775982 GATGTCATTTCTTACATCAATTAGGTGAA
1 GATGTCATTTCTTACATCAATTAGGTGAA
*
1776011 GATGTCATCGT-TTACATCAATTAGGTGAA
1 GATGTCAT-TTCTTACATCAATTAGGTGAA
*
1776040 GATGTCATTGCTTACATCAATT
1 GATGTCATTTCTTACATCAATT
1776062 TAGTTAGGTG
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
29 73 0.99
30 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (29 bp):
GATGTCATTTCTTACATCAATTAGGTGAA
Found at i:1782119 original size:7 final size:7
Alignment explanation
Indices: 1782109--1782146 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
1782099 TCATTTTCCT
1782109 TCCCTCC
1 TCCCTCC
1782116 TCCCTCC
1 TCCCTCC
1782123 TCCCTCC
1 TCCCTCC
1782130 TCCCTCC
1 TCCCTCC
1782137 TCCCTCC
1 TCCCTCC
1782144 TCC
1 TCC
1782147 ATTCAATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (7 bp):
TCCCTCC
Found at i:1793199 original size:24 final size:24
Alignment explanation
Indices: 1793154--1793201 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1793144 TTACTCTCTC
*
1793154 GAATCCCTAACCCATCTTTCTCCA
1 GAATCCCTAACCCATCTGTCTCCA
1793178 GAATCCCTAACCC-TCCTGTCTCCA
1 GAATCCCTAACCCAT-CTGTCTCCA
1793202 TTCCCAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.23, C:0.44, G:0.06, T:0.27
Consensus pattern (24 bp):
GAATCCCTAACCCATCTGTCTCCA
Found at i:1798020 original size:16 final size:17
Alignment explanation
Indices: 1797985--1798029 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1797975 CTGAGGATAA
*
1797985 AAGAGAAGAAATTATCG
1 AAGAGAAGAAATTATAG
*
1798002 AAGAGAA-AGATTATAG
1 AAGAGAAGAAATTATAG
1798018 AAGAAGAAGAAA
1 AAG-AGAAGAAA
1798030 AGGATTACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 10 0.43
17 11 0.48
18 2 0.09
ACGTcount: A:0.60, C:0.02, G:0.24, T:0.13
Consensus pattern (17 bp):
AAGAGAAGAAATTATAG
Found at i:1798374 original size:24 final size:24
Alignment explanation
Indices: 1798329--1798374 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1798319 TTACTCTCTC
** *
1798329 GAATCCCTAACCCTTTTTTCTCCA
1 GAATCCCTAACCCTCCTGTCTCCA
1798353 GAATCCCTAACCCTCCTGTCTC
1 GAATCCCTAACCCTCCTGTCTC
1798375 AATTCCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.41, G:0.07, T:0.33
Consensus pattern (24 bp):
GAATCCCTAACCCTCCTGTCTCCA
Found at i:1805254 original size:31 final size:31
Alignment explanation
Indices: 1805197--1805320 Score: 105
Period size: 31 Copynumber: 4.1 Consensus size: 31
1805187 ATTTCAAGTG
** *
1805197 CCACATTAGAAAAAAAGTGCCGAATTCAGGTA
1 CCACATTAGAAAAAAA-TAACAAATTCAGGTA
*
1805229 CCACATTAGAAAAAAATAACAAATTCGGGTA
1 CCACATTAGAAAAAAATAACAAATTCAGGTA
* * * *
1805260 ACAAATTGGATAAAAAA-AAC--A--CAGGCA
1 CCACATTAGA-AAAAAATAACAAATTCAGGTA
* *
1805287 CCACATTAGAAAAAAGTGACAAATTCAGGTA
1 CCACATTAGAAAAAAATAACAAATTCAGGTA
1805318 CCA
1 CCA
1805321 AATCATATAT
Statistics
Matches: 71, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
26 5 0.07
27 13 0.18
29 2 0.03
31 29 0.41
32 22 0.31
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.17
Consensus pattern (31 bp):
CCACATTAGAAAAAAATAACAAATTCAGGTA
Found at i:1806767 original size:22 final size:22
Alignment explanation
Indices: 1806739--1806780 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1806729 AAATGTTTTC
*
1806739 AAACTTAGTCGAATC-TTTTCAA
1 AAACTTACTCG-ATCGTTTTCAA
1806761 AAACTTACTCGATCGTTTTC
1 AAACTTACTCGATCGTTTTC
1806781 GCGCTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (22 bp):
AAACTTACTCGATCGTTTTCAA
Found at i:1806867 original size:21 final size:20
Alignment explanation
Indices: 1806821--1806874 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1806811 TGGCTCAAAG
*
1806821 GATCGATCCCTTAGCAATAG
1 GATCGATCCCTTAGCAATAC
* *
1806841 GATCGATCCCTTTGACCATAC
1 GATCGATCCCTTAG-CAATAC
1806862 GATCGATCTCCTT
1 GATCGATC-CCTT
1806875 GAAAAAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 13 0.45
21 12 0.41
22 4 0.14
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.30
Consensus pattern (20 bp):
GATCGATCCCTTAGCAATAC
Found at i:1806971 original size:42 final size:42
Alignment explanation
Indices: 1806912--1807008 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
1806902 GAAACTTTTG
* * * * *
1806912 GATCGATCCGTTCACCAAATGAAACGATCGCTTGA-GAAAAAA
1 GATCGATCCCTTCACCAAAAGAAACAATCCCTCGATG-AAAAA
* * *
1806954 GATCGATCCCTTTACCAAAAGAATCAATCCCTCGATGAAAAT
1 GATCGATCCCTTCACCAAAAGAAACAATCCCTCGATGAAAAA
1806996 GATCGATCCCTTC
1 GATCGATCCCTTC
1807009 CCTTAAAGGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (42 bp):
GATCGATCCCTTCACCAAAAGAAACAATCCCTCGATGAAAAA
Found at i:1809199 original size:21 final size:21
Alignment explanation
Indices: 1809172--1809249 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
1809162 ATAAACTTTT
1809172 GGATCGATCCTTTCACCAAAA
1 GGATCGATCCTTTCACCAAAA
* * **
1809193 AGATCGATCC-CTCAATGAAAA
1 GGATCGATCCTTTC-ACCAAAA
1809214 GGATCGATCCTTTCACCAAAA
1 GGATCGATCCTTTCACCAAAA
1809235 GGATCGATCCCTTTC
1 GGATCGAT-CCTTTC
1809250 TTGCAACGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.04
21 36 0.78
22 8 0.17
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (21 bp):
GGATCGATCCTTTCACCAAAA
Found at i:1812456 original size:11 final size:11
Alignment explanation
Indices: 1812435--1812490 Score: 71
Period size: 11 Copynumber: 5.1 Consensus size: 11
1812425 AGAACACTCG
1812435 TTATGATATCA
1 TTATGATATCA
1812446 TTA-GAATATCA
1 TTATG-ATATCA
1812457 TTATGATATCA
1 TTATGATATCA
*
1812468 TTA-GAGGATCA
1 TTATGA-TATCA
1812479 TTATGATATCA
1 TTATGATATCA
1812490 T
1 T
1812491 ATATTCATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 3 0.08
11 33 0.85
12 3 0.08
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (11 bp):
TTATGATATCA
Found at i:1812460 original size:22 final size:22
Alignment explanation
Indices: 1812435--1812490 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
1812425 AGAACACTCG
*
1812435 TTATGATATCATTAGAATATCA
1 TTATGATATCATTAGAAGATCA
*
1812457 TTATGATATCATTAGAGGATCA
1 TTATGATATCATTAGAAGATCA
1812479 TTATGATATCAT
1 TTATGATATCAT
1812491 ATATTCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (22 bp):
TTATGATATCATTAGAAGATCA
Found at i:1818635 original size:23 final size:22
Alignment explanation
Indices: 1818611--1818655 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1818601 CTTCGATATT
1818611 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
1818635 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
1818656 TTTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:1818842 original size:23 final size:21
Alignment explanation
Indices: 1818816--1818886 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
1818806 TATATATGAC
* *
1818816 TATATAAAAATAATATTTAAA
1 TATATAAAAATAAAATTAAAA
1818837 TATATAAACAAGTAAAATTAAAA
1 TATATAAA-AA-TAAAATTAAAA
* *
1818860 TA-ATAAAAATACAATTAGAAC
1 TATATAAAAATAAAATTA-AAA
1818881 TATATA
1 TATATA
1818887 TTTAAAAGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.17
21 14 0.33
22 10 0.24
23 11 0.26
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (21 bp):
TATATAAAAATAAAATTAAAA
Found at i:1820168 original size:3 final size:3
Alignment explanation
Indices: 1820162--1820227 Score: 60
Period size: 3 Copynumber: 21.0 Consensus size: 3
1820152 TATTATTTTT
* * * *
1820162 TAA TAA TAA TAA TAA TATA TATC TAAA TAA TTA TAA TAA TTA TAA TTA
1 TAA TAA TAA TAA TAA TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA
*
1820210 TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA
1820228 AAAAAATTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
3 44 0.86
4 6 0.12
5 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1821765 original size:23 final size:23
Alignment explanation
Indices: 1821739--1821796 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
1821729 ATATGTCCTG
1821739 AAGGACCACATAGAATTGTCCCT
1 AAGGACCACATAGAATTGTCCCT
1821762 AAGGACCACATAGAATTGTCCCT
1 AAGGACCACATAGAATTGTCCCT
1821785 AAGGACCACATA
1 AAGGACCACATA
1821797 TATGTTCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (23 bp):
AAGGACCACATAGAATTGTCCCT
Found at i:1821869 original size:21 final size:21
Alignment explanation
Indices: 1821696--1821877 Score: 139
Period size: 21 Copynumber: 8.5 Consensus size: 21
1821686 AAATTGCCCT
** *
1821696 AAAGGACCTTATATATGTCCT
1 AAAGGACCACATATATGTCCC
* * *
1821717 GAAGGACCTCATATATGTCCT
1 AAAGGACCACATATATGTCCC
* *
1821738 GAAGGACCACATAGAATTGTCCC
1 AAAGGACCACATA-TA-TGTCCC
* *
1821761 TAAGGACCACATAGAATTGTCCC
1 AAAGGACCACATA-TA-TGTCCC
* *
1821784 TAAGGACCACATATATGTTCC
1 AAAGGACCACATATATGTCCC
* * **
1821805 AAATGACCAAATATATGTCTT
1 AAAGGACCACATATATGTCCC
* * *
1821826 GAAGGACCACATATGTGTTCC
1 AAAGGACCACATATATGTCCC
*
1821847 AAAGGATCACATATATGTCCC
1 AAAGGACCACATATATGTCCC
*
1821868 AAATGACCAC
1 AAAGGACCAC
1821878 GTAGAACCCT
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
21 90 0.68
22 2 0.02
23 40 0.30
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (21 bp):
AAAGGACCACATATATGTCCC
Found at i:1824039 original size:23 final size:23
Alignment explanation
Indices: 1823980--1824040 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
1823970 ACATTTTATA
* *
1823980 TGGCACTTCGGTGCAATTCTATG
1 TGGCACTTCGGTGCAACTCTACG
** *
1824003 CAGCACTTCAGTGCAACTCTACG
1 TGGCACTTCGGTGCAACTCTACG
*
1824026 TGGCACTTTGGTGCA
1 TGGCACTTCGGTGCA
1824041 TTTATACGAG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAACTCTACG
Found at i:1829797 original size:23 final size:23
Alignment explanation
Indices: 1829745--1829806 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
1829735 GACATTTTAT
1829745 ATGGCACTTCGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
**
1829768 ACAGCACTTCGGTGCAACTT-TAC
1 ATGGCACTTCGGTGCAA-TTCTAC
* *
1829791 GTGGCACTTTGGTGCA
1 ATGGCACTTCGGTGCA
1829807 TTTACACGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 30 0.94
24 2 0.06
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:1835840 original size:2 final size:2
Alignment explanation
Indices: 1835833--1835864 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1835823 AGAAAATTTA
1835833 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1835865 CATGATGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1837082 original size:2 final size:2
Alignment explanation
Indices: 1837075--1837137 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
1837065 CTCCTAAATG
* *
1837075 AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1837117 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
1837138 ACAATTTGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1840315 original size:35 final size:35
Alignment explanation
Indices: 1840252--1840351 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
1840242 TTTCGTCCTA
*
1840252 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
1840289 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
1840324 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
1840352 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 16 0.29
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:1840951 original size:17 final size:16
Alignment explanation
Indices: 1840931--1840966 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
1840921 TATATGTATA
1840931 TTTTTATTGTATTTTAT
1 TTTTTATTGTATTTT-T
*
1840948 TTTTTATTTTATTTTT
1 TTTTTATTGTATTTTT
1840964 TTT
1 TTT
1840967 AACATATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTATTGTATTTTT
Found at i:1840957 original size:12 final size:12
Alignment explanation
Indices: 1840940--1840964 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1840930 ATTTTTATTG
1840940 TATTTTATTTTT
1 TATTTTATTTTT
1840952 TATTTTATTTTT
1 TATTTTATTTTT
1840964 T
1 T
1840965 TTAACATATG
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:1844394 original size:22 final size:22
Alignment explanation
Indices: 1844371--1844433 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 22
1844361 CAAAAAGGGC
1844371 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
*
1844394 AAAAAGGAAAAAAACAAGAA-CA
1 AAAAA-GAAAAAAAAAAGAAGCA
1844416 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
1844434 TAAAAAAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 4 0.11
22 9 0.26
23 15 0.43
24 7 0.20
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:1844429 original size:20 final size:22
Alignment explanation
Indices: 1844379--1844440 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 22
1844369 GCAAAAAGAA
1844379 AAAAGAA-AAGAAGCAAAAAAGG
1 AAAAGAACAAGAA-CAAAAAAGG
*
1844401 AAAAAAACAAGAACAAAAAA-G
1 AAAAGAACAAGAACAAAAAAGG
* *
1844422 -AAAGAACAAAAATAAAAAA
1 AAAAGAACAAGAACAAAAAA
1844441 AGGGAACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 16 0.46
21 1 0.03
22 13 0.37
23 5 0.14
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.02
Consensus pattern (22 bp):
AAAAGAACAAGAACAAAAAAGG
Found at i:1845079 original size:22 final size:22
Alignment explanation
Indices: 1845051--1845101 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
1845041 CCCCATCAAT
1845051 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
1845073 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
1845095 CCTTTGA
1 CCTTTGA
1845102 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:1846012 original size:36 final size:36
Alignment explanation
Indices: 1845965--1846069 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
1845955 GTGCTCACCA
1845965 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
*
1846001 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * *
1846038 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1846070 TAAACATTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 32 0.50
37 32 0.50
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:1846059 original size:37 final size:37
Alignment explanation
Indices: 1845965--1846074 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
1845955 GTGCTCACCA
1845965 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
1846001 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
1846038 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
1846075 ATTGAAAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
36 31 0.46
37 33 0.49
38 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:1846159 original size:102 final size:102
Alignment explanation
Indices: 1845983--1846436 Score: 782
Period size: 102 Copynumber: 4.5 Consensus size: 102
1845973 CTTGAGACAG
** * * *
1845983 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1846048 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* ** *
1846085 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
1846150 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1846187 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1846252 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
1846289 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1846354 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
** *
1846391 TTTCCCTTGAAATGAATTTCATCTCTCTTGAGATAGTTTCTCTTGA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGA
1846437 GACATAAACA
Statistics
Matches: 332, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 332 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:1846160 original size:37 final size:37
Alignment explanation
Indices: 1846101--1846375 Score: 159
Period size: 37 Copynumber: 7.9 Consensus size: 37
1846091 TTGAAATGAG
*
1846101 TTTTGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
** *
1846138 TTCCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA-AAA
* **
1846176 ---------CATTGGAAACA-TTTCCCTTGAAA-TGAA
1 TTTTGTCTCCATT-GAGACAGTTTCCCTTGAAACAAAA
*
1846203 TTTTGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
* *
1846240 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA-AAA
* **
1846278 ---------CATTGAAAACA-TTTCCCTTGAAA-TGAA
1 TTTTGTCTCCATTG-AGACAGTTTCCCTTGAAACAAAA
* *
1846305 TTTTGTCTCTC-TTGAGATAGTTTCCCTCGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
* *
1846342 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA
1846376 TAAACATTGA
Statistics
Matches: 180, Mismatches: 27, Indels: 62
0.67 0.10 0.23
Matches are distributed among these distances:
27 4 0.02
29 30 0.17
30 9 0.05
35 7 0.04
36 31 0.17
37 93 0.52
38 6 0.03
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (37 bp):
TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACAAAA
Found at i:1846430 original size:65 final size:65
Alignment explanation
Indices: 1846347--1846505 Score: 282
Period size: 65 Copynumber: 2.4 Consensus size: 65
1846337 CAAAATTTTG
*
1846347 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCA
1 TCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCA
* * *
1846412 TCTCTCTTGAGATAGTTTCTCTTGAGACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCG
1 TCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCA
1846477 TCTCTCTTGAGACAGTTTCTCTTGAAACA
1 TCTCTCTTGAGACAGTTTCTCTTGAAACA
1846506 AAATTTTGTC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 88 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (65 bp):
TCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCA
Found at i:1847271 original size:160 final size:160
Alignment explanation
Indices: 1847007--1847343 Score: 602
Period size: 160 Copynumber: 2.1 Consensus size: 160
1846997 CAACACAAGT
*
1847007 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
1 TCAACTTCACAACGAAGAGACGGCTGGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
1847072 ACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
66 ACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
*
1847137 GACTGTCAACAAACAATTTCGGAGCCAATC
131 GACTGTCAACAAACAATTTCGGAGCCAAAC
* *
1847167 TCAACTTCACAACGAAGAGACGGCTGGTTTTCAACAATAATTTCCCAGTTTTAGGGCCAATTTTA
1 TCAACTTCACAACGAAGAGACGGCTGGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
*
1847232 ACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
66 ACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
* *
1847297 GACTGTCGACAAGCAATTTCGGAGCCAAAC
131 GACTGTCAACAAACAATTTCGGAGCCAAAC
*
1847327 TCAACTTCACAGCGAAG
1 TCAACTTCACAACGAAG
1847344 GATATTGGAC
Statistics
Matches: 169, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
160 169 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (160 bp):
TCAACTTCACAACGAAGAGACGGCTGGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTA
ACTTCACAACGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCT
GACTGTCAACAAACAATTTCGGAGCCAAAC
Found at i:1847609 original size:205 final size:202
Alignment explanation
Indices: 1847166--1847665 Score: 536
Period size: 205 Copynumber: 2.5 Consensus size: 202
1847156 CGGAGCCAAT
* * ** * * * * ** *
1847166 CTCAACTTCACAACGAAGAGACGGCTGGTTTTCAAC-AATAATTTCCCAGTTTTAGGGCCAATTT
1 CTCAACTTCACAACGAAGGGACGACTGACTGTCAACAAACAATTTCCAAATTCCAGAGCCAATTT
* * * * *
1847230 TAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGG
66 CAACTTCACAGCGAAGGATATTGGA-CTAAGACAACACAAGCTCAACTTCACAACGAAGGGACGG
* *
1847295 CTGACTGTCGACAAGCAATTTCGGAGCCAAACTCAACTTCACAGCGAAGGATATTGGACTCGAGA
130 CTGACTGTCAACAAG-AATTTCGGAGCCAAACTCAACTTCACAGCGAAGGATATTAGACTCGAGA
1847360 CAACACAAG
194 CAACACAAG
* * ** * * *
1847369 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCAATTT
1 CTCAACTTCACAACGAAGGGACGACTGACTGTCAACAAACAATTTCCAAATTCCAGAGCCAATTT
* * * *
1847434 CAACTTCGCAGCGAAGGATATTGGACTGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGC
66 CAACTTCACAGCGAAGGATATTGGACTAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGC
* * * ** *
1847499 TGATTGTTAACAAG-ATTTCGTTCAGAGTCAATTTCATCTTCACAGCGAAGGATATTAGACTCGA
131 TGACTGTCAACAAGAATTTCG----GAGCCAAACTCAACTTCACAGCGAAGGATATTAGACTCGA
*
1847563 GACAGCACAAG
192 GACAACACAAG
** * * * *
1847574 CTCAACTTCACAGTGAAGGGGCGACTGACTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTT
1 CTCAACTTCACAACGAAGGGACGACTGACTGTCAACAAACAATTTCCAAATTCCAGAGCCAATTT
* *
1847639 CAACTTCACAACGGAGGATATTGGACT
66 CAACTTCACAGCGAAGGATATTGGACT
1847666 CGGAACAATA
Statistics
Matches: 248, Mismatches: 44, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
201 6 0.02
203 77 0.31
204 44 0.18
205 121 0.49
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (202 bp):
CTCAACTTCACAACGAAGGGACGACTGACTGTCAACAAACAATTTCCAAATTCCAGAGCCAATTT
CAACTTCACAGCGAAGGATATTGGACTAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGC
TGACTGTCAACAAGAATTTCGGAGCCAAACTCAACTTCACAGCGAAGGATATTAGACTCGAGACA
ACACAAG
Found at i:1847667 original size:106 final size:104
Alignment explanation
Indices: 1847167--1847667 Score: 504
Period size: 98 Copynumber: 4.9 Consensus size: 104
1847157 GGAGCCAATC
* * * * * * * *
1847167 TCAACTTCACAACGAAGAGACGGCTGGTTTTCAAC-AATAATTTCCCAGTTTTAGGGCCAATTTT
1 TCAACTTCACAATGAAGGGACGGCTGATTGTCAACAAACAATTT-CCAG-TTCAGAGCCAATTTC
* * * *
1847231 AACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGC
64 AACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
** * * * * **
1847272 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCGACAAGCAATTT-C-G----GAGCCAAACTCAA
1 TCAACTTCACAATGAAGGGACGGCTGATTGTCAACAAACAATTTCCAGTTCAGAGCCAATTTCAA
1847331 CTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
66 CTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
* * * * *
1847370 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCAATTTC
1 TCAACTTCACAATGAAGGGACGGCTGATTGTCAACAAACA-ATTTC-CAGTTCAGAGCCAATTTC
*
1847435 AACTTCGCAGCGAAGGATATTGGACT-GAGACAACACAAGT
64 AACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
* * * *
1847475 TCAACTTCACAATGAAGGGACGGCTGATTGTTAAC-AA-GATTT-C-GTTCAGAGTCAATTTCAT
1 TCAACTTCACAATGAAGGGACGGCTGATTGTCAACAAACAATTTCCAGTTCAGAGCCAATTTCAA
* * *
1847536 CTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGC
66 CTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
* * * * *
1847575 TCAACTTCACAGTGAAGGGGCGACTGACTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTC
1 TCAACTTCACAATGAAGGGACGGCTGATTGTCAACAAACAATTT-CCAGTT-CAGAGCCAATTTC
* *
1847640 AACTTCACAACGGAGGATATTGGACTCG
64 AACTTCACAGCGAAGGATATTGGACTCG
1847668 GAACAATATT
Statistics
Matches: 326, Mismatches: 54, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
98 78 0.24
99 40 0.12
100 42 0.13
101 2 0.01
102 7 0.02
103 1 0.00
104 4 0.01
105 77 0.24
106 75 0.23
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (104 bp):
TCAACTTCACAATGAAGGGACGGCTGATTGTCAACAAACAATTTCCAGTTCAGAGCCAATTTCAA
CTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGT
Found at i:1848193 original size:35 final size:37
Alignment explanation
Indices: 1848128--1848196 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 37
1848118 TTTCGTCCTA
*
1848128 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTCAAACTCTCAAAAATAGAATAGAATTCTG
*
1848165 CTAGGATTC-AACTC-CTAAAATAGAATAGAATT
1 CTAGGATTCAAACTCTCAAAAATAGAATAGAATT
1848197 TTTCTATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 16 0.53
36 5 0.17
37 9 0.30
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (37 bp):
CTAGGATTCAAACTCTCAAAAATAGAATAGAATTCTG
Found at i:1850998 original size:13 final size:13
Alignment explanation
Indices: 1850980--1851013 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1850970 TAAGATTTTC
*
1850980 TTTGAAAATCATT
1 TTTGAAAATCAAT
1850993 TTTG-AAATCAAT
1 TTTGAAAATCAAT
1851005 TTTGAAAAT
1 TTTGAAAAT
1851014 TACTCCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAAT
Found at i:1852847 original size:20 final size:21
Alignment explanation
Indices: 1852809--1852846 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
1852799 ATCATAATTA
1852809 AATCAAAAACAACAATTTTAG
1 AATCAAAAACAACAATTTTAG
1852830 AATC-AAAAC-ACAATTTT
1 AATCAAAAACAACAATTTT
1852847 TTATTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.55, C:0.16, G:0.03, T:0.26
Consensus pattern (21 bp):
AATCAAAAACAACAATTTTAG
Found at i:1853346 original size:14 final size:14
Alignment explanation
Indices: 1853327--1853353 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1853317 TATAGAGAGG
1853327 ATGTATCGATACAT
1 ATGTATCGATACAT
1853341 ATGTATCGATACA
1 ATGTATCGATACA
1853354 CTTTGCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
ATGTATCGATACAT
Found at i:1863063 original size:6 final size:6
Alignment explanation
Indices: 1863054--1863121 Score: 122
Period size: 6 Copynumber: 11.7 Consensus size: 6
1863044 CATCCTTGTA
1863054 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1863102 TATGCG TAT--G TATGCG TATG
1 TATGCG TATGCG TATGCG TATG
1863122 TATATGTATA
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.07
6 56 0.93
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.35
Consensus pattern (6 bp):
TATGCG
Found at i:1863127 original size:6 final size:6
Alignment explanation
Indices: 1863118--1863155 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
1863108 TATGTATGCG
1863118 TATGTA TATGTA TATGTA TATGTA TATGTA TATG-A TAT
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TAT
1863156 AGTTATTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATGTA
Found at i:1863127 original size:16 final size:16
Alignment explanation
Indices: 1863059--1863130 Score: 72
Period size: 18 Copynumber: 4.2 Consensus size: 16
1863049 TTGTATATGC
*
1863059 GTATGCGTATGCGTAT
1 GTATGCGTATGCATAT
*
1863075 GCGTATGCGTATGCGTAT
1 --GTATGCGTATGCATAT
*
1863093 GCGTATGCGTATGCGTAT
1 --GTATGCGTATGCATAT
*
1863111 GTATGCGTATGTATAT
1 GTATGCGTATGCATAT
1863127 GTAT
1 GTAT
1863131 ATGTATATGT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 18 0.35
18 34 0.65
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (16 bp):
GTATGCGTATGCATAT
Found at i:1866100 original size:6 final size:6
Alignment explanation
Indices: 1866089--1866118 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1866079 ATGACATTAA
1866089 AAATAT AAATAT AAATAT AAAT-T AAATAT A
1 AAATAT AAATAT AAATAT AAATAT AAATAT A
1866119 CGTGGTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:1866771 original size:24 final size:26
Alignment explanation
Indices: 1866710--1866771 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 26
1866700 ATGTAAGCTT
*
1866710 ATAAAATCACATTAAAATTTTAAGATG
1 ATAAAATTACA-TAAAATTTTAAGATG
1866737 -TAAAATT--ATAAAA-TTTAAGA-G
1 ATAAAATTACATAAAATTTTAAGATG
1866758 ATAAAATTACATAA
1 ATAAAATTACATAA
1866772 TCAATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
21 1 0.03
22 14 0.45
23 5 0.16
24 5 0.16
26 6 0.19
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.32
Consensus pattern (26 bp):
ATAAAATTACATAAAATTTTAAGATG
Found at i:1872654 original size:22 final size:22
Alignment explanation
Indices: 1872629--1872679 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1872619 GGATTACAAG
*
1872629 AGTTATATGATTTAATTTCAGA
1 AGTTATATGATATAATTTCAGA
* *
1872651 AGTTACATGATATAATTTCAGG
1 AGTTATATGATATAATTTCAGA
1872673 AGTTATA
1 AGTTATA
1872680 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (22 bp):
AGTTATATGATATAATTTCAGA
Found at i:1878582 original size:98 final size:100
Alignment explanation
Indices: 1878453--1878656 Score: 385
Period size: 98 Copynumber: 2.0 Consensus size: 100
1878443 TTGAAAGGAA
1878453 AAATCGAACTATAGAAGAAATTAGTGAATTTGTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGT
1 AAATCGAAC-ATAGAAGAAATTAGTGAATTTGTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGT
1878518 GGATGTAAACTTTGGTTGAGAAAGTCGAACCACTCT
65 GGATGTAAACTTTGGTTGAGAAAGTCGAACCACTCT
1878554 AAATCGAAC-TAGAAG-AATTAGTGAATTTGTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTG
1 AAATCGAACATAGAAGAAATTAGTGAATTTGTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTG
1878617 GATGTAAACTTTGGTTGAGAAAGTCGAACCACTCT
66 GATGTAAACTTTGGTTGAGAAAGTCGAACCACTCT
1878652 AAATC
1 AAATC
1878657 ACTATACAAA
Statistics
Matches: 103, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
98 88 0.85
99 6 0.06
101 9 0.09
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (100 bp):
AAATCGAACATAGAAGAAATTAGTGAATTTGTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTG
GATGTAAACTTTGGTTGAGAAAGTCGAACCACTCT
Found at i:1879209 original size:18 final size:17
Alignment explanation
Indices: 1879186--1879219 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1879176 TTTGGTCCAT
1879186 TTTAATATCTAAATTTTA
1 TTTAATAT-TAAATTTTA
*
1879204 TTTAATGTTAAATTTT
1 TTTAATATTAAATTTT
1879220 GAGCGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTAATATTAAATTTTA
Found at i:1880287 original size:30 final size:30
Alignment explanation
Indices: 1880230--1880290 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1880220 CAAATTTTGG
* * *
1880230 TTAGTGACCAAAACATAAATTTTGAAAGTT
1 TTAGTGACCAAAACAGAAAGTTGGAAAGTT
**
1880260 TTAGTGACCAAAGTAGAAAGTTGGAAAGTT
1 TTAGTGACCAAAACAGAAAGTTGGAAAGTT
1880290 T
1 T
1880291 AGGGATCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (30 bp):
TTAGTGACCAAAACAGAAAGTTGGAAAGTT
Found at i:1883457 original size:19 final size:19
Alignment explanation
Indices: 1883419--1883495 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 19
1883409 TATGAATTAG
*
1883419 GCTATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
1883438 GCTATGAATCTGACAGTAA
1 GCTATGAATCTGAAAATAA
* * * *
1883457 GCTTTGAGTCTGAAACTTA
1 GCTATGAATCTGAAAATAA
* * *
1883476 GTTATGAATATGGAAATAA
1 GCTATGAATCTGAAAATAA
1883495 G
1 G
1883496 TTTAGATTCA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (19 bp):
GCTATGAATCTGAAAATAA
Found at i:1886989 original size:15 final size:15
Alignment explanation
Indices: 1886971--1887016 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1886961 CTGATCCAAG
1886971 TAACACATATCCGAA
1 TAACACATATCCGAA
1886986 TAACACATA-CTCGAA
1 TAACACATATC-CGAA
* *
1887001 TAGCATATATCCGAA
1 TAACACATATCCGAA
1887016 T
1 T
1887017 TCTAATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 25 0.93
16 1 0.04
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (15 bp):
TAACACATATCCGAA
Found at i:1887168 original size:21 final size:22
Alignment explanation
Indices: 1887134--1887174 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1887124 AACAGATCAT
1887134 AATAATCAGATATTCTGAATGC
1 AATAATCAGATATTCTGAATGC
*
1887156 AATAA-CATATATTCTGAAT
1 AATAATCAGATATTCTGAAT
1887175 CCGACATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (22 bp):
AATAATCAGATATTCTGAATGC
Found at i:1888436 original size:26 final size:24
Alignment explanation
Indices: 1888381--1888459 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 24
1888371 ATAAAAACCA
*
1888381 AATTGAATAAAGATTTAAATTAATAT-
1 AATT-AATAAAGA-TCAAATTAAT-TG
1888407 AATTAAATAAAGATCAAATTGAATTG
1 AATT-AATAAAGATCAAATT-AATTG
*
1888433 AATT-AT-AGGATCAAATTTAATTG
1 AATTAATAAAGATCAAA-TTAATTG
1888456 AATT
1 AATT
1888460 GCCTAAAGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
23 17 0.36
24 4 0.09
25 7 0.15
26 19 0.40
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.37
Consensus pattern (24 bp):
AATTAATAAAGATCAAATTAATTG
Found at i:1888820 original size:13 final size:14
Alignment explanation
Indices: 1888784--1888810 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1888774 TTGGTGGCCG
1888784 AAATTGAGAGAAAC
1 AAATTGAGAGAAAC
1888798 AAATTGAGAGAAA
1 AAATTGAGAGAAA
1888811 AATCTGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.22, T:0.15
Consensus pattern (14 bp):
AAATTGAGAGAAAC
Found at i:1889380 original size:20 final size:20
Alignment explanation
Indices: 1889355--1889393 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1889345 CTAATTGGAC
* *
1889355 ATAATTGAATACTGGAAAAA
1 ATAATTGAAAACGGGAAAAA
1889375 ATAATTGAAAACGGGAAAA
1 ATAATTGAAAACGGGAAAA
1889394 GGACTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (20 bp):
ATAATTGAAAACGGGAAAAA
Found at i:1890761 original size:41 final size:41
Alignment explanation
Indices: 1890715--1890805 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
1890705 CCTTGATTTA
* *
1890715 AATTGAATTGGATTGTGAATTAATACATGTTACCATGATCT
1 AATTGAATTGGATTGTGAATAAATACATGTTACCATGATCG
* * *
1890756 AATTGAATTGGTTTGTGAATAAATGCATGTTTCCATGATCG
1 AATTGAATTGGATTGTGAATAAATACATGTTACCATGATCG
1890797 AATTGAATT
1 AATTGAATT
1890806 ATGGATTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (41 bp):
AATTGAATTGGATTGTGAATAAATACATGTTACCATGATCG
Found at i:1890892 original size:41 final size:41
Alignment explanation
Indices: 1890847--1891064 Score: 213
Period size: 41 Copynumber: 5.1 Consensus size: 41
1890837 AAGTTAACTT
*
1890847 CCATGATTGAATTGAATCAAATTGTGAATTATTGCATGGTG
1 CCATGATTGAATTGAATCAAATTGTGAATTATTGCATGCTG
*
1890888 CCATGATTGAATTGAATCAAATTGTGAATTATTGCATGTTG
1 CCATGATTGAATTGAATCAAATTGTGAATTATTGCATGCTG
* * *
1890929 TCATGATTGAATTGAATCGAATCGAATCAAATTGTGAATTATTGCATTCTT
1 -C--CA-TG-ATTGAAT----T-GAATCAAATTGTGAATTATTGCATGCTG
* * * *
1890980 CCATGATCGAATTGAGTCGAA-TGATGAATTATTGCATGTTG
1 CCATGATTGAATTGAATCAAATTG-TGAATTATTGCATGCTG
* * * *
1891021 CTATGATTGAACTGAATCGAATTGTGAATTAGTGCATGCTG
1 CCATGATTGAATTGAATCAAATTGTGAATTATTGCATGCTG
1891062 CCA
1 CCA
1891065 AAATCGAACT
Statistics
Matches: 146, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
40 2 0.01
41 94 0.64
42 4 0.03
44 1 0.01
45 2 0.01
46 13 0.09
47 2 0.01
48 1 0.01
50 2 0.01
51 25 0.17
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (41 bp):
CCATGATTGAATTGAATCAAATTGTGAATTATTGCATGCTG
Found at i:1890958 original size:51 final size:51
Alignment explanation
Indices: 1890896--1891001 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 51
1890886 TGCCATGATT
* *
1890896 GAATTGAATCAAATTGTGAATTATTGCATGT-TGT-CATGATTGAATTGAATC
1 GAATCGAATCAAATTGTGAATTATTGCAT-TCT-TCCATGATCGAATTGAATC
*
1890947 GAATCGAATCAAATTGTGAATTATTGCATTCTTCCATGATCGAATTGAGTC
1 GAATCGAATCAAATTGTGAATTATTGCATTCTTCCATGATCGAATTGAATC
1890998 GAAT
1 GAAT
1891002 GATGAATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
50 2 0.04
51 48 0.96
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (51 bp):
GAATCGAATCAAATTGTGAATTATTGCATTCTTCCATGATCGAATTGAATC
Found at i:1891008 original size:92 final size:92
Alignment explanation
Indices: 1890855--1891042 Score: 272
Period size: 92 Copynumber: 2.0 Consensus size: 92
1890845 TTCCATGATT
* * *
1890855 GAATTGAATCAAATTGTGAATTATTGCATGGTGCCATGATTGAATTGAATCAAATTGTGAATTAT
1 GAATCGAATCAAATTGTGAATTATTGCATGCTGCCATGATCGAATTGAATCAAATTGTGAATTAT
*
1890920 TGCATGTTG-TCATGATTGAATTGAATC
66 TGCATGTTGCT-ATGATTGAACTGAATC
* * * *
1890947 GAATCGAATCAAATTGTGAATTATTGCATTCTTCCATGATCGAATTGAGTCGAA-TGATGAATTA
1 GAATCGAATCAAATTGTGAATTATTGCATGCTGCCATGATCGAATTGAATCAAATTG-TGAATTA
1891011 TTGCATGTTGCTATGATTGAACTGAATC
65 TTGCATGTTGCTATGATTGAACTGAATC
1891039 GAAT
1 GAAT
1891043 TGTGAATTAG
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
91 2 0.02
92 83 0.97
93 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (92 bp):
GAATCGAATCAAATTGTGAATTATTGCATGCTGCCATGATCGAATTGAATCAAATTGTGAATTAT
TGCATGTTGCTATGATTGAACTGAATC
Found at i:1893793 original size:20 final size:20
Alignment explanation
Indices: 1893770--1893832 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
1893760 TTTGGTATCA
1893770 ATATTGTTCATATAGTATTG
1 ATATTGTTCATATAGTATTG
** * * *
1893790 ATATCATCCGTATAGTAATG
1 ATATTGTTCATATAGTATTG
*
1893810 ATATTGTTCTTGA-AGTATTG
1 ATATTGTTCAT-ATAGTATTG
1893830 ATA
1 ATA
1893833 GGGTATCGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (20 bp):
ATATTGTTCATATAGTATTG
Found at i:1894270 original size:2 final size:2
Alignment explanation
Indices: 1894265--1894321 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1894255 ATTAAAAAAT
1894265 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1894307 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
1894322 TCAAATTTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1896095 original size:33 final size:33
Alignment explanation
Indices: 1896053--1896128 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
1896043 ATTTGGATGA
1896053 TTTTGGATTTGGATGTTATTTTTCCTACTTTGC
1 TTTTGGATTTGGATGTTATTTTTCCTACTTTGC
*
1896086 TTTTGGATTTGGATGTTATTTTTTCTACTTTGC
1 TTTTGGATTTGGATGTTATTTTTCCTACTTTGC
1896119 TTTTGGATTT
1 TTTTGGATTT
1896129 TAATATTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.61
Consensus pattern (33 bp):
TTTTGGATTTGGATGTTATTTTTCCTACTTTGC
Found at i:1896788 original size:44 final size:43
Alignment explanation
Indices: 1896694--1896789 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 43
1896684 TAACTCTAGA
* *
1896694 GTACCGATACTAATATGTAAAATGTAATATAGTATTGATACTG
1 GTACCGATACCAATATGTAAAATGTAATATAGTATCGATACTG
* *
1896737 GTGCCGATACCAATGTGTAAAAT-TACACCTA-AGTATCGATACTG
1 GTACCGATACCAATATGTAAAATGTA-A--TATAGTATCGATACTG
1896781 GTACCGATA
1 GTACCGATA
1896790 ATTCCTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.04
43 21 0.47
44 20 0.44
45 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (43 bp):
GTACCGATACCAATATGTAAAATGTAATATAGTATCGATACTG
Found at i:1901229 original size:6 final size:6
Alignment explanation
Indices: 1901218--1901455 Score: 448
Period size: 6 Copynumber: 40.3 Consensus size: 6
1901208 AGTTCATGTA
1901218 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1901266 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1901312 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1901360 ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1901406 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1901454 AT
1 AT
1901456 TTTGATGTTG
Statistics
Matches: 228, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.04
6 220 0.96
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:1903309 original size:24 final size:24
Alignment explanation
Indices: 1903282--1903351 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
1903272 AATTCGTTTG
* *
1903282 TTTATATTCATTCATTTATATTCT
1 TTTATATTCGTTCATTTATATTCA
*
1903306 TTTATATTCGTTTATTTA-AGTTCA
1 TTTATATTCGTTCATTTATA-TTCA
* *
1903330 TTTATGTTCGCTCATTTATATT
1 TTTATATTCGTTCATTTATATT
1903352 TAGCTCAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
23 1 0.03
24 36 0.95
25 1 0.03
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTATATTCGTTCATTTATATTCA
Found at i:1903573 original size:14 final size:14
Alignment explanation
Indices: 1903537--1903574 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
1903527 CCCAATTAAT
*
1903537 TTTATGTTAGTTCG
1 TTTATGTTCGTTCG
1903551 TTTATGTTCGTTCG
1 TTTATGTTCGTTCG
*
1903565 TTTGTGTTCG
1 TTTATGTTCG
1903575 CTTATGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.08, C:0.11, G:0.24, T:0.58
Consensus pattern (14 bp):
TTTATGTTCGTTCG
Found at i:1903801 original size:73 final size:75
Alignment explanation
Indices: 1903660--1903804 Score: 177
Period size: 73 Copynumber: 2.0 Consensus size: 75
1903650 TGGGCATGTG
* * * ** **
1903660 CCCACCTTAAAATCTGAATTTTCTTTGATTAGTTACATATTTTACTGATGGTGCCTGCTTTGAAA
1 CCCACCCTAAAATCTGAATTTTCTTTGATTAGTGACATATTTTACTGATAGTGCCAACACTGAAA
1903725 TTTTATTGTA
66 TTTTATTGTA
* * * *
1903735 CCCACCCTGAAATCTGAATTTTC-TT-ATTAGTGACTTATTTTATTGATAGTGTCAACACTGAAA
1 CCCACCCTAAAATCTGAATTTTCTTTGATTAGTGACATATTTTACTGATAGTGCCAACACTGAAA
1903798 TTTTATT
66 TTTTATT
1903805 TATACCTAGC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 36 0.61
74 2 0.03
75 21 0.36
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (75 bp):
CCCACCCTAAAATCTGAATTTTCTTTGATTAGTGACATATTTTACTGATAGTGCCAACACTGAAA
TTTTATTGTA
Found at i:1907511 original size:37 final size:36
Alignment explanation
Indices: 1907453--1907571 Score: 143
Period size: 37 Copynumber: 3.3 Consensus size: 36
1907443 TCCCATTATC
* * *
1907453 ATTTTTC-AACAAACATCTACCAAACTTTAAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTT-AAAAACA
* *
1907489 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTAAAAACA
* *
1907525 A-TTTTCAAATAAACATTTACCAAACTTTGAAAACCA
1 ATTTTTCAAAGAAACATTTACCAAACTTT-AAAAACA
1907561 ATTTTTCAAAG
1 ATTTTTCAAAG
1907572 TTGGTTGCCA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
35 26 0.37
36 18 0.25
37 27 0.38
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTAAAAACA
Found at i:1907539 original size:35 final size:36
Alignment explanation
Indices: 1907452--1907570 Score: 161
Period size: 35 Copynumber: 3.3 Consensus size: 36
1907442 ATCCCATTAT
* *
1907452 CATTTTTC-AACAAACATCTACCAAACTTTAAAAAAC
1 CATTTTTCAAACAAACATTTACCAAACTTT-GAAAAC
* *
1907488 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAACAAACATTTACCAAACTTTGAAAAC
*
1907524 CA-TTTTCAAATAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAACAAACATTTACCAAACTTTGAAAAC
1907559 CAATTTTTCAAA
1 C-ATTTTTCAAA
1907571 GTTGGTTGCC
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 33 0.45
36 14 0.19
37 27 0.36
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAACAAACATTTACCAAACTTTGAAAAC
Found at i:1910879 original size:15 final size:15
Alignment explanation
Indices: 1910859--1910890 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1910849 AAAATATTTC
*
1910859 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
1910874 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
1910889 TT
1 TT
1910891 GGATCTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:1912133 original size:37 final size:36
Alignment explanation
Indices: 1912075--1912193 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 36
1912065 TCTCATTATC
* *
1912075 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACT
*
1912111 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
1912147 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
1912182 AATTTTTCAAAG
1 -ATTTTTCAAAG
1912194 TTGGTTGCCA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
35 33 0.43
36 14 0.18
37 29 0.38
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
Found at i:1914869 original size:35 final size:35
Alignment explanation
Indices: 1914823--1914919 Score: 160
Period size: 35 Copynumber: 2.8 Consensus size: 35
1914813 TTATCAAATA
*
1914823 TATTTTTGAATTATCTGTGAGATGTTCGAACCGTT
1 TATTTCTGAATTATCTGTGAGATGTTCGAACCGTT
1914858 TATTTCTGAATTATCTGTGAGATGTTCGAACCGTT
1 TATTTCTGAATTATCTGTGAGATGTTCGAACCGTT
*
1914893 TATTTCTGAATTAT-TCATGAGATGTTC
1 TATTTCTGAATTATCT-GTGAGATGTTC
1914920 AAACATACTT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
34 1 0.02
35 58 0.98
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (35 bp):
TATTTCTGAATTATCTGTGAGATGTTCGAACCGTT
Found at i:1918952 original size:21 final size:20
Alignment explanation
Indices: 1918896--1918958 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
1918886 AAAATATATG
* *
1918896 AAATAATAATAATATCAATCA
1 AAATAATAATAATA-AAATAA
*
1918917 GAATAATAA-AATAAAATAA
1 AAATAATAATAATAAAATAA
*
1918936 AAATAATATATAATAAAAGAA
1 AAATAATA-ATAATAAAATAA
1918957 AA
1 AA
1918959 GAAGAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 11 0.31
20 5 0.14
21 19 0.54
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (20 bp):
AAATAATAATAATAAAATAA
Found at i:1919086 original size:24 final size:24
Alignment explanation
Indices: 1919054--1919256 Score: 172
Period size: 24 Copynumber: 7.6 Consensus size: 24
1919044 AAAAACTATA
* *
1919054 TATATAATATAACATTTTCAAAAC
1 TATATAATATAATATTTTTAAAAC
1919078 TATATAATATAGTATGATATTTTTAAAAC
1 TATAT-A-ATA-TA--ATATTTTTAAAAC
*
1919107 TATATATATAATATAATATTTTCAAAAC
1 ----TATATAATATAATATTTTTAAAAC
1919135 TATATAATATAGTATGATATTTTTAAAAC
1 TATAT-A-ATA-TA--ATATTTTTAAAAC
*
1919164 TACATAATATAATATTTTTAAAAC
1 TATATAATATAATATTTTTAAAAC
1919188 TATATACATATAATGTACTATTTTTAAAAC
1 TATATA-ATAT-A---A-TATTTTTAAAAC
* *
1919218 TACATAATATAATATTTTCAAAAC
1 TATATAATATAATATTTTTAAAAC
1919242 TATATAATATAATAT
1 TATATAATATAATAT
1919257 AATATTTTAT
Statistics
Matches: 150, Mismatches: 9, Indels: 40
0.75 0.05 0.20
Matches are distributed among these distances:
24 53 0.35
25 7 0.05
26 9 0.06
27 7 0.05
28 14 0.09
29 32 0.21
30 19 0.13
31 3 0.02
32 1 0.01
33 5 0.03
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.42
Consensus pattern (24 bp):
TATATAATATAATATTTTTAAAAC
Found at i:1919087 original size:29 final size:28
Alignment explanation
Indices: 1919040--1919264 Score: 227
Period size: 29 Copynumber: 8.1 Consensus size: 28
1919030 ATTATTGTTT
* *
1919040 TTTTAAAAACTATAT-ATATAATATAACA
1 TTTTCAAAACTATATAATATAATAT-ATA
*
1919068 TTTTCAAAACTATATAATATAGTATGATA
1 TTTTCAAAACTATATAATATAATAT-ATA
*
1919097 TTTTTAAAACTATAT-ATATAATATAATA
1 TTTTCAAAACTATATAATATAATAT-ATA
*
1919125 TTTTCAAAACTATATAATATAGTATGATA
1 TTTTCAAAACTATATAATATAATAT-ATA
* *
1919154 TTTTTAAAACTACATAATAT-A-ATAT-
1 TTTTCAAAACTATATAATATAATATATA
*
1919179 TTTT-AAAACTATATACATATAATGTACTA
1 TTTTCAAAACTATATA-ATATAATATA-TA
* *
1919208 TTTTTAAAACTACAT-A-AT-ATA-ATA
1 TTTTCAAAACTATATAATATAATATATA
1919232 TTTTCAAAACTATATAATATAATATAATA
1 TTTTCAAAACTATATAATATAATAT-ATA
1919261 TTTT
1 TTTT
1919265 ATAATGTACT
Statistics
Matches: 165, Mismatches: 19, Indels: 25
0.79 0.09 0.12
Matches are distributed among these distances:
24 25 0.15
25 10 0.06
26 7 0.04
27 9 0.05
28 41 0.25
29 64 0.39
30 9 0.05
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (28 bp):
TTTTCAAAACTATATAATATAATATATA
Found at i:1919116 original size:57 final size:57
Alignment explanation
Indices: 1919039--1919264 Score: 292
Period size: 57 Copynumber: 4.1 Consensus size: 57
1919029 TATTATTGTT
*
1919039 TTTTTAAAAACTATATATATAATATAACATTTTCAAAACTATATAATATAGTATGATA
1 TTTTT-AAAACTATATATATAATATAATATTTTCAAAACTATATAATATAGTATGATA
1919097 TTTTTAAAACTATATATATAATATAATATTTTCAAAACTATATAATATAGTATGATA
1 TTTTTAAAACTATATATATAATATAATATTTTCAAAACTATATAATATAGTATGATA
* *
1919154 TTTTTAAAAC----TACATAATATAATATTTTTAAAACTATATACATATA--ATGTACTA
1 TTTTTAAAACTATATATATAATATAATATTTTCAAAACTATATA-ATATAGTATG-A-TA
* * *
1919208 TTTTTAAAAC----TACATAATATAATATTTTCAAAACTATATAATATAATATAATA
1 TTTTTAAAACTATATATATAATATAATATTTTCAAAACTATATAATATAGTATGATA
1919261 TTTT
1 TTTT
1919265 ATAATGTACT
Statistics
Matches: 158, Mismatches: 5, Indels: 15
0.89 0.03 0.08
Matches are distributed among these distances:
52 3 0.02
53 40 0.25
54 47 0.30
55 2 0.01
57 61 0.39
58 5 0.03
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.43
Consensus pattern (57 bp):
TTTTTAAAACTATATATATAATATAATATTTTCAAAACTATATAATATAGTATGATA
Found at i:1919226 original size:83 final size:76
Alignment explanation
Indices: 1919057--1919256 Score: 220
Period size: 83 Copynumber: 2.5 Consensus size: 76
1919047 AACTATATAT
* *
1919057 ATAATATAACATTTTCAAAACTATATAATATAGTATGATATTTTTAAAACTATATATATAATATA
1 ATAATATAATATTTTCAAAACTACAT-A-ATA-TA--ATATTTTTAAAACTATATATATAATATA
*
1919122 ATATTTTCAAAACTAT
61 ATATTTTCAAAACTAC
* *
1919138 ATAATATAGTATGATATTTTTAAAACTACATAATATAATATTTTTAAAACTATATACATATAATG
1 AT-A-ATA-TA--ATATTTTCAAAACTACATAATATAATATTTTTAAAACTATAT--ATATAATA
* *
1919203 TACTATTTTTAAAACTAC
59 TAATATTTTCAAAACTAC
*
1919221 ATAATATAATATTTTCAAAACTATATAATATAATAT
1 ATAATATAATATTTTCAAAACTACATAATATAATAT
1919257 AATATTTTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
78 26 0.25
80 2 0.02
81 23 0.22
82 2 0.02
83 29 0.28
84 5 0.05
85 1 0.01
86 15 0.15
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (76 bp):
ATAATATAATATTTTCAAAACTACATAATATAATATTTTTAAAACTATATATATAATATAATATT
TTCAAAACTAC
Found at i:1919289 original size:44 final size:45
Alignment explanation
Indices: 1919232--1919316 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
1919222 TAATATAATA
*
1919232 TTTTCAAAACTATATAATATAATATAATATTTTATA-ATGTACTGC
1 TTTTCAAAACTATATAATATAATA-AATATTTAATATATGTACTGC
*
1919277 TTTT-AAATCTATATAATATAATAAATATTTAATATATGTA
1 TTTTCAAAACTATATAATATAATAAATATTTAATATATGTA
1919317 ATACTGTGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 10 0.27
44 23 0.62
45 4 0.11
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.46
Consensus pattern (45 bp):
TTTTCAAAACTATATAATATAATAAATATTTAATATATGTACTGC
Found at i:1920034 original size:15 final size:15
Alignment explanation
Indices: 1920000--1920035 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
1919990 AAATTAAGAT
1920000 TTTC-TTTTTCAAAA
1 TTTCATTTTTCAAAA
1920014 --TCATTTTTCAAAA
1 TTTCATTTTTCAAAA
1920027 TTTCATTTT
1 TTTCATTTT
1920036 GTTTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.11
13 10 0.53
15 7 0.37
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTCATTTTTCAAAA
Found at i:1920051 original size:18 final size:20
Alignment explanation
Indices: 1920018--1920063 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
1920008 TCAAAATCAT
1920018 TTTTCAAAATTTCA-TTTTG
1 TTTTCAAAATTTCATTTTTG
1920037 TTTTCAAAA-TTCATTTTTG
1 TTTTCAAAATTTCATTTTTG
*
1920056 ATTTCAAA
1 TTTTCAAA
1920064 TGAAAATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTCAAAATTTCATTTTTG
Found at i:1922014 original size:40 final size:40
Alignment explanation
Indices: 1921967--1922080 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
1921957 GTCTTGCCTT
* * * * *
1921967 TGGTATCGATATTACTAGAACAATATTGGTGTTGTTCATG
1 TGGTATCGATACTACAAGAACAATATCGATATTGTTCATG
*
1922007 TGGTATCGATACTACCAGAACAATATCGATATTGTTCATG
1 TGGTATCGATACTACAAGAACAATATCGATATTGTTCATG
*
1922047 TGGTATCGATACTACAAGAACAATATCGGTATTG
1 TGGTATCGATACTACAAGAACAATATCGATATTG
1922081 CTTTGCCAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (40 bp):
TGGTATCGATACTACAAGAACAATATCGATATTGTTCATG
Found at i:1928557 original size:19 final size:20
Alignment explanation
Indices: 1928527--1928564 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1928517 CAGCATTTAA
1928527 TTATGACATCCTTTCATGCC
1 TTATGACATCCTTTCATGCC
1928547 TTATG-CATCCTTTCATGC
1 TTATGACATCCTTTCATGC
1928565 ATTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (20 bp):
TTATGACATCCTTTCATGCC
Found at i:1928616 original size:46 final size:46
Alignment explanation
Indices: 1928476--1928890 Score: 606
Period size: 46 Copynumber: 9.1 Consensus size: 46
1928466 TCCATTTATT
* * *
1928476 CATTTAAATTATGGCATCC-TTCATTCCTTAATTCATCCTTTCA-G
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
1928520 CA-TTTAATTATGACATCCTTTCATGCCTT-ATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
1928564 CATTTTAATTATGGCATCCTTACATGCCTTAATGCATCATTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* * *
1928610 CATTTTAATTATGGCATCCTTTCATGTCATAATACATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* * *
1928656 CATTTTAATTATGGCATTCTTTCATGGCTTAATACATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
1928702 CATTTTAATTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
** * *
1928748 CATTTTAATTATGATATCCCTTCATGCCTTACTGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
1928794 CATTTTAATTATGGCATCCTTTCATGCCTTAATACATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
1928840 CA-TTTAACTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
1928885 CTTTTT
1 CATTTT
1928891 TTACATACTC
Statistics
Matches: 333, Mismatches: 33, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
43 26 0.08
44 14 0.04
45 66 0.20
46 227 0.68
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (46 bp):
CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
Found at i:1928699 original size:20 final size:20
Alignment explanation
Indices: 1928624--1928701 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 20
1928614 TTAATTATGG
* *
1928624 CATCCTTTCATGTCATAATA
1 CATCCTTTCATGGCTTAATA
1928644 CATCCTTTCAT-GCATTTTAATTA
1 CATCCTTTCATGGC---TTAA-TA
*
1928667 TGGCATTCTTTCATGGCTTAATA
1 ---CATCCTTTCATGGCTTAATA
1928690 CATCCTTTCATG
1 CATCCTTTCATG
1928702 CATTTTAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
19 1 0.02
20 22 0.48
22 3 0.07
23 4 0.09
24 4 0.09
26 10 0.22
27 2 0.04
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (20 bp):
CATCCTTTCATGGCTTAATA
Found at i:1935475 original size:20 final size:20
Alignment explanation
Indices: 1935446--1935926 Score: 248
Period size: 20 Copynumber: 21.7 Consensus size: 20
1935436 TTAAATTATG
1935446 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
1935466 GCATCATTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
1935491 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
**
1935512 GCATCCTTTCATGAATTTTATTAT
1 GCATCCTTTCATG--CCTTA--AT
1935536 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* **
1935557 ACATCCTTTCATGTATTTTAATTGT
1 GCATCCTTTCATG--CCTTAA---T
*
1935582 GGCATAC-TTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* * *
1935602 ACATCATTTCATGCATTTTTAATTAT
1 GCATCCTTTCATGC---CTT-A--AT
1935628 GTCATCCTTTCATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
* *
1935649 ACATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
* *
1935674 GGCATCCCTTCATTCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
1935695 GCATCCTTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
*
1935720 GGCATCCCTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
1935741 G-ATCATTTCATGCATTTTATTAT
1 GCATCCTTTCATGC--CTTA--AT
1935764 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
**
1935785 AAATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
1935805 ACATCCTTTAATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
1935825 GCATCATTTCATGCATTTTAATTAT
1 GCATCCTTTCATGC--CTT-A--AT
*
1935850 GGGATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
1935871 GCATCCTTTCATGCATTTTAAT
1 GCATCCTTTCATGC--CTTAAT
1935893 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
1935914 GCATCC-TTCATGC
1 GCATCCTTTCATGC
1935927 ATTTTAATTA
Statistics
Matches: 357, Mismatches: 52, Indels: 105
0.69 0.10 0.20
Matches are distributed among these distances:
19 20 0.06
20 138 0.39
21 22 0.06
22 20 0.06
23 37 0.10
24 14 0.04
25 39 0.11
26 55 0.15
27 12 0.03
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:1935483 original size:46 final size:46
Alignment explanation
Indices: 1935433--1935952 Score: 735
Period size: 46 Copynumber: 11.6 Consensus size: 46
1935423 CATCCATATA
* *
1935433 CATTTAAATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1935479 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
1935525 AATTTT-ATTATGGCATCCTTTCATGCCTTAATACATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* * * * *
1935570 TATTTTAATTGTGGCATAC-TTCATGCCTTAATACATCATTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
1935615 CATTTTTAATTATGTCATCCTTTCATGCCTTAATACATCCTTTCATG
1 CA-TTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
1935662 CATTTTAATTATGGCATCCCTTCATTCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
1935708 CATTTTAATTATGGCATCCCTTCATGCCTTAATG-ATCATTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
**
1935753 CATTTT-ATTATGGCATCCTTTCATGCCTTAATAAATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* * *
1935798 C--CTTAA-TA---CATCCTTTAATGCCTTAATGCATCATTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
1935838 CATTTTAATTATGGGATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1935884 CATTTT-A--ATGGCATCCTTTCATGCCTTAATGCATCC-TTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
1935926 CATTTTAATTATGGCATCATTTCATGC
1 CATTTTAATTATGGCATCCTTTCATGC
1935953 ATTTTTACAT
Statistics
Matches: 427, Mismatches: 33, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
40 29 0.07
42 16 0.04
43 35 0.08
44 26 0.06
45 113 0.26
46 181 0.42
47 27 0.06
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.43
Consensus pattern (46 bp):
CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
Found at i:1935752 original size:183 final size:177
Alignment explanation
Indices: 1935439--1935952 Score: 725
Period size: 183 Copynumber: 2.9 Consensus size: 177
1935429 TATACATTTA
1935439 AATTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTCAT
1 AATTAT-GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTCAT
* *
1935504 GCCTTAATGCATCCTTTCATGAATTTTATTATGGCATCCTTTCATGCCTTAATACATCCTTTCAT
65 GCCTTAATGCATCCTTTCATGCATTTTATTATGGCATCCTTTCATGCCTTAAT-GAT-CTTTCAT
* * * *
1935569 GTATTTTAATTGTGGCATACTTCATGCCTTAATACATCATTTCATGCATTTTT
128 GCATTTTAATTATGGCATACTTCATGCCTTAATAAATCATTTCATGC---CTT
* * *
1935622 AATTATGTCATCCTTTCATGCCTTAATACATCCTTTCATGCATTTTAATTATGGCATCCCTTCAT
1 AATTATG-CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTCAT
* *
1935687 TCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCCCTTCATGCCTTAATGATCATTTCAT
65 GCCTTAATGCATCCTTTCATGCATTTT-ATTATGGCATCCTTTCATGCCTTAATGATC-TTTCAT
* *
1935752 GCATTTT-ATTATGGCATCCTTTCATGCCTTAATAAATCCTTTCATGCCTT
128 GCATTTTAATTATGGCATAC-TTCATGCCTTAATAAATCATTTCATGCCTT
* *
1935802 AA-TA--CATCCTTTAATGCCTTAATGCATCATTTCATGCATTTTAATTATGGGATCCTTTCATG
1 AATTATGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTCATG
*
1935864 CCTTAATGCATCCTTTCATGCATTTTA--ATGGCATCCTTTCATGCCTTAATGCATCCTTCATGC
66 CCTTAATGCATCCTTTCATGCATTTTATTATGGCATCCTTTCATGCCTTAATG-ATCTTTCATGC
*
1935927 ATTTTAATTATGGCATCATTTCATGC
130 ATTTTAATTATGGCAT-ACTTCATGC
1935953 ATTTTTACAT
Statistics
Matches: 301, Mismatches: 23, Indels: 23
0.87 0.07 0.07
Matches are distributed among these distances:
173 35 0.12
174 20 0.07
175 1 0.00
176 78 0.26
179 2 0.01
180 4 0.01
182 12 0.04
183 124 0.41
184 25 0.08
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.43
Consensus pattern (177 bp):
AATTATGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATGGCATCCTTTCATG
CCTTAATGCATCCTTTCATGCATTTTATTATGGCATCCTTTCATGCCTTAATGATCTTTCATGCA
TTTTAATTATGGCATACTTCATGCCTTAATAAATCATTTCATGCCTT
Found at i:1936490 original size:94 final size:94
Alignment explanation
Indices: 1936329--1936510 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 94
1936319 ATAATTATAT
* *
1936329 TATGGTACTGATACCCCCTTCTAGTATCGATACCAATTTTAAATTCGATGTTTCCTGGTATCGAT
1 TATGGTACCGATACCCCCTTCTAATATCGATACCAATTTTAAATTCGATGTTTCCTGGTATCGAT
1936394 ACCCTTATCATGGTATC-ATACTATCCTAC
66 ACCCTTA-CATGGTATCGATACTATCCTAC
* ** *
1936423 TATGGTACCGATACCCGCTTAC-AATATCGATACTGATTTTAGATTCGATGTTGT-CTGGTATCG
1 TATGGTACCGATACCCCCTT-CTAATATCGATACCAATTTTAAATTCGATGTT-TCCTGGTATCG
1936486 ATACCCTTACATGGTATCGATACTA
64 ATACCCTTACATGGTATCGATACTA
1936511 CCTCGTAGGT
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
93 9 0.11
94 68 0.86
95 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (94 bp):
TATGGTACCGATACCCCCTTCTAATATCGATACCAATTTTAAATTCGATGTTTCCTGGTATCGAT
ACCCTTACATGGTATCGATACTATCCTAC
Found at i:1936545 original size:94 final size:94
Alignment explanation
Indices: 1936329--1936551 Score: 244
Period size: 94 Copynumber: 2.4 Consensus size: 94
1936319 ATAATTATAT
* ** *
1936329 TATGGTACTGATACCCCCTT-CTAGTATCGATACCAATTTTAAATTCGATGTTTCCTGGTATCGA
1 TATGGTACCGATACCCGATTAC-AGTATCGATACTAATTTTAAATTCGATGTTTCCTGGTATCGA
1936393 TACCCTTATCATGGTATCATACTATCCTAC
65 TACCCTTATCATGGTATCATACTATCCTAC
* * * *
1936423 TATGGTACCGATACCCGCTTACAATATCGATACTGATTTTAGATTCGATGTTGT-CTGGTATCGA
1 TATGGTACCGATACCCGATTACAGTATCGATACTAATTTTAAATTCGATGTT-TCCTGGTATCGA
1936487 TACCCTTA-CATGGTATCGATACTA-CCT-C
65 TACCCTTATCATGGTATC-ATACTATCCTAC
* *
1936515 GTA-GGTATCGATA-CTGATTGAATCAGTATCGATACTA
1 -TATGGTACCGATACCCGATT--A-CAGTATCGATACTA
1936552 CACTACTATT
Statistics
Matches: 111, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
91 4 0.04
92 10 0.09
93 15 0.14
94 80 0.72
95 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (94 bp):
TATGGTACCGATACCCGATTACAGTATCGATACTAATTTTAAATTCGATGTTTCCTGGTATCGAT
ACCCTTATCATGGTATCATACTATCCTAC
Found at i:1951032 original size:5 final size:5
Alignment explanation
Indices: 1951022--1951049 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1951012 GCAAAAGACA
1951022 TGAGG TGAGG TGAGG TGAGG TGAGG TGA
1 TGAGG TGAGG TGAGG TGAGG TGAGG TGA
1951050 TAATGAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.57, T:0.21
Consensus pattern (5 bp):
TGAGG
Found at i:1952766 original size:260 final size:257
Alignment explanation
Indices: 1952397--1952901 Score: 854
Period size: 260 Copynumber: 1.9 Consensus size: 257
1952387 TTATTGTTAG
* *
1952397 TTTTTCAAATTTTCAGAATAATTTTAATTAAAATACATTCTGAAAATATCTTTTTATGTTTTCAT
1 TTTTTCAAATTTTCAGAATAATTTTAATGAAAATA-A-TCTGAAAACATCTTTTTATGTTTTCAT
*
1952462 ATTTTTTTTTTGTTTTCATTTTCTCGAAATCATTTTTCAATTTTACAATCAAACATGTTTATTCA
64 ATTTTTTTTTTGTTTTCATTTTCTAGAAATCATTTTTCAATTTTACAATCAAACATGTTTATTCA
* *
1952527 ACGTTTTCTATTTTCTAAGAAAATGAAAATAACATTTATTTTCTAAAATCAAACGGACCCTTAAG
129 ACGTTTTCTATTTTCTAAGAAAATGAAAATAACATTTATTTTATAAAATCAAACGGACACTTAAG
1952592 ATTTTTATTTAGAAATTTGAGCTTAAAGATTTTAGGAGTTTAAAGCTACACTCATATTTCCTTA
194 ATTTTTATTTAGAAATTTGAGCTTAAAGATTTTAGGAGTTTAAAGCTACACTCATATTTCCTTA
1952656 TTTTTCAAATTTTCAGAATAATTTTAATGAAAAT-A-CTGAAAACATCTTTTTATGTTTTCATCT
1 TTTTTCAAATTTTCAGAATAATTTTAATGAAAATAATCTGAAAACATCTTTTTATGTTTTCA---
*
1952719 TCTTGTTTATTTTTGTTTTCATTTTCTAGAAATCA-TTTTCTAATTTTACAATCAAACATGTTTA
63 TATT-TTT-TTTTTGTTTTCATTTTCTAGAAATCATTTTTC-AATTTTACAATCAAACATGTTTA
*
1952783 TTCAACGTTTTCTATTTTCTAAGAAAATGAAAATAACCTTTATTTTATAAAATCAAACGGACACT
125 TTCAACGTTTTCTATTTTCTAAGAAAATGAAAATAACATTTATTTTATAAAATCAAACGGACACT
1952848 TAAGATTTTTATTTAGAAATTTGAGCTTAAAGATTTTAGGAGTTTAAAGCTACA
190 TAAGATTTTTATTTAGAAATTTGAGCTTAAAGATTTTAGGAGTTTAAAGCTACA
1952902 ATTAACGGTA
Statistics
Matches: 233, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
255 24 0.10
257 1 0.00
258 3 0.01
259 41 0.18
260 164 0.70
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (257 bp):
TTTTTCAAATTTTCAGAATAATTTTAATGAAAATAATCTGAAAACATCTTTTTATGTTTTCATAT
TTTTTTTTTGTTTTCATTTTCTAGAAATCATTTTTCAATTTTACAATCAAACATGTTTATTCAAC
GTTTTCTATTTTCTAAGAAAATGAAAATAACATTTATTTTATAAAATCAAACGGACACTTAAGAT
TTTTATTTAGAAATTTGAGCTTAAAGATTTTAGGAGTTTAAAGCTACACTCATATTTCCTTA
Done.