Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 29
Found at i:5283978 original size:18 final size:18
Alignment explanation
Indices: 5283955--5283991 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5283945 GAATTACAAC
5283955 AATGACAATGAAAGCAAT
1 AATGACAATGAAAGCAAT
5283973 AATGACAATGAAAGCAAT
1 AATGACAATGAAAGCAAT
5283991 A
1 A
5283992 GATCGGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.16, T:0.16
Consensus pattern (18 bp):
AATGACAATGAAAGCAAT
Found at i:5286872 original size:65 final size:64
Alignment explanation
Indices: 5286760--5286916 Score: 160
Period size: 65 Copynumber: 2.4 Consensus size: 64
5286750 AATTAAATTG
* * * *
5286760 AACATCAAATGCATTTCATGCATTGATGCACATACCATGCACTGATGCACTGAGGA-T-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATACACTGATGCACT-AGGACTATTT-TG
5286823 A
64 A
* **
5286824 AACCATCGAATGCATTTGATGCATCGATGCACCA-GCCATACA-TCGATGCACTCTGACTATTTT
1 AA-CATCGAATGCATTTGATGCATCGATGCA-CATACCATACACT-GATGCACTAGGACTATTTT
5286887 GA
63 GA
* *
5286889 AACATCGAATTCACTTGATGCATCGATG
1 AACATCGAATGCATTTGATGCATCGATG
5286917 TACTCTTAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
64 29 0.37
65 45 0.57
66 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACATACCATACACTGATGCACTAGGACTATTTTGA
Found at i:5288843 original size:77 final size:81
Alignment explanation
Indices: 5288757--5288918 Score: 260
Period size: 84 Copynumber: 2.0 Consensus size: 81
5288747 ATGATGAGCT
5288757 ATTAGAGGAATATAATGGG-TGGCTTCGGATTCTGAGAAA-TGTTTTTAAAA-AT-AATGATGTT
1 ATTAGAGGAATATAATGGGTTGGCTTCGGATTCTGAGAAATTGTTTTTAAAATATAAATGATGTT
5288818 TTAAAATTGAAAAATG
66 TTAAAATTGAAAAATG
*
5288834 ATTAGAGGAATATACTGGGTTTGGCTTCGGATTCTGAGAAATTGTTTTTAAAATATAAAAATGAT
1 ATTAGAGGAATATAATGGG-TTGGCTTCGGATTCTGAGAAATTGTTTTTAAAATAT--AAATGAT
5288899 GTTTTAAAATTGAAAAATG
63 GTTTTAAAATTGAAAAATG
5288918 A
1 A
5288919 AAATAAACTC
Statistics
Matches: 77, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
77 18 0.23
79 20 0.26
80 11 0.14
81 2 0.03
84 26 0.34
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (81 bp):
ATTAGAGGAATATAATGGGTTGGCTTCGGATTCTGAGAAATTGTTTTTAAAATATAAATGATGTT
TTAAAATTGAAAAATG
Found at i:5288905 original size:21 final size:21
Alignment explanation
Indices: 5288879--5288918 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5288869 GAGAAATTGT
5288879 TTTTAAAATAT-AAAAATGATG
1 TTTTAAAAT-TGAAAAATGATG
5288900 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
5288919 AAATAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATG
Found at i:5295591 original size:46 final size:45
Alignment explanation
Indices: 5295535--5295638 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
5295525 TGCACATACC
* * *
5295535 ATGCACCGATGCACTGAGGAT-TTTATGAAACCATCGAATGCATTTG
1 ATGCATCGATGCACTCAGGATATTT-TGAAA-CATCGAATGCACTTG
* *
5295581 ATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTG
*
5295626 ATGCATTGATGCA
1 ATGCATCGATGCA
5295639 ATCTTAGTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 26 0.51
46 22 0.43
47 3 0.06
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (45 bp):
ATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCACTTG
Found at i:5297208 original size:17 final size:19
Alignment explanation
Indices: 5297188--5297228 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
5297178 TAATGTAATT
5297188 AATTTAATAATT-TTTTA-
1 AATTTAATAATTATTTTAC
* *
5297205 AATTTTATGATTATTTTAC
1 AATTTAATAATTATTTTAC
5297224 AATTT
1 AATTT
5297229 TTTACAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.50
18 5 0.25
19 5 0.25
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
AATTTAATAATTATTTTAC
Found at i:5308420 original size:12 final size:12
Alignment explanation
Indices: 5308399--5308486 Score: 104
Period size: 12 Copynumber: 7.3 Consensus size: 12
5308389 TTTATCTTAA
5308399 TTCTGTTCTGAT
1 TTCTGTTCTGAT
* *
5308411 TTCTGCTCTGAA
1 TTCTGTTCTGAT
5308423 TTCTGTTCTGAT
1 TTCTGTTCTGAT
* * *
5308435 TTTTGCTCTGAA
1 TTCTGTTCTGAT
* *
5308447 TTCTATTATGAT
1 TTCTGTTCTGAT
*
5308459 TTCTGCTCTGAT
1 TTCTGTTCTGAT
5308471 TTCTGTTCTGAT
1 TTCTGTTCTGAT
5308483 TTCT
1 TTCT
5308487 AATATCTCCG
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 60 1.00
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (12 bp):
TTCTGTTCTGAT
Found at i:5308424 original size:24 final size:24
Alignment explanation
Indices: 5308397--5308486 Score: 144
Period size: 24 Copynumber: 3.8 Consensus size: 24
5308387 ATTTTATCTT
5308397 AATTCTGTTCTGATTTCTGCTCTG
1 AATTCTGTTCTGATTTCTGCTCTG
*
5308421 AATTCTGTTCTGATTTTTGCTCTG
1 AATTCTGTTCTGATTTCTGCTCTG
* *
5308445 AATTCTATTATGATTTCTGCTCTG
1 AATTCTGTTCTGATTTCTGCTCTG
*
5308469 ATTTCTGTTCTGATTTCT
1 AATTCTGTTCTGATTTCT
5308487 AATATCTCCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.53
Consensus pattern (24 bp):
AATTCTGTTCTGATTTCTGCTCTG
Found at i:5311413 original size:5 final size:5
Alignment explanation
Indices: 5311393--5311445 Score: 65
Period size: 5 Copynumber: 10.6 Consensus size: 5
5311383 GACCGGTCTA
*
5311393 ACCCG A-CCG A-CCG ACCCG ACCCG ACCGTTG ACCCG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACC--CG ACCCG ACCCG ACCCG ACCCG
5311443 ACC
1 ACC
5311446 ATTGACCGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 8 0.19
5 31 0.72
7 4 0.09
ACGTcount: A:0.21, C:0.55, G:0.21, T:0.04
Consensus pattern (5 bp):
ACCCG
Found at i:5311433 original size:27 final size:26
Alignment explanation
Indices: 5311399--5311452 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
5311389 TCTAACCCGA
*
5311399 CCGACCGACCCGACCCGACCGTTGAC
1 CCGACCGACCCGACCCGACCATTGAC
5311425 CCGACCCGACCCGACCCGACCATTGAC
1 CCGA-CCGACCCGACCCGACCATTGAC
5311452 C
1 C
5311453 GTTGACCGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.20, C:0.52, G:0.20, T:0.07
Consensus pattern (26 bp):
CCGACCGACCCGACCCGACCATTGAC
Found at i:5311457 original size:7 final size:7
Alignment explanation
Indices: 5311442--5311472 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
5311432 GACCCGACCC
*
5311442 GACCATT
1 GACCGTT
5311449 GACCGTT
1 GACCGTT
5311456 GACCGTT
1 GACCGTT
5311463 GACCGTT
1 GACCGTT
5311470 GAC
1 GAC
5311473 TTTCTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:5318701 original size:18 final size:18
Alignment explanation
Indices: 5318689--5318738 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
5318679 TGACCGGTCT
5318689 GACCCGACCGACCGACCC
1 GACCCGACCGACCGACCC
**
5318707 GACCCGACCG-TTGACCC
1 GACCCGACCGACCGACCC
*
5318724 AACCCGACCCGACCG
1 GACCCGA-CCGACCG
5318739 TTGACCGTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 11 0.44
18 13 0.52
19 1 0.04
ACGTcount: A:0.22, C:0.52, G:0.22, T:0.04
Consensus pattern (18 bp):
GACCCGACCGACCGACCC
Found at i:5318728 original size:22 final size:22
Alignment explanation
Indices: 5318703--5318744 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
5318693 CGACCGACCG
5318703 ACCCGACCCGACCGTTGACCCA
1 ACCCGACCCGACCGTTGACCCA
5318725 ACCCGACCCGACCGTTGACC
1 ACCCGACCCGACCGTTGACC
5318745 GTTGACCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.50, G:0.19, T:0.10
Consensus pattern (22 bp):
ACCCGACCCGACCGTTGACCCA
Found at i:5321699 original size:24 final size:24
Alignment explanation
Indices: 5321672--5321765 Score: 118
Period size: 24 Copynumber: 3.9 Consensus size: 24
5321662 GAGTATTTTA
5321672 TCTGAATTTTGTTCTAATTTCTAC
1 TCTGAATTTTGTTCTAATTTCTAC
* * *
5321696 TCTGAATTCTGTACTGATTTCTAC
1 TCTGAATTTTGTTCTAATTTCTAC
* *
5321720 TCTGAATTTTGTTCTAATTTTTGC
1 TCTGAATTTTGTTCTAATTTCTAC
*
5321744 TCTG-ATTTCTGTTCTGATTTCT
1 TCTGAATTT-TGTTCTAATTTCT
5321766 GATATCTCCG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 4 0.07
24 55 0.93
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.54
Consensus pattern (24 bp):
TCTGAATTTTGTTCTAATTTCTAC
Found at i:5321724 original size:12 final size:12
Alignment explanation
Indices: 5321688--5321766 Score: 63
Period size: 12 Copynumber: 6.6 Consensus size: 12
5321678 TTTTGTTCTA
*
5321688 ATTTCTACTCTG
1 ATTTCTGCTCTG
*
5321700 AATTCTG-TACTG
1 ATTTCTGCT-CTG
*
5321712 ATTTCTACTCTG
1 ATTTCTGCTCTG
* *
5321724 AATTT-TGTTCTA
1 -ATTTCTGCTCTG
*
5321736 ATTTTTGCTCTG
1 ATTTCTGCTCTG
*
5321748 ATTTCTGTTCTG
1 ATTTCTGCTCTG
5321760 ATTTCTG
1 ATTTCTG
5321767 ATATCTCCGT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
11 5 0.10
12 42 0.81
13 5 0.10
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (12 bp):
ATTTCTGCTCTG
Found at i:5321747 original size:48 final size:48
Alignment explanation
Indices: 5321672--5321765 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
5321662 GAGTATTTTA
5321672 TCTGAATTTTGTTCTAATTTCTACTCTGAATTCTGTACTGATTTCTAC
1 TCTGAATTTTGTTCTAATTTCTACTCTGAATTCTGTACTGATTTCTAC
* * * *
5321720 TCTGAATTTTGTTCTAATTTTTGCTCTGATTTCTGTTCTGATTTCT
1 TCTGAATTTTGTTCTAATTTCTACTCTGAATTCTGTACTGATTTCT
5321766 GATATCTCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.54
Consensus pattern (48 bp):
TCTGAATTTTGTTCTAATTTCTACTCTGAATTCTGTACTGATTTCTAC
Found at i:5321944 original size:31 final size:30
Alignment explanation
Indices: 5321909--5321983 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
5321899 TATGGCGACC
* *
5321909 CTTGGGTAGGCTCTGTGGCCCTA-ATATTTTT
1 CTTGGGTAGGCTCTGTGGCCCGAGA-A-TATT
* *
5321940 CTTGGGAAGGCCTTTGTGGCCCGAGAATATT
1 CTTGGGTAGG-CTCTGTGGCCCGAGAATATT
5321971 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
5321984 ACAGGCTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
30 2 0.06
31 21 0.58
32 12 0.33
33 1 0.03
ACGTcount: A:0.15, C:0.20, G:0.31, T:0.35
Consensus pattern (30 bp):
CTTGGGTAGGCTCTGTGGCCCGAGAATATT
Found at i:5331702 original size:2 final size:2
Alignment explanation
Indices: 5331697--5331721 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5331687 GTGTACTAAA
5331697 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
5331722 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5335140 original size:103 final size:103
Alignment explanation
Indices: 5334812--5335132 Score: 615
Period size: 103 Copynumber: 3.1 Consensus size: 103
5334802 GTCGAGGGTC
*
5334812 TATGTGGTCCTTCGGGACATATATGTATTCGTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5334877 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
5334915 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5334980 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
5335018 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
5335083 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATTA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
5335121 TATGTGGTCCTT
1 TATGTGGTCCTT
5335133 ATGGACATTA
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 215 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:5335193 original size:47 final size:47
Alignment explanation
Indices: 5335139--5335237 Score: 189
Period size: 47 Copynumber: 2.1 Consensus size: 47
5335129 CCTTATGGAC
5335139 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
*
5335186 ATTATTATATGGCACTACGGTGCAATTCTACGCGGTACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
5335233 ATTAT
1 ATTAT
5335238 ATGTGGCCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (47 bp):
ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTCCGGTGCA
Found at i:5335206 original size:24 final size:24
Alignment explanation
Indices: 5335139--5335212 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
5335129 CCTTATGGAC
5335139 ATTATTATATGGCACTACGGTGCA
1 ATTATTATATGGCACTACGGTGCA
* *** *
5335163 ATT-CTACGCGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCA
5335186 ATTATTATATGGCACTACGGTGCA
1 ATTATTATATGGCACTACGGTGCA
5335210 ATT
1 ATT
5335213 CTACGCGGTA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 18 0.46
24 21 0.54
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (24 bp):
ATTATTATATGGCACTACGGTGCA
Found at i:5335252 original size:23 final size:23
Alignment explanation
Indices: 5335142--5335263 Score: 104
Period size: 23 Copynumber: 5.3 Consensus size: 23
5335132 TATGGACATT
*
5335142 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTCCGGTGCA
* *
5335163 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGCGGCACTCCGGTGCA
** *
5335186 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGCGGCACTCCGGTGCA
* * *
5335210 ATTCTACGCGGTACTCCGGTGCA
1 ATTATATGCGGCACTCCGGTGCA
* * * *
5335233 ATTATATGTGGCCCTTCGGTGAA
1 ATTATATGCGGCACTCCGGTGCA
5335256 ATTATATG
1 ATTATATG
5335264 AGCTGTGGTG
Statistics
Matches: 77, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
21 5 0.06
23 54 0.70
24 18 0.23
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (23 bp):
ATTATATGCGGCACTCCGGTGCA
Found at i:5341098 original size:103 final size:103
Alignment explanation
Indices: 5340919--5341238 Score: 588
Period size: 103 Copynumber: 3.1 Consensus size: 103
5340909 GTCGAGGGTC
*
5340919 TATGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5340984 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
5341022 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
5341087 TTGATCCTTGGCATATGTATATAATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
5341125 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTATGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5341190 TTGATCCTTGGCATATGTA-ATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
5341227 TATGTAGTCCTT
1 TATGTGGTCCTT
5341239 ATGGACATTA
Statistics
Matches: 211, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
102 28 0.13
103 183 0.87
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:5341299 original size:47 final size:47
Alignment explanation
Indices: 5341245--5341364 Score: 179
Period size: 47 Copynumber: 2.6 Consensus size: 47
5341235 CCTTATGGAC
*
5341245 ATTATTATATGGCACTACGGTGCAATTCTACAAGGCACTCCGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACAAGGCACTACGGTGCA
**
5341292 ATTATTATATGGCACTACGGTGCAATTCTACGCGGCACTACGGTGCA
1 ATTATTATATGGCACTACGGTGCAATTCTACAAGGCACTACGGTGCA
* * *
5341339 ATTA-TATGTGGCACTTCGGTGAAATT
1 ATTATTATATGGCACTACGGTGCAATT
5341365 ATATGAGCTG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 19 0.28
47 48 0.72
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (47 bp):
ATTATTATATGGCACTACGGTGCAATTCTACAAGGCACTACGGTGCA
Found at i:5341351 original size:23 final size:23
Alignment explanation
Indices: 5341245--5341368 Score: 131
Period size: 23 Copynumber: 5.3 Consensus size: 23
5341235 CCTTATGGAC
5341245 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATATGGCACTACGGTGCA
* * * *
5341269 ATTCTACAAGGCACTCCGGTGCA
1 ATTATATATGGCACTACGGTGCA
5341292 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATATGGCACTACGGTGCA
* ***
5341316 ATTCTACGCGGCACTACGGTGCA
1 ATTATATATGGCACTACGGTGCA
* * *
5341339 ATTATATGTGGCACTTCGGTGAA
1 ATTATATATGGCACTACGGTGCA
5341362 ATTATAT
1 ATTATAT
5341369 GAGCTGTGGT
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
23 60 0.73
24 22 0.27
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (23 bp):
ATTATATATGGCACTACGGTGCA
Found at i:5342756 original size:21 final size:22
Alignment explanation
Indices: 5342722--5342801 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 22
5342712 GTATATTTTA
5342722 AATATATT-TATTATTAAAATAT
1 AATA-ATTATATTATTAAAATAT
5342744 AAT-ATTATATTATTAGAAATATT
1 AATAATTATATTATTA-AAATA-T
* *
5342767 AATAAATATATT-TTAAATATTT
1 AATAATTATATTATTAAA-ATAT
5342789 AATAATTAATATT
1 AATAATT-ATATT
5342802 TTGATTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
20 3 0.06
21 8 0.16
22 17 0.35
23 14 0.29
24 7 0.14
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (22 bp):
AATAATTATATTATTAAAATAT
Found at i:5343132 original size:23 final size:23
Alignment explanation
Indices: 5343098--5343160 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
5343088 GTGGCACCCG
* *
5343098 GTCAACATCTTCTAGAAGGCTTA
1 GTCAACAGCTTCTAGAAGGCCTA
5343121 GTCAACAGCTTCTAGAAGGCCTA
1 GTCAACAGCTTCTAGAAGGCCTA
*
5343144 ATCAACAGCTTCTAGAA
1 GTCAACAGCTTCTAGAA
5343161 TATCCAACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GTCAACAGCTTCTAGAAGGCCTA
Found at i:5344018 original size:5 final size:5
Alignment explanation
Indices: 5344010--5344049 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
5344000 TACCAATTGA
5344010 ATTTT ATTTT A-TTT ATTTACT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTT--T ATTTT ATTTT ATTTT ATTT
5344050 CAATCAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.12
5 23 0.72
7 5 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:5352637 original size:21 final size:21
Alignment explanation
Indices: 5352598--5352637 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5352588 AAATTGTTCA
*
5352598 AAAAAATACAGTGCAAAATCG
1 AAAAAATACAGTCCAAAATCG
5352619 AAAAAA-ACAGTCCAGAAAT
1 AAAAAATACAGTCCA-AAAT
5352638 TTACCCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.60, C:0.15, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAAATACAGTCCAAAATCG
Found at i:5352774 original size:11 final size:12
Alignment explanation
Indices: 5352756--5352785 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
5352746 TGGTTCGAGC
5352756 AGAAAAAAGAAA
1 AGAAAAAAGAAA
5352768 A-AAAAAAGAAA
1 AGAAAAAAGAAA
5352779 AGAAAAA
1 AGAAAAA
5352786 TGAGTGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AGAAAAAAGAAA
Found at i:5353640 original size:23 final size:23
Alignment explanation
Indices: 5353587--5353630 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
5353577 GACGTAGTTC
**
5353587 CCAGTCAATAGCTTCTAGAAGGA
1 CCAGTCAGCAGCTTCTAGAAGGA
5353610 CCAGTCAGCAGCTTCTAGAAG
1 CCAGTCAGCAGCTTCTAGAAG
5353631 ATCTGATCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (23 bp):
CCAGTCAGCAGCTTCTAGAAGGA
Found at i:5356049 original size:28 final size:28
Alignment explanation
Indices: 5356009--5356072 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
5355999 TTGTCTCGAC
5356009 GACATAATATTTCAAACGTTGGCTTGGT
1 GACATAATATTTCAAACGTTGGCTTGGT
5356037 GACATAATATTTCAAACGTTGGCTTGGT
1 GACATAATATTTCAAACGTTGGCTTGGT
5356065 GACATAAT
1 GACATAAT
5356073 GTAAACCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (28 bp):
GACATAATATTTCAAACGTTGGCTTGGT
Found at i:5358081 original size:120 final size:120
Alignment explanation
Indices: 5357934--5358174 Score: 482
Period size: 120 Copynumber: 2.0 Consensus size: 120
5357924 ATTCTTTGAA
5357934 ATGTGTACTTTTTGTCCTAGAGTGTATGAGGTGTATACACGGTTGGATTTGATTTTTGGGTAAAG
1 ATGTGTACTTTTTGTCCTAGAGTGTATGAGGTGTATACACGGTTGGATTTGATTTTTGGGTAAAG
5357999 TATGCATTTAACACATAAACTATCAGTTTTGGTTTATTTTAGTACTTAAACTTTT
66 TATGCATTTAACACATAAACTATCAGTTTTGGTTTATTTTAGTACTTAAACTTTT
5358054 ATGTGTACTTTTTGTCCTAGAGTGTATGAGGTGTATACACGGTTGGATTTGATTTTTGGGTAAAG
1 ATGTGTACTTTTTGTCCTAGAGTGTATGAGGTGTATACACGGTTGGATTTGATTTTTGGGTAAAG
5358119 TATGCATTTAACACATAAACTATCAGTTTTGGTTTATTTTAGTACTTAAACTTTT
66 TATGCATTTAACACATAAACTATCAGTTTTGGTTTATTTTAGTACTTAAACTTTT
5358174 A
1 A
5358175 ATTTTTTTCA
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (120 bp):
ATGTGTACTTTTTGTCCTAGAGTGTATGAGGTGTATACACGGTTGGATTTGATTTTTGGGTAAAG
TATGCATTTAACACATAAACTATCAGTTTTGGTTTATTTTAGTACTTAAACTTTT
Found at i:5361966 original size:43 final size:41
Alignment explanation
Indices: 5361891--5362009 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 41
5361881 AACCCGAATA
* * * *
5361891 TATTATTTTTTAAAATCATTAAACTGATATATTTTATAATTAGT
1 TATTATATTTT-AAATAATTAAA-TAATATATTTTATAA-TAAT
* *
5361935 TATTATATTTTAAATGATTAAAGTAATATATTTCATAATAAT
1 TATTATATTTTAAATAATTAAA-TAATATATTTTATAATAAT
*
5361977 TTTTATATTTT-AATAATTAAATAATATATTTTA
1 TATTATATTTTAAATAATTAAATAATATATTTTA
5362010 ATAAAAAATA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 11 0.17
41 9 0.14
42 13 0.20
43 23 0.35
44 10 0.15
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (41 bp):
TATTATATTTTAAATAATTAAATAATATATTTTATAATAAT
Found at i:5362004 original size:21 final size:21
Alignment explanation
Indices: 5361908--5362013 Score: 83
Period size: 21 Copynumber: 5.0 Consensus size: 21
5361898 TTTTAAAATC
*
5361908 ATTAAACTGATATATTTT-ATA
1 ATTAAA-TAATATATTTTAATA
** * *
5361929 ATTAGTTATTATATTTTAAATG
1 ATTAAATAATATATTTT-AATA
*
5361951 ATTAAAGTAATATA-TTTCATA
1 ATTAAA-TAATATATTTTAATA
* **
5361972 A-TAATTTTTATATTTTAATA
1 ATTAAATAATATATTTTAATA
5361992 ATTAAATAATATATTTTAATA
1 ATTAAATAATATATTTTAATA
5362013 A
1 A
5362014 AAAATAGAAT
Statistics
Matches: 63, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
19 5 0.08
20 19 0.30
21 24 0.38
22 9 0.14
23 6 0.10
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
ATTAAATAATATATTTTAATA
Found at i:5369833 original size:43 final size:42
Alignment explanation
Indices: 5369761--5370112 Score: 253
Period size: 43 Copynumber: 8.2 Consensus size: 42
5369751 TTTTAACAAA
*** * *
5369761 AAACGCCGCAATAGGTGACAACATATAGCGGCATTTTTTCAAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTTTTC-AC
* * * * *
5369804 AAACGCCGCAAAAGGTATTGATATTTAGCGGC-GTTTTGCAAA
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTTTTC-AC
* **
5369846 AAACGCCGCAATAGGTGTTGATATTTAACGGCA-TTTGGCAGAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTTTTC--AC
* * *
5369889 AAACGCCGCAATAGGCGTTGATGTTTAGCGGCGTTTTCTTCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTT-TTCAC
* * * *
5369932 AAACGCCGCAATAGGCGTTGATGTTTAGCGACGTTTTCTTCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTT-TTCAC
* * * * *
5369975 AAACTCCGCAGTAGATGTTGATATTTAGCGGC-GTTTTCCTAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTTTTC-AC
* * * * *
5370017 AAACGCCGCATAATATGTCTTGAGATTTAGCAGCATTTTCGTCGA-
1 AAACGCCGC--AATAGGTGTTGATATTTAGCGGCATTTT-TTC-AC
* * * * *
5370062 AAATGCCGCAATATGTCTTGAGATTTAGCGGCGTTTTTATCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTTT-TCAC
5370105 AAACGCCG
1 AAACGCCG
5370113 TTAAATATAT
Statistics
Matches: 251, Mismatches: 47, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.01
42 55 0.22
43 160 0.64
44 20 0.08
45 12 0.05
46 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (42 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTTTTCAC
Found at i:5369910 original size:85 final size:82
Alignment explanation
Indices: 5369757--5370098 Score: 261
Period size: 85 Copynumber: 4.0 Consensus size: 82
5369747 TTTTTTTTAA
*** * * * *
5369757 CAAAAAACGCCGCAATAGGTGACAACATATAGCGGCATTTTTTCAACAAACGCCGCAAAAGGTAT
1 CAAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCA--TTTTCAACAAACGCCGCAATAGGTGT
5369822 TGATATTTAGCGGCGTTTT
64 TGATATTTAGCGGCGTTTT
* * *
5369841 GCAAAAAACGCCGCAATAGGTGTTGATATTTAACGGCATTTGGCAGACAAACGCCGCAATAGGCG
1 -CAAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTT-TCA-ACAAACGCCGCAATAGGTG
*
5369906 TTGATGTTTAGCGGCGTTTT
63 TTGATATTTAGCGGCGTTTT
* * * * * * * * * *
5369926 CTTCACAAACGCCGCAATAGGCGTTGATGTTTAGCGACGTTTTCTTCACAAACTCCGCAGTAGAT
1 C--AAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTTC--AACAAACGCCGCAATAGGT
5369991 GTTGATATTTAGCGGCGTTTT
62 GTTGATATTTAGCGGCGTTTT
* * * * * * ** * *
5370012 CCTACAAACGCCGCATAATATGTCTTGAGATTTAGCAGCATTTTCGTCGAAAATGCCGCAATATG
1 -CAAAAAACGCCGC--AATAGGTGTTGATATTTAGCGGCATTTTCAAC--AAACGCCGCAATAGG
* *
5370077 TCTTGAGATTTAGCGGCGTTTT
61 TGTTGATATTTAGCGGCGTTTT
5370099 TATCACAAAC
Statistics
Matches: 203, Mismatches: 43, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
83 3 0.01
84 3 0.01
85 79 0.39
86 66 0.33
87 52 0.26
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (82 bp):
CAAAAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTTCAACAAACGCCGCAATAGGTGTTG
ATATTTAGCGGCGTTTT
Found at i:5377331 original size:140 final size:141
Alignment explanation
Indices: 5377079--5377362 Score: 561
Period size: 140 Copynumber: 2.0 Consensus size: 141
5377069 TGCAGCTCCA
5377079 CCTCAATTGGAATATCATCCTTTGTAGCAATGTTCTTAGTAGCATAACTATGCAGATTTGCCATT
1 CCTCAATTGGAATATCATCCTTTGTAGCAATGTTCTTAGTAGCATAACTATGCAGATTTGCCATT
5377144 TTTGACTCATCAAACACCACGTCTCTACTAATGATACATTTTTGTTGGCC-GGCTCAATACACCA
66 TTTGACTCATCAAACACCACGTCTCTACTAATGATACATTTTTGTTGGCCAGGCTCAATACACCA
5377208 CAATTTATAAC
131 CAATTTATAAC
5377219 CCTCAATTGGAATATCATCCTTTGTAGCAATGTTCTTAGTAGCATAACTATGCAGATTTGCCATT
1 CCTCAATTGGAATATCATCCTTTGTAGCAATGTTCTTAGTAGCATAACTATGCAGATTTGCCATT
5377284 TTTGACTCATCAAACACCACGTCTCTACTAATGATACATTTTTGTTGGCCAGGCTCAATACACCA
66 TTTGACTCATCAAACACCACGTCTCTACTAATGATACATTTTTGTTGGCCAGGCTCAATACACCA
5377349 CAATTTATAAC
131 CAATTTATAAC
5377360 CCT
1 CCT
5377363 TAGTTCCGTG
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
140 115 0.80
141 28 0.20
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (141 bp):
CCTCAATTGGAATATCATCCTTTGTAGCAATGTTCTTAGTAGCATAACTATGCAGATTTGCCATT
TTTGACTCATCAAACACCACGTCTCTACTAATGATACATTTTTGTTGGCCAGGCTCAATACACCA
CAATTTATAAC
Found at i:5380315 original size:24 final size:24
Alignment explanation
Indices: 5380284--5380332 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
5380274 GTGTCTAAAT
*
5380284 ATACATCTAATACCTCGATAATGA
1 ATACATCTAATACATCGATAATGA
* *
5380308 ATACATCTAATGCATTGATAATGA
1 ATACATCTAATACATCGATAATGA
5380332 A
1 A
5380333 AAGTGCATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (24 bp):
ATACATCTAATACATCGATAATGA
Found at i:5384784 original size:31 final size:32
Alignment explanation
Indices: 5384714--5384790 Score: 104
Period size: 31 Copynumber: 2.4 Consensus size: 32
5384704 TTGGGGCTTG
* * *
5384714 AGAGCCTACCCAAGAAATATTCTCGGGGTCGC
1 AGAGCCTACCCAAGAAAGATTCCCGGGGCCGC
5384746 ATG-GCCTACCCAAGAAAGA-TCCCGGGGCCGC
1 A-GAGCCTACCCAAGAAAGATTCCCGGGGCCGC
5384777 AGAGCCTACCCAAG
1 AGAGCCTACCCAAG
5384791 GTTCGCCTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 1 0.03
31 22 0.55
32 16 0.40
33 1 0.03
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (32 bp):
AGAGCCTACCCAAGAAAGATTCCCGGGGCCGC
Found at i:5387324 original size:30 final size:30
Alignment explanation
Indices: 5387288--5387348 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
5387278 TCACCCTCTG
5387288 TTGGATTTTCTATCAATTGATAATGTTGTA
1 TTGGATTTTCTATCAATTGATAATGTTGTA
5387318 TTGGATTTTCTATCAATTGATAATGTTGTA
1 TTGGATTTTCTATCAATTGATAATGTTGTA
5387348 T
1 T
5387349 GATCTTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (30 bp):
TTGGATTTTCTATCAATTGATAATGTTGTA
Found at i:5389239 original size:13 final size:13
Alignment explanation
Indices: 5389223--5389253 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
5389213 TGAGGTCTAG
*
5389223 ATTTGAGCCATAA
1 ATTTAAGCCATAA
5389236 ATTTAAGCCATAA
1 ATTTAAGCCATAA
5389249 ATTTA
1 ATTTA
5389254 CCTTGGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (13 bp):
ATTTAAGCCATAA
Found at i:5390699 original size:137 final size:143
Alignment explanation
Indices: 5390521--5390799 Score: 498
Period size: 137 Copynumber: 2.0 Consensus size: 143
5390511 CACGGACAAA
5390521 CTATTGACTTATGAGTCAATGTGGTTTCTATCATCTACGCCAATACCAAACTTAGTCTCCTTTCC
1 CTATTGACTTATGAGTCAATGTGGTTTCTATCATCTACGCCAATACCAAACTTAGTCTCCTTTCC
5390586 ATT-TTCCTTCCT-GAAATTACATTAATCCCCAC-AAAAAGG-AA-AAATAAA-TATAAATAATT
66 ATTCTTCCTTCCTGGAAATTACATTAATCCCCACAAAAAAGGAAATAAATAAATTATAAATAATT
5390645 GTATTCAGCGCGT
131 GTATTCAGCGCGT
5390658 CTATTGACTTATGAGTCAATGTGGTTTCTATCATCTACGCCAATACCAAACTTAGTCTCCTTTCC
1 CTATTGACTTATGAGTCAATGTGGTTTCTATCATCTACGCCAATACCAAACTTAGTCTCCTTTCC
5390723 ATTGCTTCCTTCCTGGAAATTACATTAATCCCCACAAAAAAGGAAAATAAATAAATTATAAATAA
66 ATT-CTTCCTTCCTGGAAATTACATTAATCCCCACAAAAAAGG-AAATAAATAAATTATAAATAA
5390788 TTGTATTCAGCG
129 TTGTATTCAGCG
5390800 TTCGTCATCG
Statistics
Matches: 134, Mismatches: 0, Indels: 8
0.94 0.00 0.06
Matches are distributed among these distances:
137 68 0.51
139 9 0.07
140 20 0.15
141 7 0.05
143 2 0.01
144 7 0.05
145 21 0.16
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (143 bp):
CTATTGACTTATGAGTCAATGTGGTTTCTATCATCTACGCCAATACCAAACTTAGTCTCCTTTCC
ATTCTTCCTTCCTGGAAATTACATTAATCCCCACAAAAAAGGAAATAAATAAATTATAAATAATT
GTATTCAGCGCGT
Found at i:5392377 original size:13 final size:13
Alignment explanation
Indices: 5392359--5392384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5392349 AATATAGACA
5392359 TAATTAAAAAATT
1 TAATTAAAAAATT
5392372 TAATTAAAAAATT
1 TAATTAAAAAATT
5392385 ATCAAAAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATTAAAAAATT
Found at i:5393722 original size:29 final size:28
Alignment explanation
Indices: 5393688--5393783 Score: 77
Period size: 29 Copynumber: 3.2 Consensus size: 28
5393678 TGTGTCATCC
5393688 GACTATTAAAAGTTATAAAATGGTCTCT
1 GACTATTAAAAGTTATAAAATGGTCTCT
* **** *
5393716 GAACTA-TAAGACGTTACTTTTTTAAGTCTTCT
1 G-ACTATTAA-AAGTTA-TAAAAT-GGTC-TCT
5393748 GACTATTAAAAGTTATAAAATGGTCTCCT
1 GACTATTAAAAGTTATAAAATGGTCT-CT
5393777 GACTATT
1 GACTATT
5393784 CATTGTGCTC
Statistics
Matches: 49, Mismatches: 12, Indels: 13
0.66 0.16 0.18
Matches are distributed among these distances:
28 5 0.10
29 21 0.43
30 4 0.08
31 12 0.24
32 7 0.14
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (28 bp):
GACTATTAAAAGTTATAAAATGGTCTCT
Found at i:5395827 original size:24 final size:24
Alignment explanation
Indices: 5395782--5395828 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5395772 ATAAAGAACC
*
5395782 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
5395806 AAAATAAAGTTTAAACAT-CCATT
1 AAAATAAA-CTTAAACATACCATT
5395829 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:5408286 original size:8 final size:8
Alignment explanation
Indices: 5408273--5408300 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
5408263 ATTGTTGTAG
5408273 TGAGCTTT
1 TGAGCTTT
5408281 TGAGCTTT
1 TGAGCTTT
5408289 TGAGCTTT
1 TGAGCTTT
5408297 TGAG
1 TGAG
5408301 AAGTGTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.29, T:0.46
Consensus pattern (8 bp):
TGAGCTTT
Found at i:5409604 original size:16 final size:16
Alignment explanation
Indices: 5409579--5409655 Score: 91
Period size: 16 Copynumber: 4.8 Consensus size: 16
5409569 GTTAAGAAAA
*
5409579 CTTGTGGCTCATTAAG
1 CTTGTTGCTCATTAAG
*
5409595 CTTGTTGCTCGTTAAG
1 CTTGTTGCTCATTAAG
*
5409611 CTCGTTGCTCATTAAG
1 CTTGTTGCTCATTAAG
* *
5409627 CTTGTTACTCGTTAAG
1 CTTGTTGCTCATTAAG
* *
5409643 CTCGATGCTCATT
1 CTTGTTGCTCATT
5409656 GCTCGCCTCG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (16 bp):
CTTGTTGCTCATTAAG
Found at i:5409626 original size:32 final size:32
Alignment explanation
Indices: 5409585--5409655 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
5409575 AAAACTTGTG
* *
5409585 GCTCATTAAGCTTGTTGCTCGTTAAGCTCGTT
1 GCTCATTAAGCTTGTTACTCGTTAAGCTCGAT
5409617 GCTCATTAAGCTTGTTACTCGTTAAGCTCGAT
1 GCTCATTAAGCTTGTTACTCGTTAAGCTCGAT
5409649 GCTCATT
1 GCTCATT
5409656 GCTCGCCTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (32 bp):
GCTCATTAAGCTTGTTACTCGTTAAGCTCGAT
Found at i:5411062 original size:23 final size:23
Alignment explanation
Indices: 5411035--5411079 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5411025 AGTCAGTGGT
*
5411035 TGATGTGGCAGCTGATGTGGTGA
1 TGATGTGGCAGCTGACGTGGTGA
*
5411058 TGATGTGGCAGGTGACGTGGTG
1 TGATGTGGCAGCTGACGTGGTG
5411080 CCCAATCAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.09, G:0.47, T:0.29
Consensus pattern (23 bp):
TGATGTGGCAGCTGACGTGGTGA
Found at i:5412959 original size:8 final size:8
Alignment explanation
Indices: 5412910--5412977 Score: 52
Period size: 8 Copynumber: 8.8 Consensus size: 8
5412900 TTGAAAAGAT
5412910 ATAATAAA
1 ATAATAAA
*
5412918 ATAAAATAA
1 ATAATA-AA
*
5412927 ATAATAAG
1 ATAATAAA
5412935 A-AATAAA
1 ATAATAAA
***
5412942 A-GGGAAA
1 ATAATAAA
5412949 ATAATAAA
1 ATAATAAA
5412957 ATAATAAA
1 ATAATAAA
*
5412965 GTAAT-AA
1 ATAATAAA
5412972 ATAATA
1 ATAATA
5412978 GTAATAAAGA
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
7 16 0.36
8 22 0.49
9 7 0.16
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (8 bp):
ATAATAAA
Found at i:5412990 original size:15 final size:15
Alignment explanation
Indices: 5412950--5412990 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
5412940 AAAGGGAAAA
5412950 TAATAAAATAATAAAG
1 TAATAAAATAAT-AAG
5412966 TAAT-AAATAAT-AG
1 TAATAAAATAATAAG
5412979 TAATAAAGATAA
1 TAATAAA-ATAA
5412991 AAAGGGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.26
14 2 0.09
15 11 0.48
16 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
TAATAAAATAATAAG
Found at i:5413768 original size:42 final size:41
Alignment explanation
Indices: 5413720--5413869 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 41
5413710 AACACTTAAA
*
5413720 ACTATTTAAACTAAAATACCTAAAACAAAGATAAAATAAAAT
1 ACTATTTAAAATAAAAT-CCTAAAACAAAGATAAAATAAAAT
* * * * *
5413762 ACTATTTAAAATAATATCCTAAATCCTAA-TTGAAATACTAAA-
1 ACTATTTAAAATAAAATCCTAAA-ACAAAGATAAAATA--AAAT
*
5413804 ACTTATTTAAACTAAAATACCTAAAACAAAGATAAAATAAAAT
1 AC-TATTTAAAATAAAAT-CCTAAAACAAAGATAAAATAAAAT
*
5413847 ACTATTTAAAATAATATCCTAAA
1 ACTATTTAAAATAAAATCCTAAA
5413870 TCCTAATTGA
Statistics
Matches: 87, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
41 18 0.21
42 36 0.41
43 21 0.24
44 12 0.14
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.29
Consensus pattern (41 bp):
ACTATTTAAAATAAAATCCTAAAACAAAGATAAAATAAAAT
Found at i:5413787 original size:85 final size:84
Alignment explanation
Indices: 5413683--5413953 Score: 397
Period size: 85 Copynumber: 3.2 Consensus size: 84
5413673 AGATAATTCC
* * * *
5413683 TAAAATAATATCTTCAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAACAA
1 TAAAATAATATCCTAAATCCTAATTGAAATAC-TAAAACTATTTAAACTAAAATACCTAAAACAA
5413748 AGATAAAATAAAATACTATT
65 AGATAAAATAAAATACTATT
5413768 TAAAATAATATCCTAAATCCTAATTGAAATACTAAAACTTATTTAAACTAAAATACCTAAAACAA
1 TAAAATAATATCCTAAATCCTAATTGAAATACTAAAAC-TATTTAAACTAAAATACCTAAAACAA
5413833 AGATAAAATAAAATACTATT
65 AGATAAAATAAAATACTATT
*
5413853 TAAAATAATATCCTAAATCCTAATTGAAATACTAAAACCTGA-TTAAACTAAAATACTTAAAACA
1 TAAAATAATATCCTAAATCCTAATTGAAATACTAAAA-CT-ATTTAAACTAAAATACCTAAAACA
* * *
5413917 AGGATAAAAT---ATAATGTT
64 AAGATAAAATAAAATACTATT
*
5413935 TAAAATATTATCCTAAATC
1 TAAAATAATATCCTAAATC
5413954 TTGAGTTTAA
Statistics
Matches: 174, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
82 24 0.14
84 6 0.03
85 142 0.82
86 2 0.01
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (84 bp):
TAAAATAATATCCTAAATCCTAATTGAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAA
GATAAAATAAAATACTATT
Found at i:5417234 original size:23 final size:23
Alignment explanation
Indices: 5417204--5417270 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
5417194 TCATCCATCT
5417204 ACCTTCTGGAAGCTGCTGACTGG
1 ACCTTCTGGAAGCTGCTGACTGG
*
5417227 ACCTTCTGGAAGCTGTTGACTGG
1 ACCTTCTGGAAGCTGCTGACTGG
* *
5417250 ATCTTCTAGAAGCTGCTGACT
1 ACCTTCTGGAAGCTGCTGACT
5417271 CAATGCGATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (23 bp):
ACCTTCTGGAAGCTGCTGACTGG
Found at i:5420928 original size:2 final size:2
Alignment explanation
Indices: 5420921--5420948 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5420911 CTAAAAGAGT
5420921 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
5420949 CTCTATCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5420973 original size:121 final size:124
Alignment explanation
Indices: 5420840--5421068 Score: 365
Period size: 121 Copynumber: 1.9 Consensus size: 124
5420830 CTCTCTCTCC
*
5420840 TTTTTTTCCATTAAATATTTTCACATTTCCAACTATTAATTTCATTCATTTATTTTTACTCTCCT
1 TTTTTTTCCATTAAATATTTTCACATTTCCAACTATTAATCTCATTCATTTATTTTTACTCTCCT
* *
5420905 ACGATCCTA-A-AAGAGTTATATATATATATATATATATATATATACTCTATCTCCTTG
66 ACAATCATAGAGAAGAGTTATATATATATATATATATATATATATACTCTATCTCCTTG
* * * *
5420962 TTTTTTT-CATTAAATTTTTTTACATTTCCGACTGTTAATCTCATTCATTTATTTTTACTCTCCT
1 TTTTTTTCCATTAAATATTTTCACATTTCCAACTATTAATCTCATTCATTTATTTTTACTCTCCT
5421026 ACAATCATAGTAGAAGAGTTATATATATATATATATATATATA
66 ACAATCATAG-AGAAGAGTTATATATATATATATATATATATA
5421069 GTAGAATCTA
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
121 59 0.61
122 7 0.07
123 1 0.01
124 30 0.31
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.49
Consensus pattern (124 bp):
TTTTTTTCCATTAAATATTTTCACATTTCCAACTATTAATCTCATTCATTTATTTTTACTCTCCT
ACAATCATAGAGAAGAGTTATATATATATATATATATATATATATACTCTATCTCCTTG
Found at i:5421098 original size:121 final size:118
Alignment explanation
Indices: 5420852--5421099 Score: 257
Period size: 121 Copynumber: 2.1 Consensus size: 118
5420842 TTTTTCCATT
* * * *
5420852 AAATATTTTCACATTTCCAACTATTAATTTCATTCATTTATTTTTACTCTCCTACGATCCTAAAA
1 AAATTTTTTCACATTTCCAACTATTAATCTCATTCATTTATTTTTACTCTCCTACAATCATAAAA
* * * * *** **
5420917 GAGTTATATATATATATATATATATATATATACTCTATCTCCTTGTTTTTTTCATT
66 GAGTTATATATATATATATATATATATATAGAATCTATATCCTAG---TGAACAAA
* * *
5420973 AAATTTTTTTACATTTCCGACTGTTAATCTCATTCATTTATTTTTACTCTCCTACAATCATAGTA
1 AAATTTTTTCACATTTCCAACTATTAATCTCATTCATTTATTTTTACTCTCCTACAATCATA--A
*
5421038 GAAGAGTTATATATATATATATATATATATAGTAGAATCTATATGGC-AG-GAACAAA
64 -AAGAGTTATATATATATATATATATATATA-TAGAATCTATAT-CCTAGTGAACAAA
5421094 AAATTT
1 AAATTT
5421100 AAGCACTATT
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
121 63 0.60
123 1 0.01
124 30 0.29
125 10 0.10
126 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (118 bp):
AAATTTTTTCACATTTCCAACTATTAATCTCATTCATTTATTTTTACTCTCCTACAATCATAAAA
GAGTTATATATATATATATATATATATATAGAATCTATATCCTAGTGAACAAA
Found at i:5422702 original size:405 final size:405
Alignment explanation
Indices: 5421951--5423569 Score: 2236
Period size: 405 Copynumber: 3.9 Consensus size: 405
5421941 TTCAAAACCA
* *
5421951 TACCTAAAATTTATTTTTTTGTTTCATTTTAGTATCACCCGAGTCGAAGTAACTTTTAGGGTAAA
1 TACCTAAAATTTAGTTTTTTGTTTCATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAA
*
5422016 CTACACATTTAGTATCTAAATAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCA
66 CTACACATTTAGTATCTAAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCA
5422081 ATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGA
131 ATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGA
*
5422146 AAATAATGGAATATTACTCTTTATAAAGGTAAAAAATAAATAAATTACGACAAGAAATTCAATAG
196 AAATAATGGAATATTACTCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAG
5422211 TATATCGACTTAAAATGCTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCT
261 TATATCGACTTAAAATGCTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCT
5422276 TGGTCAATATCCACATATATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAG
326 TGGTCAATATCCACATATATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAG
5422341 TTTTGGTCTGTTTAG
391 TTTTGGTCTGTTTAG
*
5422356 TACCTAAAATTTAGTTTTTTGTTTTATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAA
1 TACCTAAAATTTAGTTTTTTGTTTCATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAA
*
5422421 TTACACATTTAGTATCTAAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCA
66 CTACACATTTAGTATCTAAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCA
* * *
5422486 ATTTCAAAACACTTACATGAAAGCAAAAACTAGAAAGAAGGCAGACAACAATGGATTATTAAGGA
131 ATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGA
5422551 AAATAATGGAATATTACTCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAG
196 AAATAATGGAATATTACTCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAG
*
5422616 TATATCGACTTAAAATGCTTTTGGGCCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCT
261 TATATCGACTTAAAATGCTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCT
5422681 TGGTCAATATCCACATATATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAG
326 TGGTCAATATCCACATATATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAG
5422746 TTTTGGTCTGTTTAG
391 TTTTGGTCTGTTTAG
* * * * ** ** ** * ** ** * **
5422761 TATCTAAACTTTCA-ATTTTT-ATTCA--AAACCAT-ACCTAAAAT-TTAGTTTTTCGTTTCATT
1 TACCTAAAATTT-AGTTTTTTGTTTCATTTTAGTATCACC-CGAGTCGGAG--TAAC-TTTTAGG
* * * ** * ** ** * * *
5422820 TTAGTA-TCACCCGAGTCGGAGTAACTTTTAGGGTA--AACTA-CACAT-TTAGTATCTAAATAG
61 GTA-AACT-ACAC-A-T-TTAGTATC-TAAACAGTATGAA--AGCA-ATCAT-G-GTCT---TTG
* * *** * * ** **** * *
5422880 TATGAAAGCAATCATGGT-CTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAA
112 T-TCACATTTAT-TTGTTGCAAT-TTCA-A---AACACTTACAT-----------------GAAA
5422944 GCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTT
153 GCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTT
5423009 ATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTT
218 ATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTT
5423074 GGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAA
283 GGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAA
*
5423139 TAAAGGTTTGGATAAATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAG
348 TAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAG
5423197 TACCTAAAATTTAGTTTTTTGTTTCATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAA
1 TACCTAAAATTTAGTTTTTTGTTTCATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAA
5423262 CTACACATTTAGTATCTAAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCA
66 CTACACATTTAGTATCTAAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCA
5423327 ATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGA
131 ATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGA
5423392 AAATAATGGAATATTACTCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAG
196 AAATAATGGAATATTACTCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAG
**
5423457 TATATCGACTTAAAATGCTTTTGGGTCAACACTTCACATTAATTTGAAGAAACTAAAGGAAGTCT
261 TATATCGACTTAAAATGCTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCT
5423522 TGGTCAATATCCACATATATAATAAAGGTTTGGGTAAATTACATATTT
326 TGGTCAATATCCACATATATAATAAAGGTTTGGGTAAATTACATATTT
5423570 TAGTATCACC
Statistics
Matches: 1048, Mismatches: 111, Indels: 110
0.83 0.09 0.09
Matches are distributed among these distances:
401 5 0.00
402 5 0.00
403 2 0.00
404 10 0.01
405 636 0.61
406 2 0.00
407 3 0.00
408 8 0.01
409 9 0.01
410 3 0.00
413 3 0.00
414 7 0.01
415 7 0.01
416 1 0.00
419 5 0.00
422 5 0.00
425 1 0.00
426 7 0.01
427 7 0.01
428 3 0.00
431 3 0.00
432 9 0.01
433 8 0.01
434 3 0.00
435 2 0.00
436 271 0.26
437 11 0.01
438 2 0.00
439 5 0.00
440 5 0.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (405 bp):
TACCTAAAATTTAGTTTTTTGTTTCATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAA
CTACACATTTAGTATCTAAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCA
ATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGA
AAATAATGGAATATTACTCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAG
TATATCGACTTAAAATGCTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCT
TGGTCAATATCCACATATATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAG
TTTTGGTCTGTTTAG
Found at i:5423218 original size:841 final size:841
Alignment explanation
Indices: 5421597--5423569 Score: 3829
Period size: 841 Copynumber: 2.3 Consensus size: 841
5421587 ATTCATGTCA
5421597 AAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACA
1 AAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACA
5421662 TGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTAC
66 TGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTAC
5421727 TCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATG
131 TCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATG
5421792 CTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATA
196 CTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATA
5421857 TATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTA
261 TATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTA
* *
5421922 TCTAAACTTTCAATTTTTATTCAAAACCATACCTAAAATTTATTTTTTTGTTTCATTTTAGTATC
326 TCTAAACTTTCAATTTTTATTCAAAACCATACCTAAAATTTAGTTTTTCGTTTCATTTTAGTATC
5421987 ACCCGAGTCGAAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAATAGTATGAAAGCAATC
391 ACCCGAGTCGAAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAATAGTATGAAAGCAATC
5422052 ATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAA
456 ATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAA
5422117 GAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATAAAGGTAAAAAA
521 GAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATAAAGGTAAAAAA
*
5422182 TAAATAAATTACGACAAGAAATTCAATAGTATATCGACTTAAAATGCTTTTGGGTCAACACTTCA
586 TAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTTGGGTCAACACTTCA
*
5422247 CACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAATAAAGGTTTGGGTA
651 CACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAATAAAGGTTTGGATA
5422312 AATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTACCTAAAATTTAGTTTTTTG
716 AATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTACCTAAAATTTAGTTTTTTG
* *
5422377 TTTTATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAATTACACATTTAGTATCT
781 TTTCATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCT
5422438 AAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACA
1 AAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACA
* * *
5422503 TGAAAGCAAAAACTAGAAAGAAGGCAGACAACAATGGATTATTAAGGAAAATAATGGAATATTAC
66 TGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTAC
5422568 TCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATG
131 TCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATG
*
5422633 CTTTTGGGCCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATA
196 CTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATA
5422698 TATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTA
261 TATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTA
5422763 TCTAAACTTTCAATTTTTATTCAAAACCATACCTAAAATTTAGTTTTTCGTTTCATTTTAGTATC
326 TCTAAACTTTCAATTTTTATTCAAAACCATACCTAAAATTTAGTTTTTCGTTTCATTTTAGTATC
*
5422828 ACCCGAGTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAATAGTATGAAAGCAATC
391 ACCCGAGTCGAAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAATAGTATGAAAGCAATC
5422893 ATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAA
456 ATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAA
5422958 GAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATAAAGGTAAAAAA
521 GAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATAAAGGTAAAAAA
5423023 TAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTTGGGTCAACACTTCA
586 TAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTTGGGTCAACACTTCA
5423088 CACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAATAAAGGTTTGGATA
651 CACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAATAAAGGTTTGGATA
5423153 AATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTACCTAAAATTTAGTTTTTTG
716 AATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTACCTAAAATTTAGTTTTTTG
5423218 TTTCATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCT
781 TTTCATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCT
5423279 AAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACA
1 AAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACA
5423344 TGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTAC
66 TGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTAC
5423409 TCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATG
131 TCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATG
**
5423474 CTTTTGGGTCAACACTTCACATTAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATA
196 CTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATA
5423539 TATAATAAAGGTTTGGGTAAATTACATATTT
261 TATAATAAAGGTTTGGGTAAATTACATATTT
5423570 TAGTATCACC
Statistics
Matches: 1115, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
841 1115 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (841 bp):
AAACAGTATGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACA
TGAAAGCAAAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTAC
TCTTTATAAAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATG
CTTTTGGGTCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATA
TATAATAAAGGTTTGGGTAAATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTA
TCTAAACTTTCAATTTTTATTCAAAACCATACCTAAAATTTAGTTTTTCGTTTCATTTTAGTATC
ACCCGAGTCGAAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAATAGTATGAAAGCAATC
ATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCAAAAGCTAGAAA
GAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATAAAGGTAAAAAA
TAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTTGGGTCAACACTTCA
CACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAATAAAGGTTTGGATA
AATTACATATTTAGAACCAAAACTATCAGTTTTGGTCTGTTTAGTACCTAAAATTTAGTTTTTTG
TTTCATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCT
Found at i:5423849 original size:344 final size:344
Alignment explanation
Indices: 5423222--5423910 Score: 1333
Period size: 344 Copynumber: 2.0 Consensus size: 344
5423212 TTTTTGTTTC
5423222 ATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAACAGTA
1 ATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAACAGTA
5423287 TGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCA
66 TGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCA
5423352 AAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATA
131 AAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATA
5423417 AAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTTGGG
196 AAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTTGGG
**
5423482 TCAACACTTCACATTAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAATAA
261 TCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAATAA
5423547 AGGTTTGGGTAAATTACAT
326 AGGTTTGGGTAAATTACAT
*
5423566 ATTTTAGTATCACCCGATTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAACAGTA
1 ATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAACAGTA
5423631 TGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCA
66 TGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCA
5423696 AAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATA
131 AAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATA
*
5423761 AAGGTAAAAAATAAATAAATTACGAAAATAAATTCAATAGTATATCGACTTAAAATGCTTTTGGG
196 AAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTTGGG
*
5423826 TCAACACTTCACACAAATTTGAAGAAATTAAAGGAAGTCTTGGTCAATATCCACATATATAATAA
261 TCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAATAA
5423891 AGGTTTGGGTAAATTACAT
326 AGGTTTGGGTAAATTACAT
5423910 A
1 A
5423911 CTTAGAACCA
Statistics
Matches: 340, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
344 340 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (344 bp):
ATTTTAGTATCACCCGAGTCGGAGTAACTTTTAGGGTAAACTACACATTTAGTATCTAAACAGTA
TGAAAGCAATCATGGTCTTTGTTCACATTTATTTGTTGCAATTTCAAAACACTTACATGAAAGCA
AAAGCTAGAAAGAAGGCAGACAACAATGCATTATTGAGGAAAATAATGGAATATTACTCTTTATA
AAGGTAAAAAATAAATAAATTACGAAAAGAAATTCAATAGTATATCGACTTAAAATGCTTTTGGG
TCAACACTTCACACAAATTTGAAGAAACTAAAGGAAGTCTTGGTCAATATCCACATATATAATAA
AGGTTTGGGTAAATTACAT
Found at i:5424063 original size:15 final size:15
Alignment explanation
Indices: 5424043--5424071 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5424033 TTAGGGTAAA
5424043 CTACACATTTAGTAT
1 CTACACATTTAGTAT
5424058 CTACACATTTAGTA
1 CTACACATTTAGTA
5424072 CCTAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (15 bp):
CTACACATTTAGTAT
Found at i:5430563 original size:2 final size:2
Alignment explanation
Indices: 5430558--5430585 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5430548 TTTATTATGC
5430558 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
5430586 GCATAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5431244 original size:23 final size:23
Alignment explanation
Indices: 5431209--5431256 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
5431199 ATCAAATAAG
*
5431209 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
5431232 ATAATGTAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGCTTAT
5431255 AT
1 AT
5431257 TGACATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:5432034 original size:182 final size:182
Alignment explanation
Indices: 5431727--5432174 Score: 729
Period size: 182 Copynumber: 2.5 Consensus size: 182
5431717 TTACTATCGA
*
5431727 TTTGTCATTTCGAGATTGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
1 TTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
* * * *
5431792 TTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTTTCTTTTAAATTTCAAAAGTGTCGAT
66 TTATAAAGTATCGACACTTTATTAACGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGAT
5431857 ACTTATAATAAAGTATCGACACTATCAACATATCCGGTAACT-CTTTACCGGT
131 ACTTATAATAAAGTATCGACACTATCAACATATCCGGTAA-TGCTTTACCGGT
* *
5431909 TTTGTCATTTCGAGATCGATTTTATCATATTTTTACATGTTATATTGTTATGGATCAATACATTT
1 TTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
* *
5431974 TTATAAAGTATCGTCACTTTATTAACGCTATAATTTATTCTCTTTTAAATTCCAAAAGTGTCGAT
66 TTATAAAGTATCGACACTTTATTAACGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGAT
* *
5432039 ATTTATAATAAAGTATCGACACTATCAACATATCCGGTAATGCTTTACCTGT
131 ACTTATAATAAAGTATCGACACTATCAACATATCCGGTAATGCTTTACCGGT
** * * *
5432091 TTTGTCATTTATAGACCGGTTTTGTCAT-TTTTTACATGTTATATTGTTATAGATCGATACATTT
1 TTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
5432155 TTATAAAGTATCGACACTTT
66 TTATAAAGTATCGACACTTT
5432175 CAATATATCC
Statistics
Matches: 246, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
181 54 0.22
182 192 0.78
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (182 bp):
TTTGTCATTTCGAGATCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
TTATAAAGTATCGACACTTTATTAACGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGAT
ACTTATAATAAAGTATCGACACTATCAACATATCCGGTAATGCTTTACCGGT
Found at i:5432311 original size:114 final size:113
Alignment explanation
Indices: 5432046--5432397 Score: 521
Period size: 114 Copynumber: 3.1 Consensus size: 113
5432036 GATATTTATA
* * *
5432046 ATAAAGTATCGACACTATCAACATATCCGGTAATGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAACGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * **
5432111 TTTGTCA-TTTTTTACATGTTATATTGTTATAGATCGATACA-TTTTT
66 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATAAATACATTTTTT
* * * *
5432157 ATAAAGTATCGACACTTTCAATATATCCGATAACGTTTTACTTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAACGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
5432222 TTTATCATTTTTTTACTTGTTATATTGTTATGGATAAATACATTTTTTT
66 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATAAATACA-TTTTTT
* *
5432271 ATAAAGTATCGACACTTTCAATATATTCGGTAACACTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAACGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
5432336 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATTAATATA-TTTTT
66 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATAAATACATTTTTT
*
5432383 ATAAAATATCGACAC
1 ATAAAGTATCGACAC
5432398 AAACCGACAA
Statistics
Matches: 216, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
111 64 0.30
112 49 0.23
114 103 0.48
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (113 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAACGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACTTGTTATATTGTTATGGATAAATACATTTTTT
Found at i:5438176 original size:23 final size:23
Alignment explanation
Indices: 5438149--5438211 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
5438139 AATAATTATG
*
5438149 TCTTTATGGCACATTTTCTTCTA
1 TCTTTATGACACATTTTCTTCTA
*
5438172 TCTTTATAACACATTTTCTTCTA
1 TCTTTATGACACATTTTCTTCTA
*
5438195 CCTTTATGACACATTTT
1 TCTTTATGACACATTTT
5438212 TCGTTGTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (23 bp):
TCTTTATGACACATTTTCTTCTA
Found at i:5438222 original size:23 final size:21
Alignment explanation
Indices: 5438147--5438223 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 21
5438137 TTAATAATTA
*
5438147 TGTCTTTATGGCACATTTTCTT
1 TGTCTTTATGACACATTTTC-T
* *
5438169 CTATCTTTATAACACATTTTCT
1 -TGTCTTTATGACACATTTTCT
*
5438191 TCTACCTTTATGACACATTTTTCGT
1 TGT--CTTTATGACACA-TTTTC-T
5438216 TGTCTTTA
1 TGTCTTTA
5438224 CAACACGTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.05
22 1 0.02
23 33 0.75
24 5 0.11
25 3 0.07
ACGTcount: A:0.19, C:0.21, G:0.08, T:0.52
Consensus pattern (21 bp):
TGTCTTTATGACACATTTTCT
Found at i:5438672 original size:9 final size:9
Alignment explanation
Indices: 5438650--5438708 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
5438640 AACAAAAGGC
*
5438650 AAAAACATAA
1 AAAAA-ATAT
5438660 AAAAAATAT
1 AAAAAATAT
5438669 -AAAAA-AT
1 AAAAAATAT
5438676 AAAAAATAT
1 AAAAAATAT
* * *
5438685 -AATAGTAA
1 AAAAAATAT
5438693 AAAAAATAT
1 AAAAAATAT
5438702 AAAAAAT
1 AAAAAAT
5438709 GAACCAAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
7 2 0.05
8 15 0.38
9 17 0.44
10 5 0.13
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAAAATAT
Found at i:5438732 original size:4 final size:4
Alignment explanation
Indices: 5438723--5438817 Score: 68
Period size: 4 Copynumber: 22.8 Consensus size: 4
5438713 CAAAAGGAAA
* * *
5438723 AAAT AAAT AAAAT AAAT AAAAT AAA- AAAT AAAT CAAAG AAGT AAAA AAAT
1 AAAT AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT
* * *
5438773 GAAAT AAA- AAAT AAAT CAAAG AAGT AAAA AAAT GAAAT AAAT AAA
1 -AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT -AAAT AAAT AAA
5438818 AAAAGGGTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
3 6 0.08
4 43 0.61
5 22 0.31
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:5438736 original size:9 final size:9
Alignment explanation
Indices: 5438722--5438818 Score: 80
Period size: 9 Copynumber: 11.4 Consensus size: 9
5438712 CCAAAAGGAA
5438722 AAAATAAAT
1 AAAATAAAT
5438731 AAAATAAAT
1 AAAATAAAT
5438740 AAAAT-AA-
1 AAAATAAAT
5438747 AAAATAAAT
1 AAAATAAAT
* * *
5438756 CAAAGAAGT
1 AAAATAAAT
5438765 AAAA-AAAT
1 AAAATAAAT
*
5438773 GAAAT-AA-
1 AAAATAAAT
5438780 AAAATAAAT
1 AAAATAAAT
* * *
5438789 CAAAGAAGT
1 AAAATAAAT
5438798 AAAA-AAAT
1 AAAATAAAT
*
5438806 GAAATAAAT
1 AAAATAAAT
5438815 AAAA
1 AAAA
5438819 AAAGGGTAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
7 9 0.13
8 20 0.29
9 39 0.57
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.16
Consensus pattern (9 bp):
AAAATAAAT
Found at i:5438781 original size:33 final size:33
Alignment explanation
Indices: 5438730--5438813 Score: 150
Period size: 33 Copynumber: 2.5 Consensus size: 33
5438720 AAAAAATAAA
*
5438730 TAAAATAAATAAAATAAAAAATAAATCAAAGAAG
1 TAAAA-AAATGAAATAAAAAATAAATCAAAGAAG
5438764 TAAAAAAATGAAATAAAAAATAAATCAAAGAAG
1 TAAAAAAATGAAATAAAAAATAAATCAAAGAAG
5438797 TAAAAAAATGAAATAAA
1 TAAAAAAATGAAATAAA
5438814 TAAAAAAAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 44 0.90
34 5 0.10
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (33 bp):
TAAAAAAATGAAATAAAAAATAAATCAAAGAAG
Found at i:5438898 original size:18 final size:17
Alignment explanation
Indices: 5438875--5438909 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5438865 AATAAAAAAA
*
5438875 AGGGAAATAAATACATTT
1 AGGGAAAAAAATA-ATTT
5438893 AGGGAAAAAAATAATTT
1 AGGGAAAAAAATAATTT
5438910 TTTATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.03, G:0.17, T:0.26
Consensus pattern (17 bp):
AGGGAAAAAAATAATTT
Found at i:5439066 original size:81 final size:80
Alignment explanation
Indices: 5438910--5439070 Score: 193
Period size: 80 Copynumber: 2.0 Consensus size: 80
5438900 AAAATAATTT
* * *
5438910 TTTATTCAAAAGTAAAAAAAGGTCAAAATGTTGAAAAAAGGAAAAAGAAAAGGTTAACGTTTAGG
1 TTTATTCAAAAGTAAAAAAAGGTCAAAAGGTTGAAAAAAAGAAAAAGAAAAAGTTAACGTTTA-G
* *
5438975 GAAAATAAAAAAAAAA
65 AAAAAAAAAAAAAAAA
* *
5438991 TTTATTTAAAAGT-AAAAAAGGTCGAAAAGGTTGAAAACAAATAAAAAGGAAAAAGTTAACG-TT
1 TTTATTCAAAAGTAAAAAAAGGTC-AAAAGGTTGAAAA-AAAGAAAAA-GAAAAAGTTAACGTTT
*
5439054 -GAAAAACAAAAAAAAAA
63 AGAAAAAAAAAAAAAAAA
5439071 GTAGCGTTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
80 25 0.36
81 24 0.34
82 9 0.13
83 12 0.17
ACGTcount: A:0.60, C:0.04, G:0.16, T:0.19
Consensus pattern (80 bp):
TTTATTCAAAAGTAAAAAAAGGTCAAAAGGTTGAAAAAAAGAAAAAGAAAAAGTTAACGTTTAGA
AAAAAAAAAAAAAAA
Found at i:5439153 original size:19 final size:19
Alignment explanation
Indices: 5439122--5439167 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
5439112 GTTAACAAAG
5439122 AAAAA-AAGTAAATAAGAA
1 AAAAATAAGTAAATAAGAA
5439140 CAAAAATAAG-AAATAAGAA
1 -AAAAATAAGTAAATAAGAA
5439159 ATAAAATAA
1 A-AAAATAA
5439168 AATAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 21 0.84
20 3 0.12
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (19 bp):
AAAAATAAGTAAATAAGAA
Found at i:5439167 original size:5 final size:5
Alignment explanation
Indices: 5439157--5439182 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5439147 AAGAAATAAG
5439157 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
5439183 CACAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:5440585 original size:17 final size:17
Alignment explanation
Indices: 5440563--5440614 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
5440553 TTTGACCGGT
5440563 CCGACCCGACCCGTTGA
1 CCGACCCGACCCGTTGA
*
5440580 CCGACCTGACCCGTTGA
1 CCGACCCGACCCGTTGA
*
5440597 CCGACCCGACCCGGTGA
1 CCGACCCGACCCGTTGA
5440614 C
1 C
5440615 ATTCTGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.17, C:0.46, G:0.25, T:0.12
Consensus pattern (17 bp):
CCGACCCGACCCGTTGA
Found at i:5440660 original size:29 final size:29
Alignment explanation
Indices: 5440610--5440739 Score: 168
Period size: 29 Copynumber: 4.8 Consensus size: 29
5440600 ACCCGACCCG
5440610 GTGACATTCT-GGAAATATTTTGAAAAAT
1 GTGACATTCTGGGAAATATTTTGAAAAAT
5440638 GTGACATTCTGGGAAATATTTTG-AAAA-
1 GTGACATTCTGGGAAATATTTTGAAAAAT
* *
5440665 ---A-AGT-TGGGAAATATTTTGAAAAAA
1 GTGACATTCTGGGAAATATTTTGAAAAAT
5440689 GTGACATTCTGGGAAATATTTTGAAAAAT
1 GTGACATTCTGGGAAATATTTTGAAAAAT
* *
5440718 GTGACATTCTGAGAATTATTTT
1 GTGACATTCTGGGAAATATTTT
5440740 TTAAAAAAGG
Statistics
Matches: 89, Mismatches: 5, Indels: 15
0.82 0.05 0.14
Matches are distributed among these distances:
22 14 0.16
23 6 0.07
24 1 0.01
27 1 0.01
28 16 0.18
29 51 0.57
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.35
Consensus pattern (29 bp):
GTGACATTCTGGGAAATATTTTGAAAAAT
Found at i:5440672 original size:22 final size:22
Alignment explanation
Indices: 5440647--5440690 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
5440637 TGTGACATTC
5440647 TGGGAAATATTTTGAAAAAAGT
1 TGGGAAATATTTTGAAAAAAGT
5440669 TGGGAAATATTTTGAAAAAAGT
1 TGGGAAATATTTTGAAAAAAGT
5440691 GACATTCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
TGGGAAATATTTTGAAAAAAGT
Found at i:5440696 original size:51 final size:51
Alignment explanation
Indices: 5440620--5440716 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
5440610 GTGACATTCT
*
5440620 GGAAATATTTTGAAAAATGTGACATTCTGGGAAATATTTTGAAAAAAGTTG
1 GGAAATATTTTGAAAAAAGTGACATTCTGGGAAATATTTTGAAAAAAGTTG
5440671 GGAAATATTTTGAAAAAAGTGACATTCTGGGAAATATTTTGAAAAA
1 GGAAATATTTTGAAAAAAGTGACATTCTGGGAAATATTTTGAAAAA
5440717 TGTGACATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (51 bp):
GGAAATATTTTGAAAAAAGTGACATTCTGGGAAATATTTTGAAAAAAGTTG
Found at i:5440745 original size:29 final size:29
Alignment explanation
Indices: 5440672--5440763 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
5440662 AAAAAGTTGG
*
5440672 GAAATATTTTGAAAAAAGTGACATTCTGG
1 GAAATATTTTGAAAAAAGTGACATTCTGA
*
5440701 GAAATATTTTGAAAAATGTGACATTCTGA
1 GAAATATTTTGAAAAAAGTGACATTCTGA
* * * *
5440730 GAATTATTTTTTAAAAAAGGTGGCATTATGA
1 GAAATA-TTTTGAAAAAA-GTGACATTCTGA
5440761 GAA
1 GAA
5440764 TTTGAAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 32 0.59
30 9 0.17
31 13 0.24
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (29 bp):
GAAATATTTTGAAAAAAGTGACATTCTGA
Found at i:5440762 original size:31 final size:31
Alignment explanation
Indices: 5440678--5440765 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 31
5440668 TTGGGAAATA
* * *
5440678 TTTTGAAAAAA-GTGACATTCTGGGAA--AT
1 TTTTTAAAAAAGGTGACATTATGAGAATTAT
* * * *
5440706 ATTTTGAAAAATGTGACATTCTGAGAATTAT
1 TTTTTAAAAAAGGTGACATTATGAGAATTAT
*
5440737 TTTTTAAAAAAGGTGGCATTATGAGAATT
1 TTTTTAAAAAAGGTGACATTATGAGAATT
5440766 TGAAAAATGT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
28 8 0.17
29 14 0.29
31 26 0.54
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (31 bp):
TTTTTAAAAAAGGTGACATTATGAGAATTAT
Found at i:5440772 original size:25 final size:25
Alignment explanation
Indices: 5440743--5440791 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5440733 TTATTTTTTA
*
5440743 AAAAAGGTGGCATTATGAGAATTTG
1 AAAAAGGTGACATTATGAGAATTTG
* * *
5440768 AAAAATGTGACATTTTGGGAATTT
1 AAAAAGGTGACATTATGAGAATTT
5440792 TCGAATGTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (25 bp):
AAAAAGGTGACATTATGAGAATTTG
Found at i:5443099 original size:37 final size:36
Alignment explanation
Indices: 5443058--5443389 Score: 212
Period size: 36 Copynumber: 9.4 Consensus size: 36
5443048 ATTTTTAAAT
*
5443058 TATATATTATATATTTTTTGAAAAATGTTTTCAAAAC
1 TATATATTATATATGTTTT-AAAAATGTTTTCAAAAC
*
5443095 -------TATATA-GTTTTCAAAAATGTTTTTAAAAC
1 TATATATTATATATGTTTT-AAAAATGTTTTCAAAAC
* * * *
5443124 TATATACTATATAAGTTTTCAAAATGATTTCAAAAC
1 TATATATTATATATGTTTTAAAAATGTTTTCAAAAC
* * * *
5443160 TATATAATATATATGGTTTCAAAATGTTTTTAAAA-
1 TATATATTATATATGTTTTAAAAATGTTTTCAAAAC
* * * *
5443195 -A-ACTA-TAT-T-TATTTTCAGAATGTTTTAAAAAC
1 TATA-TATTATATATGTTTTAAAAATGTTTTCAAAAC
* * * * *
5443227 TATATAATATACAT-TTTCAAAAACGTTTTAAAAAC
1 TATATATTATATATGTTTTAAAAATGTTTTCAAAAC
* * *
5443262 TATATATTATATTTATTTTCAAAATGTTTT-AAAAGC
1 TATATATTATATATGTTTTAAAAATGTTTTCAAAA-C
* * *
5443298 TATATAATATATAAACGTTTTCAAACATGTTTTCAAAAC
1 TATAT-AT-TATATATGTTTT-AAAAATGTTTTCAAAAC
* *
5443337 TATATATTATATATATTTTTTAAAAATATTTTC-AAAC
1 TATATA-T-TATATATGTTTTAAAAATGTTTTCAAAAC
*
5443374 TATATAATATATATGT
1 TATATATTATATATGT
5443390 ATGTGTGTAT
Statistics
Matches: 234, Mismatches: 39, Indels: 46
0.73 0.12 0.14
Matches are distributed among these distances:
29 20 0.09
30 6 0.03
31 18 0.08
32 1 0.00
33 7 0.03
34 7 0.03
35 40 0.17
36 69 0.29
37 17 0.07
38 19 0.08
39 26 0.11
40 4 0.02
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.45
Consensus pattern (36 bp):
TATATATTATATATGTTTTAAAAATGTTTTCAAAAC
Found at i:5443111 original size:29 final size:29
Alignment explanation
Indices: 5443073--5443129 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
5443063 ATTATATATT
*
5443073 TTTTGAAAAATGTTTTCAAAACTATATAG
1 TTTTCAAAAATGTTTTCAAAACTATATAG
*
5443102 TTTTCAAAAATGTTTTTAAAACTATATA
1 TTTTCAAAAATGTTTTCAAAACTATATA
5443130 CTATATAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTTCAAAAATGTTTTCAAAACTATATAG
Found at i:5443134 original size:36 final size:35
Alignment explanation
Indices: 5443095--5443386 Score: 242
Period size: 36 Copynumber: 8.2 Consensus size: 35
5443085 TTTTCAAAAC
*
5443095 TATATAGTTTTCAAAAATGTTTTTAAAACTATATAC
1 TATATAGTTTTC-AAAATGTTTTTAAAACTATATAA
* *
5443131 TATATAAGTTTTCAAAATGATTTCAAAACTATATAA
1 TATAT-AGTTTTCAAAATGTTTTTAAAACTATATAA
*
5443167 TATATATGGTTTCAAAATGTTTTTAAAA--A-ACT-A
1 TATATA-GTTTTCAAAATGTTTTTAAAACTATA-TAA
* * *
5443200 TATTTA-TTTTCAGAATGTTTTAAAAACTATATAA
1 TATATAGTTTTCAAAATGTTTTTAAAACTATATAA
* * *
5443234 TATACA-TTTTCAAAAACGTTTTAAAAACTATATATTA
1 TATATAGTTTTC-AAAATGTTTTTAAAACTATATA--A
*
5443271 TATTTA-TTTTCAAAATG-TTTTAAAAGCTATATAA
1 TATATAGTTTTCAAAATGTTTTTAAAA-CTATATAA
*
5443305 TATATAAACGTTTTCAAACATGTTTTCAAAACTATATATTA
1 TATAT--A-GTTTTCAAA-ATGTTTTTAAAACTATATA--A
* * * *
5443346 TATATATTTTTTAAAAAT-ATTTTCAAACTATATAA
1 TATATA-GTTTTCAAAATGTTTTTAAAACTATATAA
5443381 TATATA
1 TATATA
5443387 TGTATGTGTG
Statistics
Matches: 211, Mismatches: 26, Indels: 39
0.76 0.09 0.14
Matches are distributed among these distances:
31 17 0.08
33 9 0.04
34 18 0.09
35 35 0.17
36 61 0.29
37 30 0.14
38 10 0.05
39 18 0.09
40 7 0.03
41 6 0.03
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (35 bp):
TATATAGTTTTCAAAATGTTTTTAAAACTATATAA
Found at i:5443202 original size:31 final size:29
Alignment explanation
Indices: 5443167--5443268 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 29
5443157 AACTATATAA
*
5443167 TATATATGGTTTCAAAATGTTTTTAAAAAAC
1 TATATATAGTTTCAAAATG-TTTT-AAAAAC
* * *
5443198 TATATTTATTTTCAGAATGTTTTAAAAAC
1 TATATATAGTTTCAAAATGTTTTAAAAAC
* *
5443227 TATATAATATACATTTTCAAAAACGTTTTAAAAAC
1 --TAT-ATAT--AGTTTC-AAAATGTTTTAAAAAC
5443262 TATATAT
1 TATATAT
5443269 TATATTTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
29 6 0.10
30 4 0.07
31 18 0.31
32 7 0.12
33 3 0.05
34 6 0.10
35 14 0.24
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (29 bp):
TATATATAGTTTCAAAATGTTTTAAAAAC
Found at i:5443221 original size:102 final size:102
Alignment explanation
Indices: 5443079--5443295 Score: 250
Period size: 102 Copynumber: 2.1 Consensus size: 102
5443069 TATTTTTTGA
* *
5443079 AAAATGTTTT-CAAAACTATA--TAGTTTTCAAAAATGTTTTT-AAAACTATATACTATATA-AG
1 AAAATGTTTTAAAAAACTATATTTA-TTTTC-AGAATGTTTTTAAAAACTATATA--ATATACA-
* * *
5443139 TTTTC-AAAATGATTTCAAAACTATATAATATATATGGTTTC
61 TTTTCAAAAACGATTTAAAAACTATATAATATATATAGTTTC
5443180 AAAATGTTTTTAAAAAACTATATTTATTTTCAGAATG-TTTTAAAAACTATATAATATACATTTT
1 AAAATG-TTTTAAAAAACTATATTTATTTTCAGAATGTTTTTAAAAACTATATAATATACATTTT
* * * *
5443244 CAAAAACGTTTTAAAAACTATATATTATATTTATTTTC
65 CAAAAACGATTTAAAAACTATATAATATATATAGTTTC
5443282 AAAATGTTTTAAAA
1 AAAATGTTTTAAAA
5443296 GCTATATAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
101 24 0.24
102 44 0.44
103 25 0.25
104 5 0.05
105 2 0.02
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (102 bp):
AAAATGTTTTAAAAAACTATATTTATTTTCAGAATGTTTTTAAAAACTATATAATATACATTTTC
AAAAACGATTTAAAAACTATATAATATATATAGTTTC
Found at i:5443387 original size:39 final size:40
Alignment explanation
Indices: 5443262--5443387 Score: 118
Period size: 39 Copynumber: 3.2 Consensus size: 40
5443252 TTTTAAAAAC
* * *
5443262 TATATATTATATTTATTTTCAAAATGTTTTAAAAGCTATATAA
1 TATATA-TATACTT-TTTTAAAAATGTTTTCAAA-CTATATAA
* * *
5443305 TATATA-A-ACGTTTTCAAACATGTTTTCAAAACTATAT-A
1 TATATATATACTTTTTTAAAAATGTTTTC-AAACTATATAA
*
5443343 T-TATATATA-TTTTTTAAAAATATTTTCAAACTATATAA
1 TATATATATACTTTTTTAAAAATGTTTTCAAACTATATAA
5443381 TATATAT
1 TATATAT
5443388 GTATGTGTGT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
37 13 0.19
38 19 0.28
39 24 0.35
40 5 0.07
41 1 0.01
43 6 0.09
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (40 bp):
TATATATATACTTTTTTAAAAATGTTTTCAAACTATATAA
Found at i:5455241 original size:21 final size:21
Alignment explanation
Indices: 5455215--5455271 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
5455205 AAATTATACA
5455215 TTTAGTACATAAACTATCAAT
1 TTTAGTACATAAACTATCAAT
5455236 TTTAGTACATAAACTATCAAT
1 TTTAGTACATAAACTATCAAT
*
5455257 TTTAGTACCTAAACT
1 TTTAGTACATAAACT
5455272 TTTAAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (21 bp):
TTTAGTACATAAACTATCAAT
Found at i:5457092 original size:2 final size:2
Alignment explanation
Indices: 5457085--5457131 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
5457075 TACTCAATCC
5457085 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
5457127 TA TA T
1 TA TA T
5457132 CAATTCAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5458669 original size:2 final size:2
Alignment explanation
Indices: 5458664--5458691 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5458654 TCACACACAC
5458664 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
5458692 GGGTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5459784 original size:16 final size:16
Alignment explanation
Indices: 5459763--5459822 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
5459753 CTTGTTGCTC
5459763 AACTCGTTGCTCGTTA
1 AACTCGTTGCTCGTTA
*
5459779 AACTCGTTGCTCATTA
1 AACTCGTTGCTCGTTA
* * *
5459795 AGCTTGTTACTCGTTA
1 AACTCGTTGCTCGTTA
* *
5459811 AGCTCGATGCTC
1 AACTCGTTGCTC
5459823 ATTGCTCGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (16 bp):
AACTCGTTGCTCGTTA
Found at i:5463361 original size:23 final size:23
Alignment explanation
Indices: 5463321--5463385 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
5463311 ATAATTTTGT
* *
5463321 CTTTATGACGCATTTTTTTTTCTAT
1 CTTTATGACACA--TTTTTTTCTAC
* * *
5463346 TTTTATGACACATTTTCTTCTGC
1 CTTTATGACACATTTTTTTCTAC
*
5463369 CTTTATGACACGTTTTT
1 CTTTATGACACATTTTT
5463386 CGTTGTCTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 22 0.69
25 10 0.31
ACGTcount: A:0.17, C:0.18, G:0.09, T:0.55
Consensus pattern (23 bp):
CTTTATGACACATTTTTTTCTAC
Found at i:5463395 original size:23 final size:24
Alignment explanation
Indices: 5463347--5463408 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
5463337 TTTTTCTATT
* *
5463347 TTTATGACAC-ATTTTCTTCTGCC
1 TTTATGACACGTTTTTCGTCTGCC
*
5463370 TTTATGACACGTTTTTCGT-TGTC
1 TTTATGACACGTTTTTCGTCTGCC
*
5463393 TTTACGACACGTTTTT
1 TTTATGACACGTTTTT
5463409 TGTAACCCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 28 0.82
24 6 0.18
ACGTcount: A:0.16, C:0.21, G:0.13, T:0.50
Consensus pattern (24 bp):
TTTATGACACGTTTTTCGTCTGCC
Found at i:5465171 original size:20 final size:20
Alignment explanation
Indices: 5465148--5465190 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
5465138 ACTTCAGAGT
5465148 CTTTCCGAGTAATTCATATG
1 CTTTCCGAGTAATTCATATG
5465168 CTTTCCGAGTAATTCATATG
1 CTTTCCGAGTAATTCATATG
5465188 CTT
1 CTT
5465191 CTGCTTTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (20 bp):
CTTTCCGAGTAATTCATATG
Found at i:5470876 original size:229 final size:227
Alignment explanation
Indices: 5470471--5470919 Score: 774
Period size: 229 Copynumber: 2.0 Consensus size: 227
5470461 GTAAATTATC
* * * *
5470471 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
5470536 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
5470601 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
5470666 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
* *
5470699 TATCATTTTTATAAAAGTGTACATACTTATTTTACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTACATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
5470764 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
* *
5470828 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
5470893 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
5470920 GCAGTTTTAA
Statistics
Matches: 209, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
228 42 0.20
229 167 0.80
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:5471008 original size:20 final size:19
Alignment explanation
Indices: 5470985--5471030 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
5470975 CGATATACCA
5470985 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
5471005 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
5471025 GGTAAA
1 GGTAAA
5471031 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:5471175 original size:20 final size:19
Alignment explanation
Indices: 5471152--5471198 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
5471142 CGATATAACA
5471152 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
5471172 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
5471192 GGTAAAA
1 GGTAAAA
5471199 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:5471200 original size:17 final size:19
Alignment explanation
Indices: 5471161--5471203 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
5471151 AGGTAAAAAT
5471161 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
5471181 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
5471198 ATGATA
1 ATGATA
5471204 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:5473546 original size:33 final size:33
Alignment explanation
Indices: 5473504--5473569 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
5473494 AAATAGATGG
*
5473504 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
5473537 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
5473570 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:5475385 original size:19 final size:19
Alignment explanation
Indices: 5475361--5475409 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
5475351 AATGTCGAGT
5475361 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
5475380 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
5475399 TATTTTTGTAT
1 TAATTTTGTAT
5475410 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:5476046 original size:199 final size:199
Alignment explanation
Indices: 5475528--5477090 Score: 2953
Period size: 199 Copynumber: 7.9 Consensus size: 199
5475518 CAATATGGCC
*
5475528 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
*
5475593 CCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
5475658 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
**
5475723 TTAAA
195 TGGAA
*
5475728 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCAAAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC-GAAC
5475793 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
5475858 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
5475923 TGGAA
195 TGGAA
5475928 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5475993 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
5476058 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
5476122 GGAA
196 GGAA
* *
5476126 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCCATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5476191 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
5476255 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
5476320 GGAA
196 GGAA
5476324 AACAAGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5476387 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
5476452 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
5476517 GGAA
196 GGAA
5476521 AACAAGGTG----CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5476582 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
5476647 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
5476712 GGAA
196 GGAA
5476716 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5476781 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
5476846 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
5476911 GGAA
196 GGAA
5476915 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5476980 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
5477045 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTTGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
5477091 CTAATTTAAA
Statistics
Matches: 1340, Mismatches: 14, Indels: 19
0.98 0.01 0.01
Matches are distributed among these distances:
193 16 0.01
195 177 0.13
196 71 0.05
197 182 0.14
198 159 0.12
199 508 0.38
200 227 0.17
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
GGAA
Found at i:5476481 original size:394 final size:397
Alignment explanation
Indices: 5475528--5477090 Score: 2933
Period size: 394 Copynumber: 3.9 Consensus size: 397
5475518 CAATATGGCC
*
5475528 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCA-ATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
*
5475593 CCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGA
64 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
5475658 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAA
**
5475723 TTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
194 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
*
5475788 AAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
259 -GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
*
5475853 TGAGAGGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGA
323 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGA
5475918 ATGAATGGAA
388 ATGAATGGAA
5475928 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5475993 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
5476058 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
* *
5476122 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCCATCCCAAAATCATCG
195 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
5476187 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
5476251 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAAT
5476316 GAATGGAA
390 GAATGGAA
5476324 AACAAGGTGCACCCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
5476388 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
5476453 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATG
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATG
5476518 GAAAACAAGGTG----CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
5476579 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
5476644 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATG
5476709 AATGGAA
391 AATGGAA
5476716 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
5476781 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
5476846 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
5476911 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
5476976 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
5477041 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTTGATA
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
5477091 CTAATTTAAA
Statistics
Matches: 1142, Mismatches: 13, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
391 89 0.08
392 124 0.11
394 328 0.29
395 23 0.02
396 123 0.11
397 42 0.04
398 233 0.20
399 146 0.13
400 34 0.03
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (397 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATG
GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATG
AATGGAA
Found at i:5478569 original size:18 final size:18
Alignment explanation
Indices: 5478548--5478615 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
5478538 AGCGGTCGCA
5478548 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
5478566 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
5478587 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
5478608 GAAGATGA
1 GAAGATGA
5478616 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:5478572 original size:6 final size:6
Alignment explanation
Indices: 5478548--5478645 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
5478538 AGCGGTCGCA
* * * * * *
5478548 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
5478596 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
5478644 GA
1 GA
5478646 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:5478583 original size:3 final size:3
Alignment explanation
Indices: 5478563--5478649 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
5478553 TGAAGCTGAC
* * * * * ** *
5478563 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
5478611 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
5478650 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:5478598 original size:42 final size:42
Alignment explanation
Indices: 5478551--5478641 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
5478541 GGTCGCAGAA
*
5478551 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
5478593 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
5478635 GATGAAG
1 GATGAAG
5478642 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:5478649 original size:18 final size:18
Alignment explanation
Indices: 5478548--5478645 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
5478538 AGCGGTCGCA
* *
5478548 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
5478566 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
5478584 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
5478602 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
5478620 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
5478638 GAAGATGA
1 GAAGATGA
5478646 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:5480425 original size:184 final size:184
Alignment explanation
Indices: 5480116--5480643 Score: 948
Period size: 184 Copynumber: 2.9 Consensus size: 184
5480106 CTTTCAACAT
** * * * * *
5480116 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
*
5480181 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCTATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
5480246 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
5480300 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
*
5480365 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
5480430 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
5480484 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
* *
5480549 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
5480614 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACGATTTAAAAAAGTGTCG
5480644 GTAATTTGAA
Statistics
Matches: 331, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
184 331 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:5483240 original size:23 final size:23
Alignment explanation
Indices: 5483209--5483272 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
5483199 ATAGGTAAAC
*
5483209 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
5483232 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
5483255 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
5483273 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:5483279 original size:23 final size:23
Alignment explanation
Indices: 5483209--5483281 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
5483199 ATAGGTAAAC
* **
5483209 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
5483232 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
5483255 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
5483278 ATAT
1 ATAT
5483282 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:5483687 original size:21 final size:22
Alignment explanation
Indices: 5483638--5483698 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
5483628 ATAGGTAAAC
*
5483638 ATATGATGTAATAGGTAGCCCT
1 ATATAATGTAATAGGTAGCCCT
* *
5483660 ATATAATGTAATAGGTA-TCGT
1 ATATAATGTAATAGGTAGCCCT
*
5483681 TTATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
5483699 TGGTTATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCCCT
Found at i:5483705 original size:21 final size:21
Alignment explanation
Indices: 5483643--5483712 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
5483633 TAAACATATG
**
5483643 ATGTAATAGGTAGCCCTATATA
1 ATGTAATAGGTAGTGCT-TATA
*
5483665 ATGTAATAGGTA-TCGTTTATA
1 ATGTAATAGGTAGT-GCTTATA
*
5483686 ATGTAATAGGTAGTGGTTATA
1 ATGTAATAGGTAGTGCTTATA
*
5483707 TTGTAA
1 ATGTAA
5483713 AGTGTCTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 27 0.66
22 14 0.34
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (21 bp):
ATGTAATAGGTAGTGCTTATA
Found at i:5483906 original size:426 final size:429
Alignment explanation
Indices: 5483110--5483942 Score: 1575
Period size: 426 Copynumber: 1.9 Consensus size: 429
5483100 AATTCGCAGT
*
5483110 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATA
5483175 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
5483240 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
5483305 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
* * *
5483370 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGGTATATATTATTA
261 AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTACGTTACGATATAGATTATTA
5483435 TTAAATTAAAAATTCTAAATATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
326 TTAAATTAAAAATTCTAAATATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
5483500 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
5483539 ACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATA
5483604 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCC-TATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
5483668 TAATAGGTATCG-TT-TATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
5483731 AAAAGTGTCCATATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
5483796 AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTACGTTACGATATAGA-TATTA
261 AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTACGTTACGATATAGATTATTA
*
5483860 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
326 TTAAATTAAAAATTCTAAATA-TATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
5483925 ATGAAATTATTAAATCAA
390 ATGAAATTATTAAATCAA
5483943 ATAATTCAAA
Statistics
Matches: 397, Mismatches: 6, Indels: 5
0.97 0.01 0.01
Matches are distributed among these distances:
425 26 0.07
426 229 0.58
427 2 0.01
428 21 0.05
429 119 0.30
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (429 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTACGTTACGATATAGATTATTA
TTAAATTAAAAATTCTAAATATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:5484008 original size:25 final size:25
Alignment explanation
Indices: 5483974--5484024 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
5483964 ACAACAAATC
*
5483974 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
5483999 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
5484024 A
1 A
5484025 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:5484294 original size:18 final size:18
Alignment explanation
Indices: 5484273--5484309 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5484263 GTAATTGGAG
5484273 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
5484291 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
5484309 T
1 T
5484310 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:5484317 original size:24 final size:24
Alignment explanation
Indices: 5484265--5484311 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5484255 TTTCATATGT
* *
5484265 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
5484289 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
5484312 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:5484609 original size:39 final size:39
Alignment explanation
Indices: 5484566--5484652 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
5484556 TCCGATGCTC
*
5484566 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
5484605 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
5484644 ATCAAAATC
1 ATCAAAATC
5484653 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:5485815 original size:20 final size:20
Alignment explanation
Indices: 5485790--5485834 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
5485780 GACCGATCAA
*
5485790 CGGTTCGGGTCAGGTCAAAC
1 CGGTTCAGGTCAGGTCAAAC
*
5485810 CGGTTCAGGTCGGGTCAAAC
1 CGGTTCAGGTCAGGTCAAAC
*
5485830 GGGTT
1 CGGTT
5485835 GGACAGGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (20 bp):
CGGTTCAGGTCAGGTCAAAC
Done.