Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008610.1 Hibiscus syriacus cultivar Beakdansim tig00111566_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: 2108335
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:1685792 original size:16 final size:18
Alignment explanation
Indices: 1685760--1685793 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1685750 CAGTAGTTTA
1685760 AAAGATTAAACAAACATG
1 AAAGATTAAACAAACATG
1685778 AAAGA-TAAA-AAACATG
1 AAAGATTAAACAAACATG
1685794 TTCAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.15
Consensus pattern (18 bp):
AAAGATTAAACAAACATG
Found at i:1699693 original size:13 final size:13
Alignment explanation
Indices: 1699677--1699725 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
1699667 TCGCAATGAA
1699677 CGTCATAAATGCG
1 CGTCATAAATGCG
* *
1699690 CGTCATTAATGTG
1 CGTCATAAATGCG
* *
1699703 TGTCATAAATGCA
1 CGTCATAAATGCG
*
1699716 TGTCATAAAT
1 CGTCATAAAT
1699726 TTATGACGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (13 bp):
CGTCATAAATGCG
Found at i:1706978 original size:25 final size:25
Alignment explanation
Indices: 1706950--1707033 Score: 150
Period size: 25 Copynumber: 3.4 Consensus size: 25
1706940 TCAGGAGGTA
1706950 ATATGGGTATATCATCAAGAAATAC
1 ATATGGGTATATCATCAAGAAATAC
1706975 ATATGGGTATATCATCAAGAAATAC
1 ATATGGGTATATCATCAAGAAATAC
*
1707000 ATCTGGGTATATCATCAAGAAATAC
1 ATATGGGTATATCATCAAGAAATAC
*
1707025 ATCTGGGTA
1 ATATGGGTA
1707034 ATCTGGCTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (25 bp):
ATATGGGTATATCATCAAGAAATAC
Found at i:1712145 original size:3 final size:3
Alignment explanation
Indices: 1712137--1712182 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
1712127 TCTACCCTTA
1712137 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1712183 TACAAACTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1712269 original size:12 final size:13
Alignment explanation
Indices: 1712252--1712281 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1712242 CCCAAACCTA
1712252 AAACCC-AAATTT
1 AAACCCTAAATTT
1712264 AAACCCTAAATTT
1 AAACCCTAAATTT
1712277 AAACC
1 AAACC
1712282 TAATCAGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (13 bp):
AAACCCTAAATTT
Found at i:1719181 original size:20 final size:20
Alignment explanation
Indices: 1719133--1719194 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
1719123 AACTTAAATC
*
1719133 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
1719153 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
1719171 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
1719190 AAAAT
1 AAAAT
1719195 TAAATATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:1719210 original size:21 final size:23
Alignment explanation
Indices: 1719172--1719219 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
1719162 ATAATATATA
1719172 AAATAATTTATATGATATAAAATT
1 AAATAATTTATA-GATATAAAATT
*
1719196 AAAT-ATTTATA-ATATAATATT
1 AAATAATTTATAGATATAAAATT
1719217 AAA
1 AAA
1719220 AAAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 12 0.52
23 7 0.30
24 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATAATTTATAGATATAAAATT
Found at i:1722427 original size:44 final size:44
Alignment explanation
Indices: 1722351--1722452 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
1722341 TTGTGCAATG
** * * **
1722351 TGCATCGATACACTATGTTAGTGTACTGATGCATTCCTTGAATA
1 TGCATCGATACACTATGAAAATGCACCAATGCATTCCTTGAATA
*
1722395 TGCATCGATACACTATGAAAATGCACCAATGCATTCCTTGAATG
1 TGCATCGATACACTATGAAAATGCACCAATGCATTCCTTGAATA
*
1722439 TGTATCGATACACT
1 TGCATCGATACACT
1722453 CTGCAGTGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAATGCACCAATGCATTCCTTGAATA
Found at i:1722467 original size:20 final size:20
Alignment explanation
Indices: 1722438--1722494 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1722428 TTCCTTGAAT
*
1722438 GTGTATCGATACACTCTGCA
1 GTGTACCGATACACTCTGCA
*
1722458 GTGTACCGATTCACTCTGCA
1 GTGTACCGATACACTCTGCA
1722478 GTGTACCGATACACTCT
1 GTGTACCGATACACTCT
1722495 TTGGGATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (20 bp):
GTGTACCGATACACTCTGCA
Found at i:1733086 original size:17 final size:17
Alignment explanation
Indices: 1733052--1733089 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1733042 AAAAATAATT
*
1733052 AAATAAATAAATAGTAA
1 AAATAAATAAATAATAA
1733069 AAATAAAT-AATGAATAA
1 AAATAAATAAAT-AATAA
1733086 AAAT
1 AAAT
1733090 GATGAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (17 bp):
AAATAAATAAATAATAA
Found at i:1734582 original size:3 final size:3
Alignment explanation
Indices: 1734574--1734614 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1734564 CTTCTCTTTC
1734574 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1734615 ACACCTTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:1737289 original size:25 final size:24
Alignment explanation
Indices: 1737230--1737289 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
1737220 AAGAGGTTAT
1737230 ATTAGAAATTTTAAGGAGTGCGAA
1 ATTAGAAATTTTAAGGAGTGCGAA
* *
1737254 ACTATA-AAATTTTAGGGGGTGCGAA
1 A-T-TAGAAATTTTAAGGAGTGCGAA
1737279 ATTAGATAATT
1 ATTAGA-AATT
1737290 AATAGAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
23 2 0.07
24 3 0.10
25 23 0.77
26 2 0.07
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (24 bp):
ATTAGAAATTTTAAGGAGTGCGAA
Found at i:1743409 original size:172 final size:175
Alignment explanation
Indices: 1743116--1743459 Score: 525
Period size: 172 Copynumber: 2.0 Consensus size: 175
1743106 TTAAGTTGGG
1743116 AAGAAAATGAGAGAGATGAAGGGAGAATATGACAAAATGAATGGGAAAGAAAAGAGGTTATATCA
1 AAGAAAATGAGAGAGATGAAGGGAGAATATGACAAAATGAATGGGAAAGAAAAGAGGTTATATCA
* *
1743181 TGTGACCTCATAGAAATTAAACGATTTTAGCTTTTTAAAATAAAAATGGATAAATTACTTCTTGA
66 TGTGACCTCATAGAAATTAAACGATTTTAGCTTTTTAAAATAAAAATGGATAAATTACATCCTGA
* *
1743246 GTCCTTCAAGCTTTGGTCATAAACCAAAAATGCCCTTTTTAAGGA
131 GTCCTTCAAGCTTTGGTCACAAACCAAAAATACCCTTTTTAAGGA
* * * *
1743291 AAGAAAATTAGAGAGATTAAGGGAGAATATGACAAAATGAA-GAGG-AA-ACAA-AGGTTCTATC
1 AAGAAAATGAGAGAGATGAAGGGAGAATATGACAAAATGAATG-GGAAAGAAAAGAGGTTATATC
* * * * *
1743352 GTGTGACCTCATGGAAATTAAAGGATTTTAGCTTTTTAGAATAAAAATGGGTAAATTACATCCTG
65 ATGTGACCTCATAGAAATTAAACGATTTTAGCTTTTTAAAATAAAAATGGATAAATTACATCCTG
*
1743417 AGTCCTTCAATCTTTGGTCACAAACCAAAAATACCCTTTTTAA
130 AGTCCTTCAAGCTTTGGTCACAAACCAAAAATACCCTTTTTAA
1743460 CTTCAATTGA
Statistics
Matches: 154, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
172 107 0.69
173 3 0.02
174 3 0.02
175 41 0.27
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (175 bp):
AAGAAAATGAGAGAGATGAAGGGAGAATATGACAAAATGAATGGGAAAGAAAAGAGGTTATATCA
TGTGACCTCATAGAAATTAAACGATTTTAGCTTTTTAAAATAAAAATGGATAAATTACATCCTGA
GTCCTTCAAGCTTTGGTCACAAACCAAAAATACCCTTTTTAAGGA
Found at i:1748060 original size:45 final size:45
Alignment explanation
Indices: 1748004--1748287 Score: 417
Period size: 45 Copynumber: 6.3 Consensus size: 45
1747994 TTTTTTATTA
* * * *
1748004 CATACATGAAATTCATAATGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGT
1748049 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGT
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGT
* *
1748094 CATAAATGAAATGCATAACGGTGCTTTAAAGGCATG-AAGTGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAG-GATGT
* *
1748139 CATAAATGAAATGCATAACGGTGCATTAAAGGCATAAAAAGATGT
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGT
* * *
1748184 CATAAATGAAATGCATAATGGTGCATAAAATGCATGAAAGGATGT
1 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGT
* *
1748229 CATAAATAAAAATGCATAACGGTGCATTAAAGGCATGAAAAGATGT
1 CATAAAT-GAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGT
1748275 CATAAATGGAAAT
1 CATAAAT-GAAAT
1748288 AATGAATAAT
Statistics
Matches: 214, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
44 3 0.01
45 165 0.77
46 46 0.21
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGT
Found at i:1748808 original size:19 final size:21
Alignment explanation
Indices: 1748784--1748823 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
1748774 ATTTTATGGG
*
1748784 TTTTCAATTGA-G-GAAATAT
1 TTTTCAAGTGATGTGAAATAT
1748803 TTTTCAAGTGATGTGAAATAT
1 TTTTCAAGTGATGTGAAATAT
1748824 GTATCTCGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (21 bp):
TTTTCAAGTGATGTGAAATAT
Found at i:1755988 original size:19 final size:20
Alignment explanation
Indices: 1755948--1755994 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
1755938 AAAAGAAATT
**
1755948 GAATAAAATAAATAAATGAA
1 GAATAAAATAAATAAAAAAA
*
1755968 G-ATAAAATATATAAAAAAA
1 GAATAAAATAAATAAAAAAA
1755987 GAATAAAA
1 GAATAAAA
1755995 AATGTAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (20 bp):
GAATAAAATAAATAAAAAAA
Found at i:1756091 original size:2 final size:2
Alignment explanation
Indices: 1756084--1756114 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1756074 AAATAAAATA
1756084 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1756115 AAAATGTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1756298 original size:17 final size:18
Alignment explanation
Indices: 1756273--1756314 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
1756263 AGAAAAATAG
*
1756273 TAAAAAAACATAG-TAAA
1 TAAATAAACATAGATAAA
1756290 TAAATAAACATAGATAAA
1 TAAATAAACATAGATAAA
*
1756308 AAAATAA
1 TAAATAA
1756315 TAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (18 bp):
TAAATAAACATAGATAAA
Found at i:1756312 original size:18 final size:17
Alignment explanation
Indices: 1756274--1756314 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
1756264 GAAAAATAGT
1756274 AAAA-AAACATAGTAAA
1 AAAATAAACATAGTAAA
*
1756290 TAAATAAACATAGATAAA
1 AAAATAAACATAG-TAAA
1756308 AAAATAA
1 AAAATAA
1756315 TAATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 3 0.14
17 8 0.38
18 10 0.48
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (17 bp):
AAAATAAACATAGTAAA
Found at i:1756801 original size:13 final size:13
Alignment explanation
Indices: 1756783--1756817 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1756773 CTCCGAATGT
1756783 GTTACAATAGTGA
1 GTTACAATAGTGA
1756796 GTTACAATAGTGA
1 GTTACAATAGTGA
1756809 GTTACAATA
1 GTTACAATA
1756818 ACTATTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (13 bp):
GTTACAATAGTGA
Found at i:1756879 original size:37 final size:37
Alignment explanation
Indices: 1756838--1756930 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
1756828 ATGCTTGTGG
* * *
1756838 ATCCTATCTTTAGGAGTTTAAATAATAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
* ** *
1756875 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
*
1756912 ATCATATTTTTAGGAGTTT
1 ATCCTATTTTTAGGAGTTT
1756931 GAATCTTACT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTCT
Found at i:1757885 original size:106 final size:106
Alignment explanation
Indices: 1757691--1758750 Score: 1708
Period size: 106 Copynumber: 10.0 Consensus size: 106
1757681 AGCATTGTTC
* * * * * * *
1757691 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTTGCTATGGAATCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
** *
1757756 ACCAGTC-GTCCCTTCGTTTTGAAGTTGAACTTGTGTTGTCT
66 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
1757797 CGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTAGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
1757862 ACTAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
1757903 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
1757968 ACAAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1758009 GGAGTCCAATATCCTTCTTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
1758074 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * ** *
1758115 GGAGTCCAATATCCTTCGCTGTGGAGTTGAAATTGGCTCCAAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1758180 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
1758221 CGAGTCTAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
1758286 ACCAGCGGTCCATTTGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1758327 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1758392 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
1758433 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1758498 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
1758539 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
1758604 ACCAGCGGTCCCTTCGCCGTGAAGTTTAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1758645 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
1758710 ACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1758751 TGAATGGGAC
Statistics
Matches: 888, Mismatches: 65, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
105 1 0.00
106 887 1.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:1759358 original size:23 final size:24
Alignment explanation
Indices: 1759330--1759389 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
1759320 AATATCAATA
*
1759330 AAGAGTTTCGAAAGATG-TTAATC
1 AAGAGTTTTGAAAGATGTTTAATC
*
1759353 AAGAGTTTTGAAAGATGTTTAATT
1 AAGAGTTTTGAAAGATGTTTAATC
*
1759377 AAAAGTTTTGAAA
1 AAGAGTTTTGAAA
1759390 ATATTGCCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 16 0.48
24 17 0.52
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (24 bp):
AAGAGTTTTGAAAGATGTTTAATC
Found at i:1759607 original size:22 final size:22
Alignment explanation
Indices: 1759581--1759656 Score: 125
Period size: 22 Copynumber: 3.5 Consensus size: 22
1759571 TTATGTTTGG
1759581 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1759603 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
1759625 TCATAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
1759647 TCAATGGTTT
1 TCAAAGGTTT
1759657 AATGGGGTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1760325 original size:34 final size:30
Alignment explanation
Indices: 1760276--1760348 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 30
1760266 TTTCTTTTGA
1760276 TTTTTGTTCTTTCTTTTTTCTTTTGTTTCTTCT
1 TTTTTGTTCTTTC-TTTTTCTTTT-TTT-TTCT
*
1760309 TTTTTGCTTCTTTCTTTTTGTTTTTTTTTC-
1 TTTTTG-TTCTTTCTTTTTCTTTTTTTTTCT
1760339 TTTTTGTTCT
1 TTTTTGTTCT
1760349 GATTGAATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
29 4 0.11
30 6 0.16
31 3 0.08
32 3 0.08
33 15 0.39
34 7 0.18
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (30 bp):
TTTTTGTTCTTTCTTTTTCTTTTTTTTTCT
Found at i:1760343 original size:11 final size:11
Alignment explanation
Indices: 1760276--1760343 Score: 50
Period size: 11 Copynumber: 6.3 Consensus size: 11
1760266 TTTCTTTTGA
*
1760276 TTTTTGTTCTT
1 TTTTTTTTCTT
*
1760287 TCTTTTTTCTT
1 TTTTTTTTCTT
*
1760298 TTGTTTCTTCTT
1 TT-TTTTTTCTT
**
1760310 TTTTGCTTC-T
1 TTTTTTTTCTT
* *
1760320 TTCTTTTT-GT
1 TTTTTTTTCTT
1760330 TTTTTTTTCTT
1 TTTTTTTTCTT
1760341 TTT
1 TTT
1760344 GTTCTGATTG
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
10 14 0.32
11 20 0.45
12 10 0.23
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:1764906 original size:26 final size:26
Alignment explanation
Indices: 1764877--1764981 Score: 69
Period size: 25 Copynumber: 4.1 Consensus size: 26
1764867 TAATGAAAAT
1764877 AAATAAATAGTATAAATAAAATAATA
1 AAATAAATAGTATAAATAAAATAATA
* *
1764903 AAATATATA-TATATATAAAA-ATATA
1 AAATAAATAGTATAAATAAAATA-ATA
** *
1764928 AAATGTAT-GTAT-AATATAATAA-A
1 AAATAAATAGTATAAATAAAATAATA
*
1764951 ATACTAAATAGTA-ATAATAATAATAAATA
1 A-AATAAATAGTATA-AATAA-AAT-AATA
1764980 AA
1 AA
1764982 TGAAAAATAA
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
23 2 0.03
24 11 0.18
25 27 0.45
26 12 0.20
27 3 0.05
28 3 0.05
29 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (26 bp):
AAATAAATAGTATAAATAAAATAATA
Found at i:1764921 original size:29 final size:29
Alignment explanation
Indices: 1764866--1765065 Score: 94
Period size: 29 Copynumber: 6.7 Consensus size: 29
1764856 AACTAAAAAT
* *
1764866 ATAATGAAAATAAATAAATAGTATAAATAAA
1 ATAAT-AAAATATATATATA-TATAAATAAA
1764897 ATAATAAAATATATATATATAT--A-AAA
1 ATAATAAAATATATATATATATAAATAAA
* *
1764923 AT-ATAAAATGTATGTATA-ATATAATAAA
1 ATAATAAAATATATATATATATA-AATAAA
* * *
1764951 ATACTAAATAGTAATAATAATAATAAATAAATGAA
1 ATAATAAA-A-T-AT-AT-AT-ATATATAAATAAA
* *
1764986 A-AAT-AAATATACATATAATATTAACTAAA
1 ATAATAAAATATATATAT-ATA-TAAATAAA
* *
1765015 A-AATAATAATCATAAAAATATA-AAATAAA
1 ATAATAA-AAT-ATATATATATATAAATAAA
1765044 ATAAAGTAAGAATATATATATA
1 AT-AA-TAA-AATATATATATA
1765066 ACGTTAGGAA
Statistics
Matches: 130, Mismatches: 19, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
24 2 0.02
25 14 0.11
26 5 0.04
27 4 0.03
28 9 0.07
29 25 0.19
30 16 0.12
31 22 0.17
32 14 0.11
33 4 0.03
34 3 0.02
35 9 0.07
36 3 0.02
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (29 bp):
ATAATAAAATATATATATATATAAATAAA
Found at i:1764948 original size:23 final size:23
Alignment explanation
Indices: 1764865--1764948 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 23
1764855 AAACTAAAAA
1764865 TATAATGAAAATA-AATAA-ATA-G
1 TATAAT-AAAATATAA-AATATATG
*
1764887 TATAAATAAAATAATAAAATATATA
1 TAT-AATAAAAT-ATAAAATATATG
*
1764912 TATATATAAAAATATAAAATGTATG
1 TATA-AT-AAAATATAAAATATATG
*
1764937 TATAATATAATA
1 TATAATAAAATA
1764949 AAATACTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
22 8 0.16
23 11 0.22
24 8 0.16
25 19 0.37
26 5 0.10
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAAAATATAAAATATATG
Found at i:1765145 original size:23 final size:23
Alignment explanation
Indices: 1765119--1765168 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1765109 ATAGATAAAA
* *
1765119 ATAATAATATATAAT-ATATATAT
1 ATAATAATAGAAAATAATATA-AT
1765142 ATAATAATAGAAAATAATATAAT
1 ATAATAATAGAAAATAATATAAT
1765165 ATAA
1 ATAA
1765169 CGCAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATAATAGAAAATAATATAAT
Found at i:1765167 original size:102 final size:96
Alignment explanation
Indices: 1765013--1765252 Score: 218
Period size: 102 Copynumber: 2.4 Consensus size: 96
1765003 ATATTAACTA
* * ** *
1765013 AAAAATAATAATCATA-AAAATATAAAATAA-AATAAAGTAAGAATATATATATAACGTTAGGAA
1 AAAAATAATAAT-ATATAATATATAATATAATAATAAAG-AAGAATATATATATAACGCAAAGAA
* * *
1765076 AATATAGTAAAAAAACATAATAAATAAGTAAACATAGAT
64 AA-AT-G-AAAAAAAAATAAT-AATAAATAAA-A-AAAT
*
1765115 AAAAATAATAATATATAATATATATATATAATAATAGAA-AATAATATA-ATATAACGCAAAGAA
1 AAAAATAATAATATATAATATATA-ATATAATAATA-AAGAAGAATATATATATAACGCAAAGAA
*
1765178 AAATGAAAAAAAAATTATAATAAATAAAAAAAT
64 AAATGAAAAAAAAATAATAATAAATAAAAAAAT
1765211 AAAATATAATTAAATATATACATATATACATATAAATAATAA
1 AAAA-ATAA-T-AATATATA-ATATATA-ATAT-AATAATAA
1765253 GGGTTAAATT
Statistics
Matches: 118, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
96 7 0.06
97 5 0.04
98 10 0.08
99 19 0.16
100 13 0.11
101 12 0.10
102 33 0.28
103 13 0.11
104 4 0.03
105 2 0.02
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (96 bp):
AAAAATAATAATATATAATATATAATATAATAATAAAGAAGAATATATATATAACGCAAAGAAAA
ATGAAAAAAAAATAATAATAAATAAAAAAAT
Found at i:1765218 original size:22 final size:22
Alignment explanation
Indices: 1765178--1765226 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
1765168 ACGCAAAGAA
* *
1765178 AAATGAAAAAAAAATTATAA-T
1 AAATAAAAAAAAAAATATAATT
1765199 AAATAAAAAAATAAAATATAATT
1 AAATAAAAAAA-AAAATATAATT
1765222 AAATA
1 AAATA
1765227 TATACATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 8 0.33
23 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATAAAAAAAAAAATATAATT
Found at i:1765736 original size:37 final size:37
Alignment explanation
Indices: 1765643--1765740 Score: 133
Period size: 37 Copynumber: 2.6 Consensus size: 37
1765633 ATGCTTGTGG
* * * * *
1765643 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
* *
1765680 ATCCTATTTTTAGGAGTTTGAATCTTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
1765717 ATCCTATTTTTAGGAGTTTGAATC
1 ATCCTATTTTTAGGAGTTTGAATC
1765741 CTAGTAGGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGCAAAACTCT
Found at i:1766135 original size:26 final size:26
Alignment explanation
Indices: 1766091--1766141 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1766081 AATGATAATC
* *
1766091 AAACACAAAGGAACGTAAACAAACAT
1 AAACACAAACGAACATAAACAAACAT
* *
1766117 AAACACAAACGTACATAAACGAACA
1 AAACACAAACGAACATAAACAAACA
1766142 AACATAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.61, C:0.22, G:0.10, T:0.08
Consensus pattern (26 bp):
AAACACAAACGAACATAAACAAACAT
Found at i:1766202 original size:14 final size:14
Alignment explanation
Indices: 1766183--1766212 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1766173 CAAAATTTCT
*
1766183 TAAAAGAATATAAA
1 TAAAAGAACATAAA
1766197 TAAAAGAACATAAA
1 TAAAAGAACATAAA
1766211 TA
1 TA
1766213 TAAATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
TAAAAGAACATAAA
Found at i:1766306 original size:22 final size:22
Alignment explanation
Indices: 1766254--1766297 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1766244 AAGTATTCCC
* *
1766254 GAACATAAACGAACAAATTATT
1 GAACATAAACTAACGAATTATT
1766276 GAACATAAACTAACGAATTATT
1 GAACATAAACTAACGAATTATT
1766298 TAAAGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (22 bp):
GAACATAAACTAACGAATTATT
Found at i:1768109 original size:2 final size:2
Alignment explanation
Indices: 1768102--1768127 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1768092 TAACCCGTAA
1768102 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
1768128 TAAATAGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1771135 original size:80 final size:80
Alignment explanation
Indices: 1771002--1771209 Score: 301
Period size: 80 Copynumber: 2.6 Consensus size: 80
1770992 AGGGGAGCCT
* * * *
1771002 ACCTAAGGATGTACC-TTGGGTCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCTTAAGCAC
1 ACCTAAGGATATACCTTTGGGCCTACCCAA-GATATCCTTAGGTCCGTAGGGTTACCTTAAGCAC
*
1771066 ACACCTAAGAGAACCA
65 ACACCAAAGAGAACCA
*
1771082 ACCTAAGGATATACCTTTGGGCCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCTTATGCACA
1 ACCTAAGGATATACCTTTGGGCCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCTTAAGCACA
* *
1771147 CAGCAAAGGGAACCA
66 CACCAAAGAGAACCA
* * *
1771162 GCCTAAGGATATGCCTTCGGGCCTACCCAAGATATCCTTAGGTCCGTA
1 ACCTAAGGATATACCTTTGGGCCTACCCAAGATATCCTTAGGTCCGTA
1771210 AGGACTTATA
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
80 103 0.89
81 13 0.11
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (80 bp):
ACCTAAGGATATACCTTTGGGCCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCTTAAGCACA
CACCAAAGAGAACCA
Found at i:1787681 original size:42 final size:42
Alignment explanation
Indices: 1787633--1787899 Score: 306
Period size: 42 Copynumber: 6.2 Consensus size: 42
1787623 TATTACAAAC
*
1787633 GCCACTAAAACCAATAGCATTAGCGGCGTTTATGCAAAAAAT
1 GCCACTAAAACCAATAGCATTAGCGGCGTTTGTGCAAAAAAT
1787675 GCCACTAAAACCAATAGCATAGCATTAGCGGCGTTTGTGCCAAAAAA-
1 GCCACTAAAACC---A--ATAGCATTAGCGGCGTTTGTG-CAAAAAAT
* *
1787722 GCCACTAAAACCAATAGCATTAACGGCGTTTGTGGTAAAAAA-
1 GCCACTAAAACCAATAGCATTAGCGGCGTTTGT-GCAAAAAAT
* **
1787764 GCCACTAAAACCAATAGCGTTAGCGGCGTTTGTGGTAAAAAT
1 GCCACTAAAACCAATAGCATTAGCGGCGTTTGTGCAAAAAAT
* * * ***
1787806 GCCACTAAAATCAATAGCGTTAGC-GCATTTGTGGTGAAAAT
1 GCCACTAAAACCAATAGCATTAGCGGCGTTTGTGCAAAAAAT
* *
1787847 GCCACTAAAACCAATAGCATTAGCGGTGTTTGTGGTAAAAAAAT
1 GCCACTAAAACCAATAGCATTAGCGGCGTTTGT-G-CAAAAAAT
1787891 GCCACTAAA
1 GCCACTAAA
1787900 GGTAAGAGAA
Statistics
Matches: 197, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
41 43 0.22
42 97 0.49
43 2 0.01
44 15 0.08
45 1 0.01
47 32 0.16
48 7 0.04
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (42 bp):
GCCACTAAAACCAATAGCATTAGCGGCGTTTGTGCAAAAAAT
Found at i:1787863 original size:83 final size:84
Alignment explanation
Indices: 1787633--1787899 Score: 338
Period size: 89 Copynumber: 3.1 Consensus size: 84
1787623 TATTACAAAC
* **
1787633 GCCACTAAAACCAATAGCATTAGCGGCGTTTATGCAAAAAATGCCACTAAAACCAATAGCATAGC
1 GCCACTAAAACCAATAGCATTAGCGGCGTTTGTGGTAAAAATGCCACTAAAACCAATAGC---G-
** *
1787698 ATTAGCGGCGTTTGTGCCAAAAAA
62 -TTAGCGGCGTTTGTGGTAAAAAT
* *
1787722 GCCACTAAAACCAATAGCATTAACGGCGTTTGTGGTAAAAAAGCCACTAAAACCAATAGCGTTAG
1 GCCACTAAAACCAATAGCATTAGCGGCGTTTGTGGTAAAAATGCCACTAAAACCAATAGCGTTAG
1787787 CGGCGTTTGTGGTAAAAAT
66 CGGCGTTTGTGGTAAAAAT
* * * * *
1787806 GCCACTAAAATCAATAGCGTTAGC-GCATTTGTGGTGAAAATGCCACTAAAACCAATAGCATTAG
1 GCCACTAAAACCAATAGCATTAGCGGCGTTTGTGGTAAAAATGCCACTAAAACCAATAGCGTTAG
*
1787870 CGGTGTTTGTGGTAAAAAAAT
66 CGGCGTTTGTGGT--AAAAAT
1787891 GCCACTAAA
1 GCCACTAAA
1787900 GGTAAGAGAA
Statistics
Matches: 160, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
83 48 0.30
84 41 0.26
85 15 0.09
86 1 0.01
89 55 0.34
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (84 bp):
GCCACTAAAACCAATAGCATTAGCGGCGTTTGTGGTAAAAATGCCACTAAAACCAATAGCGTTAG
CGGCGTTTGTGGTAAAAAT
Found at i:1792855 original size:20 final size:21
Alignment explanation
Indices: 1792830--1792874 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1792820 TAATTTTTGA
1792830 TTTTTTGTATTTTT-T-CCTTT
1 TTTTTTG-ATTTTTCTACCTTT
1792850 TTTTTTGATTTTTCTACCTTT
1 TTTTTTGATTTTTCTACCTTT
1792871 TTTT
1 TTTT
1792875 AGTGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 8 0.35
21 9 0.39
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTTTGATTTTTCTACCTTT
Found at i:1794408 original size:2 final size:2
Alignment explanation
Indices: 1794401--1794434 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1794391 TAATTACATA
1794401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1794435 AATTTAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1794641 original size:2 final size:2
Alignment explanation
Indices: 1794636--1794671 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1794626 CCTTTTTGGG
1794636 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
1794672 AACTTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1798369 original size:264 final size:264
Alignment explanation
Indices: 1797866--1798496 Score: 883
Period size: 264 Copynumber: 2.4 Consensus size: 264
1797856 CAAAAATATT
* * * * * *
1797866 ATGAATATATAGAATAAATATGGTTGCATCCTATAATGTCATGGTTCAATAAGAAATAAGTTGCG
1 ATGAATATCTATAATAAATATGATTGCACCCAATAATATCATGGTTCAATAAGAAATAAGTTGCG
* * * * *
1797931 ATTTGTTATA-TTAATATTTTTATTAATAAAATAGGTTGTGCCCAAGAGTCTCATGGTACTCTAA
66 ATTTG-GAAAGTTAATATTTTTATTAATAAAATAGGTTGTGCCCAAAAATCTCATGGTACCCTAA
* *
1797995 GAAAGCATGTTGCAATATGGAATATTACTATTTTTAAAAATAAAATGGGTTACGCCTAAAACATT
130 GAAAGAATGTTGCAATATGGAATATTACTAATTTTAAAAATAAAATGGGTTACGCCTAAAACATT
1798060 ATCAAAGTTTAAGCTAATGGAGCCTTGATGTTTACCACAATAAGAAAATAAGTTAAAAGCTTAAA
195 ATCAAAGTTTAAGCTAATGGAGCCTTGATGTTTACCACAATAAGAAAATAAGTTAAAAGCTTAAA
1798125 ATGTG
260 ATGTG
* * * *
1798130 ATGAGTATCTATAATAAATATGATTGCGCCCAATAATATCATGGTTCAATAAGAAATATGTTGCA
1 ATGAATATCTATAATAAATATGATTGCACCCAATAATATCATGGTTCAATAAGAAATAAGTTGCG
* *
1798195 ATTTGGAAAGTTAATATTTTTTTTAATAAAATAGGTTGTGCCCAAAAATCTCATGGTACCCTAGG
66 ATTTGGAAAGTTAATATTTTTATTAATAAAATAGGTTGTGCCCAAAAATCTCATGGTACCCTAAG
* * * *
1798260 AAAGAATGTTGCAATCTGGAATTTTACTAATTTTAATAATAAAATGGGTTCCGCCTAAAACATTA
131 AAAGAATGTTGCAATATGGAATATTACTAATTTTAAAAATAAAATGGGTTACGCCTAAAACATTA
* * *
1798325 TCAAAGTTTAAGCTGATGGAGCGTTGGA-GTTT-CACACGATAAGAAAATAAGTTAAAAGCTTAA
196 TCAAAGTTTAAGCTAATGGAGCCTT-GATGTTTAC-CACAATAAGAAAATAAGTTAAAAGCTTAA
*
1798388 AATGTT
259 AATGTG
* * * * * *
1798394 ATGAATATGTATCATAAATACGATTACACCCAATAATATCATGGTTCAATAAGAAATAGGTTGTG
1 ATGAATATCTATAATAAATATGATTGCACCCAATAATATCATGGTTCAATAAGAAATAAGTTGCG
* *
1798459 ATAT-GAGAAGTTAATATTTTTATTAATAAAATATGTTG
66 ATTTGGA-AAGTTAATATTTTTATTAATAAAATAGGTTG
1798497 CGCCTAAGAA
Statistics
Matches: 324, Mismatches: 39, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
263 5 0.02
264 317 0.98
265 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (264 bp):
ATGAATATCTATAATAAATATGATTGCACCCAATAATATCATGGTTCAATAAGAAATAAGTTGCG
ATTTGGAAAGTTAATATTTTTATTAATAAAATAGGTTGTGCCCAAAAATCTCATGGTACCCTAAG
AAAGAATGTTGCAATATGGAATATTACTAATTTTAAAAATAAAATGGGTTACGCCTAAAACATTA
TCAAAGTTTAAGCTAATGGAGCCTTGATGTTTACCACAATAAGAAAATAAGTTAAAAGCTTAAAA
TGTG
Found at i:1798509 original size:77 final size:79
Alignment explanation
Indices: 1798428--1798587 Score: 168
Period size: 80 Copynumber: 2.0 Consensus size: 79
1798418 TACACCCAAT
* * **
1798428 AATATCATGGTTCAATAAGAAA-TAGGTTGTGATATG-A-G-AA-GTTAATATTTTTATTAATAA
1 AATATCAGGGTTCAATAAGAAAGTAAGTTGCAATATGCAGGTAATGTTAATA--TTT-TTAATAA
*
1798488 AATATGTTGCGCCTAAG
63 AATAGGTTGCGCCTAAG
** * *
1798505 AATATTGGGGTTCACTAAGAAAGTAAGTTGCAATCTGCAGTGTAATGTTAATATTTTTAATAAAA
1 AATATCAGGGTTCAATAAGAAAGTAAGTTGCAATATGCAG-GTAATGTTAATATTTTTAATAAAA
1798570 TAGGTTGCGCCTAAG
65 TAGGTTGCGCCTAAG
1798585 AAT
1 AAT
1798588 GTCTAGGTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
77 18 0.26
78 10 0.15
79 1 0.01
80 26 0.38
81 4 0.06
82 2 0.03
83 7 0.10
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (79 bp):
AATATCAGGGTTCAATAAGAAAGTAAGTTGCAATATGCAGGTAATGTTAATATTTTTAATAAAAT
AGGTTGCGCCTAAG
Found at i:1802262 original size:59 final size:58
Alignment explanation
Indices: 1802193--1802533 Score: 460
Period size: 59 Copynumber: 5.8 Consensus size: 58
1802183 TTTATTTCCC
* *
1802193 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAGGTGCCCA
1 ATACGTAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAA-GTGCCCT
* * *
1802252 ATACATAAATTCATACACTTAGTATGAATTTCTTAAT-ATTTTAGCACATGAAGTGCCTT
1 ATACGTAAATTCATACACTTAGTATGAATTTCTT-ATCATTTTAGCACA-CAAGTGCCCT
*
1802311 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCT
1 ATACGTAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGTGCCCT
* *
1802370 ATAC-TGAAATTCATAAACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTG-CCT
1 ATACGT-AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGTGCCCT
*
1802428 ATACGTAAGTTCATACACTTAGTATGAATTTCTTAAT-ATTTTAGCACACGAAGTGCCCT
1 ATACGTAAATTCATACACTTAGTATGAATTTCTT-ATCATTTTAGCACAC-AAGTGCCCT
* * *
1802487 ATATGGAAATTC--ACACTTAGTATGAATTTCTTAACATTTTAGCACAC
1 ATACGTAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC
1802534 TTAGTGCCAT
Statistics
Matches: 252, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
56 1 0.00
57 32 0.13
58 52 0.21
59 163 0.65
60 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (58 bp):
ATACGTAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAGTGCCCT
Found at i:1802486 original size:117 final size:118
Alignment explanation
Indices: 1802193--1802533 Score: 534
Period size: 118 Copynumber: 2.9 Consensus size: 118
1802183 TTTATTTCCC
*
1802193 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGGTGCCCAATACA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAA-GTGCCCTATAC-
* **
1802257 T-AAATTCATACACTTAGTATGAATTTCTTAATATTTTAGCACATGAAGTGCCTT
64 TGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCTT
1802311 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCTATACTG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCTATACTG
*
1802376 AAATTCATAAACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCC-T
66 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCTT
* *
1802428 ATACGTAAGTTCATACACTTAGTATGAATTTCTTAAT-ATTTTAGCACACGAAGTGCCCTATA-T
1 ATACGGAAATTCATACACTTAGTATGAATTTCTT-ATCATTTTAGCACACGAAGTGCCCTATACT
1802491 GGAAATTC--ACACTTAGTATGAATTTCTTAACATTTTAGCACAC
65 -GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
1802534 TTAGTGCCAT
Statistics
Matches: 211, Mismatches: 8, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
115 34 0.16
116 1 0.00
117 66 0.31
118 108 0.51
119 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (118 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCTATACTG
AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCTT
Found at i:1805900 original size:44 final size:43
Alignment explanation
Indices: 1805754--1805913 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
1805744 CGTTTGTATT
* * * ** **
1805754 AAAACACCACTAAAAACAATATCATTAGCGGCT-TTTGTGGGGA
1 AAAATACCACTAAAGACAAGAGAATTAGCGG-TGTTTGTGGAAA
* *
1805797 AAAACACCACTAAAGACAAGGGAATTAGCGGTGTTTGTGGAAA
1 AAAATACCACTAAAGACAAGAGAATTAGCGGTGTTTGTGGAAA
*
1805840 AAAATACCACTAAAGACAAGAGAATTAGCGGTGTTTTTGGCAAA
1 AAAATACCACTAAAGACAAGAGAATTAGCGGTGTTTGTGG-AAA
* *
1805884 AAAATGCCACTAAAGACAAAAGAATTAGCG
1 AAAATACCACTAAAGACAAGAGAATTAGCG
1805914 ACCTTTGAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
42 1 0.01
43 71 0.69
44 31 0.30
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.20
Consensus pattern (43 bp):
AAAATACCACTAAAGACAAGAGAATTAGCGGTGTTTGTGGAAA
Found at i:1817380 original size:12 final size:11
Alignment explanation
Indices: 1817352--1817389 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
1817342 TACTTATAAT
1817352 AATTTTTTT--
1 AATTTTTTTAA
1817361 AATTTTTTTAA
1 AATTTTTTTAA
1817372 AATTATTTTTAA
1 AATT-TTTTTAA
1817384 AATTTT
1 AATTTT
1817390 ATAAATGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTTTTTTAA
Found at i:1817641 original size:15 final size:15
Alignment explanation
Indices: 1817621--1817650 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1817611 GAACACCATT
1817621 AATTTAATTTATAAA
1 AATTTAATTTATAAA
*
1817636 AATTTAATTTCTAAA
1 AATTTAATTTATAAA
1817651 GACTCAACGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTAATTTATAAA
Found at i:1820557 original size:26 final size:26
Alignment explanation
Indices: 1820518--1820567 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1820508 AATACTTTAA
*
1820518 GTCATTTTACACTTTAGGGGCATTTTG
1 GTCATTTTACACTTCA-GGGCATTTTG
*
1820545 GTCA-TTTATACTTCAGGGCATTT
1 GTCATTTTACACTTCAGGGCATTT
1820568 CTATAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 9 0.43
27 4 0.19
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (26 bp):
GTCATTTTACACTTCAGGGCATTTTG
Found at i:1827723 original size:30 final size:29
Alignment explanation
Indices: 1827689--1827745 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
1827679 TTAATTTTAA
*
1827689 ATAATAATAT-ATAAATTATATTAAAAATAT
1 ATAATAATATAAAAAATTA-A-TAAAAATAT
*
1827719 ATAATTATATAAAAAATTAATAAAAAT
1 ATAATAATATAAAAAATTAATAAAAAT
1827746 CCAAAGTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.29
30 10 0.42
31 7 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
ATAATAATATAAAAAATTAATAAAAATAT
Found at i:1827726 original size:19 final size:20
Alignment explanation
Indices: 1827694--1827735 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
1827684 TTTAAATAAT
*
1827694 AATATATAAATTATATTAAA
1 AATATATAAATTATATAAAA
1827714 AATATAT-AATTATATAAAA
1 AATATATAAATTATATAAAA
1827733 AAT
1 AAT
1827736 TAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATATAAATTATATAAAA
Found at i:1828547 original size:20 final size:20
Alignment explanation
Indices: 1828522--1828572 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1828512 TTCCTAATTT
1828522 GCAATGAGAATACGTAAATC
1 GCAATGAGAATACGTAAATC
1828542 GCAATGAGAATACGTAAATC
1 GCAATGAGAATACGTAAATC
*
1828562 GCAATGCGAAT
1 GCAATGAGAAT
1828573 CTGACTATCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.20
Consensus pattern (20 bp):
GCAATGAGAATACGTAAATC
Found at i:1829187 original size:20 final size:20
Alignment explanation
Indices: 1829162--1829210 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1829152 CAACGAGTGA
1829162 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
1829182 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1829202 ATCGCAACG
1 ATCGCAACG
1829211 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1829292 original size:20 final size:20
Alignment explanation
Indices: 1829269--1829312 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1829259 GATAATCAAA
*
1829269 TTCGCGTTTCGATAGTCATT
1 TTCGCGTTACGATAGTCATT
* **
1829289 TTCGTGTTACGATTTTCATT
1 TTCGCGTTACGATAGTCATT
1829309 TTCG
1 TTCG
1829313 TGTTGCAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (20 bp):
TTCGCGTTACGATAGTCATT
Found at i:1829323 original size:20 final size:20
Alignment explanation
Indices: 1829284--1829323 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1829274 GTTTCGATAG
*
1829284 TCATTTTCGTGTTACGATTT
1 TCATTTTCGTGTTACAATTT
*
1829304 TCATTTTCGTGTTGCAATTT
1 TCATTTTCGTGTTACAATTT
1829324 AAAGTTTCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (20 bp):
TCATTTTCGTGTTACAATTT
Found at i:1831227 original size:20 final size:20
Alignment explanation
Indices: 1831202--1831347 Score: 169
Period size: 20 Copynumber: 7.6 Consensus size: 20
1831192 AGAATAGTTT
*
1831202 ACTATCGCAATGCGAAAATG
1 ACTATCGCAACGCGAAAATG
1831222 ACTATCGCAACGCGAAAATG
1 ACTATCGCAACGCGAAAATG
*
1831242 ACTATCGCAACGCGAAAAAG
1 ACTATCGCAACGCGAAAATG
*
1831262 ACAATCGCAACGCGAAAATG
1 ACTATCGCAACGCGAAAATG
*
1831282 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAACGCGAAAATG
* *
1831298 A--ATCACAATGCGAAAATG
1 ACTATCGCAACGCGAAAATG
* **
1831316 ACTATCGCAATGCGAATTTG
1 ACTATCGCAACGCGAAAATG
1831336 ACTATCGCAACG
1 ACTATCGCAACG
1831348 AAAGAATCGC
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.06
16 4 0.04
17 4 0.04
18 4 0.04
20 90 0.83
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.16
Consensus pattern (20 bp):
ACTATCGCAACGCGAAAATG
Found at i:1831338 original size:54 final size:54
Alignment explanation
Indices: 1831205--1831383 Score: 207
Period size: 54 Copynumber: 3.2 Consensus size: 54
1831195 ATAGTTTACT
* *
1831205 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGCGAAAAAGACA
1 ATCGCAATGCGAAAATGACTATCGCAA--CG-AAA-GA--ATCGCAATGCGAAAATGACA
* * * *
1831265 ATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCACAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCGAAAATGACA
** *
1831319 ATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAATGCG-AAATGAAA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCGAAAATGACA
*
1831372 ATCGCATTGCGA
1 ATCGCAATGCGA
1831384 TTCTCTCGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 17 0.16
54 56 0.53
56 2 0.02
57 2 0.02
58 2 0.02
60 26 0.25
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCGAAAATGACA
Found at i:1831531 original size:20 final size:20
Alignment explanation
Indices: 1831392--1831523 Score: 118
Period size: 20 Copynumber: 7.0 Consensus size: 20
1831382 GATTCTCTCG
**
1831392 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1831412 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1831432 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
1831446 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
1831465 TTGTGATAGTTATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1831485 TTGCGATAGTCATTTTCGTA
1 TTGCGATAGTCATTTTCGCA
*
1831505 TTGCGATATTCATTTTCGC
1 TTGCGATAGTCATTTTCGC
1831524 GTTACGATTT
Statistics
Matches: 91, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
14 7 0.08
16 6 0.07
17 4 0.04
18 1 0.01
19 8 0.09
20 65 0.71
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1832056 original size:18 final size:19
Alignment explanation
Indices: 1832017--1832058 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
1832007 CTCACCTGTC
1832017 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
1832038 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
1832056 ATC
1 ATC
1832059 ATCCCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:1832119 original size:42 final size:41
Alignment explanation
Indices: 1832012--1832122 Score: 102
Period size: 42 Copynumber: 2.6 Consensus size: 41
1832002 CCCGACTCAC
* *
1832012 CTGTCATCGTTCAAGAGG--CCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTT-AAGAGGTCCCT-CCC-ACCGTTCAAGAGGCCA
* * *
1832054 CTATCATCCCTTAA-AAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCAT-CGTTAAGAGGT-CCCTCCCACCGTTCAAGAGGCCA
1832096 CTGTCATCGTTGAAGAGGTCCCTCCCA
1 CTGTCATCGTT-AAGAGGTCCCTCCCA
1832123 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
41 5 0.09
42 38 0.69
43 9 0.16
44 3 0.05
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (41 bp):
CTGTCATCGTTAAGAGGTCCCTCCCACCGTTCAAGAGGCCA
Found at i:1833702 original size:34 final size:34
Alignment explanation
Indices: 1833614--1833743 Score: 208
Period size: 34 Copynumber: 3.9 Consensus size: 34
1833604 AAAACAGACT
* * ** *
1833614 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGTGA
1833648 ATCGCAATGCG-AAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGTGA
1833681 ATCGCAATGCGAAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGTGA
1833715 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
1833744 CGAAACTAAT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
33 30 0.33
34 61 0.67
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGTGA
Found at i:1833705 original size:20 final size:19
Alignment explanation
Indices: 1833647--1833748 Score: 89
Period size: 20 Copynumber: 5.8 Consensus size: 19
1833637 GCAACGAGAG
1833647 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1833666 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
1833680 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
1833700 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
1833714 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
1833734 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
1833749 CTAATTTCGC
Statistics
Matches: 66, Mismatches: 5, Indels: 24
0.69 0.05 0.25
Matches are distributed among these distances:
14 16 0.24
16 10 0.15
17 2 0.03
18 8 0.12
19 11 0.17
20 19 0.29
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1833719 original size:14 final size:14
Alignment explanation
Indices: 1833634--1833721 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
1833624 GGAAATGACT
*
1833634 ATCGCAACGAGAGA
1 ATCGCAACGAGTGA
*
1833648 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG-AGTG--A
1833667 ATCGCAACGAGTGA
1 ATCGCAACGAGTGA
*
1833681 ATCGCAATGCGAAAATGAAA
1 ATCGCAA--CG--AGTG--A
1833701 ATCGCAACGAGTGA
1 ATCGCAACGAGTGA
1833715 ATCGCAA
1 ATCGCAA
1833722 TGCGAAAATG
Statistics
Matches: 58, Mismatches: 5, Indels: 22
0.68 0.06 0.26
Matches are distributed among these distances:
14 23 0.40
16 10 0.17
17 4 0.07
18 5 0.09
19 8 0.14
20 8 0.14
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (14 bp):
ATCGCAACGAGTGA
Found at i:1833722 original size:67 final size:68
Alignment explanation
Indices: 1833614--1833743 Score: 208
Period size: 67 Copynumber: 1.9 Consensus size: 68
1833604 AAAACAGACT
* **
1833614 ATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAATGCG-AAATGAAAATCGCAACGAG
1 ATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCGCAACGAG
1833678 TGA
66 TGA
* *
1833681 ATCGCAATGCGAAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCGCAACG
1833744 CGAAACTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
67 40 0.70
68 17 0.30
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (68 bp):
ATCGCAACGCGAAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAATGAAAATCGCAACGAG
TGA
Found at i:1833818 original size:20 final size:19
Alignment explanation
Indices: 1833793--1833865 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
1833783 GATTCTCTCG
1833793 TTGCGATAGTCAATTCCGCA
1 TTGCGATAGTCAATT-CGCA
* *
1833813 TTGCGATAGTCATTTTCGTA
1 TTGCGATAGTCA-ATTCGCA
* *
1833833 TTGTGATAGTCATATTCGCG
1 TTGCGATAGTCA-ATTCGCA
1833853 TTGCGATAGTCAA
1 TTGCGATAGTCAA
1833866 ATGAATGTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.02
20 42 0.93
21 2 0.04
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGCGATAGTCAATTCGCA
Found at i:1836333 original size:24 final size:24
Alignment explanation
Indices: 1836282--1836333 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
1836272 ATCTGAGTAT
* *
1836282 TGACCAAGATCAAAGTACGAGTAT
1 TGACCAAGATCAAAGTACGAATAC
* *
1836306 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTACGAATAC
1836330 TGAC
1 TGAC
1836334 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTACGAATAC
Found at i:1837009 original size:22 final size:21
Alignment explanation
Indices: 1836970--1837010 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1836960 TGCTAGATGG
**
1836970 GGAAGGATGTCGTTGGATATA
1 GGAAGGATGTCGCCGGATATA
1836991 GGAACGGATGTCGCCGGATA
1 GGAA-GGATGTCGCCGGATA
1837011 GAGTGATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.27, C:0.12, G:0.39, T:0.22
Consensus pattern (21 bp):
GGAAGGATGTCGCCGGATATA
Found at i:1837197 original size:20 final size:20
Alignment explanation
Indices: 1837181--1837287 Score: 133
Period size: 20 Copynumber: 5.3 Consensus size: 20
1837171 CAGAATCTCG
1837181 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
*
1837201 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
*
1837221 TTGCGATTTACGTAATAGCA
1 TTGCGATTTACGTAATCGCA
* ** *
1837241 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTACGTAA-TCGCA
* *
1837262 TTGCGATTTACATATTCGCA
1 TTGCGATTTACGTAATCGCA
1837282 TTGCGA
1 TTGCGA
1837288 ATTGGGAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 59 0.81
21 14 0.19
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGTAATCGCA
Found at i:1837207 original size:40 final size:38
Alignment explanation
Indices: 1837160--1837287 Score: 107
Period size: 40 Copynumber: 3.2 Consensus size: 38
1837150 GAAATTCAGT
1837160 ATTGCGATAGTCAGAATCTCGTTGCGATTTACGTAATCGC
1 ATTGCGAT--TCAGAATCTCGTTGCGATTTACGTAATCGC
* * *
1837200 ATTGCGATTTACGTAT-TCGCATTGCGATTTACGTAATAGC
1 ATTGCGATTCA-GAATCTCG--TTGCGATTTACGTAATCGC
* * *
1837240 ATTGCGATTTTCCA-AATTCGCGTTGCGATTTACATATTCGC
1 ATTGCGA--TT-CAGAA-TCTCGTTGCGATTTACGTAATCGC
1837281 ATTGCGA
1 ATTGCGA
1837288 ATTGGGAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
38 5 0.07
39 3 0.04
40 33 0.46
41 24 0.34
42 3 0.04
43 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (38 bp):
ATTGCGATTCAGAATCTCGTTGCGATTTACGTAATCGC
Found at i:1840105 original size:2 final size:2
Alignment explanation
Indices: 1840098--1840132 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1840088 TCTACTTAGT
1840098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1840133 GCGTGTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1843287 original size:10 final size:9
Alignment explanation
Indices: 1843244--1843286 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
1843234 ATGAAAATAG
1843244 AAAT-AAAA
1 AAATAAAAA
1843252 AAATAAAAA
1 AAATAAAAA
1843261 AAATAAAAA
1 AAATAAAAA
*
1843270 AAATAAATAG
1 AAATAAA-AA
1843280 AAATAAA
1 AAATAAA
1843287 TCATATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 4 0.12
9 20 0.62
10 8 0.25
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (9 bp):
AAATAAAAA
Found at i:1843447 original size:37 final size:37
Alignment explanation
Indices: 1843342--1843681 Score: 347
Period size: 37 Copynumber: 9.3 Consensus size: 37
1843332 GTTTTCTAAA
* *
1843342 ATATATTATATA-TATTTCAAAAATGTTTTCAAAACT
1 ATATATTATATATTTTTTCAAAAATGTTTTCAAAATT
*
1843378 ATATATTATATA---TTTAAAAAATGTTTTCAAAATT
1 ATATATTATATATTTTTTCAAAAATGTTTTCAAAATT
* * *
1843412 ATAGATTATATATTTTTTCAAAAATGTTTTTAAAATC
1 ATATATTATATATTTTTTCAAAAATGTTTTCAAAATT
* **
1843449 ATATATTATATATATTTTT-GAAAATGTTTTCAAAAAC
1 ATATATTATATAT-TTTTTCAAAAATGTTTTCAAAATT
*** *
1843486 ATATATTATATA--TTAAAAAAAACGATTTTCAAAATT
1 ATATATTATATATTTTTTCAAAAATG-TTTTCAAAATT
* * * *
1843522 AAATGTTATATATATTTTCAAAAATGTTTTCAAAATC
1 ATATATTATATATTTTTTCAAAAATGTTTTCAAAATT
* *
1843559 ATATATTATATATTTTTTAAAAAACGTTTTCAAAATT
1 ATATATTATATATTTTTTCAAAAATGTTTTCAAAATT
* * *
1843596 ACATATTATATATATTTTTGAAAAATGTTTTCAAAACT
1 ATATATTATATAT-TTTTTCAAAAATGTTTTCAAAATT
* * *
1843634 ATATACTATATATATTTTCAAAAACT-TCTTT-AAAACT
1 ATATATTATATATTTTTTCAAAAA-TGT-TTTCAAAATT
1843671 ATATATTATAT
1 ATATATTATAT
1843682 TATATATATA
Statistics
Matches: 255, Mismatches: 38, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
34 33 0.13
35 5 0.02
36 31 0.12
37 137 0.54
38 49 0.19
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTATATATTTTTTCAAAAATGTTTTCAAAATT
Found at i:1843537 original size:73 final size:72
Alignment explanation
Indices: 1843342--1843646 Score: 276
Period size: 73 Copynumber: 4.2 Consensus size: 72
1843332 GTTTTCTAAA
*** * * * **
1843342 ATATATTATATATATTTCAAAAATGTTTTCAAAACTATATA-T-TATATA-TTTAAAAAATGTTT
1 ATATATTATATAT-TAAAAAAAACGTTTTCAAAATTAAATATTATATATATTTTTGAAAATGTTT
**
1843404 TCAAAATT
65 TCAAAAAC
* *** * * * *
1843412 ATAGATTATATATTTTTTCAAAAATGTTTTTAAAATCATATATTATATATATTTTTGAAAATGTT
1 ATATATTATATA--TTAAAAAAAACGTTTTCAAAATTAAATATTATATATATTTTTGAAAATGTT
1843477 TTCAAAAAC
64 TTCAAAAAC
* **
1843486 ATATATTATATATTAAAAAAAACGATTTTCAAAATTAAATGTTATATATATTTTCAAAAATGTTT
1 ATATATTATATATTAAAAAAAACG-TTTTCAAAATTAAATATTATATATATTTTTGAAAATGTTT
*
1843551 TCAAAATC
65 TCAAAAAC
** *
1843559 ATATATTATATATTTTTTAAAAAACGTTTTCAAAATTACATATTATATATATTTTTGAAAAATGT
1 ATATATTATATA--TTAAAAAAAACGTTTTCAAAATTAAATATTATATATATTTTTG-AAAATGT
1843624 TTTC-AAAAC
63 TTTCAAAAAC
*
1843633 TATATACTATATAT
1 -ATATATTATATAT
1843647 ATTTTCAAAA
Statistics
Matches: 197, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
70 11 0.06
71 24 0.12
72 10 0.05
73 60 0.30
74 60 0.30
75 32 0.16
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (72 bp):
ATATATTATATATTAAAAAAAACGTTTTCAAAATTAAATATTATATATATTTTTGAAAATGTTTT
CAAAAAC
Found at i:1843540 original size:110 final size:108
Alignment explanation
Indices: 1843342--1843686 Score: 414
Period size: 110 Copynumber: 3.1 Consensus size: 108
1843332 GTTTTCTAAA
*
1843342 ATATATTATATATA-TTTCAAAAATGTTTTC-AAAACTATATATTATATATTTAAAAAATGTTTT
1 ATATATTATATATATTTTTAAAAATGTTTTCAAAAAC-ATATATTATATATTTAAAAAATGTTTT
*
1843405 CAAAATTATA-GATTATATATTTTTTCAAAAATGTTTTTAAAATC
65 CAAAATTATATG-TTATATATATTTTCAAAAATGTTTTTAAAATC
* * *
1843449 ATATATTATATATATTTTTGAAAATGTTTTCAAAAACATATATTATATATTAAAAAAAACGATTT
1 ATATATTATATATATTTTTAAAAATGTTTTCAAAAACATATATTATATATT-TAAAAAATG-TTT
* *
1843514 TCAAAATTAAATGTTATATATATTTTCAAAAATGTTTTCAAAATC
64 TCAAAATTATATGTTATATATATTTTCAAAAATGTTTTTAAAATC
* * *
1843559 ATATATTATATAT-TTTTTAAAAAACGTTTTCAAAATTACATATTATATATATTTTTGAAAAATG
1 ATATATTATATATATTTTT-AAAAATGTTTTCAAAA--ACATA-TAT-TATATATTTAAAAAATG
* ** *
1843623 TTTTCAAAACTATATACTATATATATTTTCAAAAACT-TCTTTAAAA-C
61 TTTTCAAAATTATATGTTATATATATTTTCAAAAA-TGTTTTTAAAATC
1843670 TATATATTATATTATAT
1 -ATATATTATA-TATAT
1843687 ATATATATAT
Statistics
Matches: 205, Mismatches: 19, Indels: 21
0.84 0.08 0.09
Matches are distributed among these distances:
107 14 0.07
108 28 0.14
109 17 0.08
110 70 0.34
111 2 0.01
112 53 0.26
113 13 0.06
114 8 0.04
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (108 bp):
ATATATTATATATATTTTTAAAAATGTTTTCAAAAACATATATTATATATTTAAAAAATGTTTTC
AAAATTATATGTTATATATATTTTCAAAAATGTTTTTAAAATC
Found at i:1844462 original size:199 final size:200
Alignment explanation
Indices: 1844051--1844831 Score: 848
Period size: 201 Copynumber: 3.9 Consensus size: 200
1844041 AAGGTGGATT
* * * * ** * * * * *
1844051 CTTGTTGCCAAATCGTAGTCAACCTTTGTCTTTTTCTTGACTTAAAAACTTCAGTTTGAAATTTC
1 CTTGTTGCTAAATTGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTT--AACTTC
* * * * * * ** * *
1844116 GACCAGAAAGTAGTTCCTCGCTGCTACTAAGCGGCTGACATGCCTTCGAGCTGAATGGAACCGAA
64 AACCGGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATACACCCTCGAGCTGAATGGAATCGAA
* * * * * * *
1844181 CTCGAAAGTTTTCATTGACAGATAACCCTTCTTTCCTTGAGCTATGCTGTAGATTAGGCTAAGAG
129 CTCAAAAGTTTTCGTTGACAGATAACTCTTCTTGCCTTGAGCTATGCTGTAAATTAGGCTGAGGG
*
1844246 ATAATTC
194 ATAGTTC
* *
1844253 ATTGTTGCTAAATTGCAGCCAACCTAGGTCTTCTTCTTGAGTTAAAGACCTCGGTTT-ACTTCAA
1 CTTGTTGCTAAATTGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAACTTCAA
* *
1844317 CCGGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATACACCCTCGAACTAAATGGAATCGAACT
66 CCGGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATACACCCTCGAGCTGAATGGAATCGAACT
* * ** * * *
1844382 CAAAAGTTTTTGTTGACAGATAGCTCAACTTGCCTTGAGCTATGATGTAAATTCGGCTGAGGGGT
131 CAAAAGTTTTCGTTGACAGATAACTCTTCTTGCCTTGAGCTATGCTGTAAATTAGGCTGAGGGAT
1844447 AGTTC
196 AGTTC
* *
1844452 CTTTTTGCTAAATTGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAAATTCA
1 CTTGTTGCTAAATTGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTT-AACTTCA
* * * * *
1844517 ACTGGTAAGTAGTTCCTCGCTGCTACCATGCGGTTGATACACCCTCGACCTGAATGGAATCAAAA
65 ACCGGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATACACCCTCGAGCTGAATGGAATCGAAC
* * * * * * * *
1844582 TCGAAAA-TTTTTGTTGACAAATAACTTTTCTCGACTTAAGCTATGCTGTAAATTTGGTTG-GGA
130 TC-AAAAGTTTTCGTTGACAGATAACTCTTCTTGCCTTGAGCTATGCTGTAAATTAGGCTGAGG-
1844645 GATAGTTC
193 GATAGTTC
* * *
1844653 CTTGTTGCTAAATCGCAGCCAACCCAGGTCTTCTTCTTGACTTAAAGACCTCAGTTTAAACTTCA
1 CTTGTTGCTAAATTGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTT-AACTTCA
* * * * ** *
1844718 ACCGAAAAGTAGTTTCTCGTTGCTACCATGCGGTTAATATGCCTTCGAGCTGAATGGAATCGAAC
65 ACCGGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATACACCCTCGAGCTGAATGGAATCGAAC
** * ** *
1844783 TTGAAAGTTTTCGTTGACAGATAACCCTTCCCGCCTTGAGCTATACTGT
130 TCAAAAGTTTTCGTTGACAGATAACTCTTCTTGCCTTGAGCTATGCTGT
1844832 GAACGGTTCC
Statistics
Matches: 485, Mismatches: 89, Indels: 11
0.83 0.15 0.02
Matches are distributed among these distances:
199 168 0.35
200 5 0.01
201 263 0.54
202 49 0.10
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (200 bp):
CTTGTTGCTAAATTGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAACTTCAA
CCGGAAAGTAGTTCCTCGCTGCTACCATGCGGTTGATACACCCTCGAGCTGAATGGAATCGAACT
CAAAAGTTTTCGTTGACAGATAACTCTTCTTGCCTTGAGCTATGCTGTAAATTAGGCTGAGGGAT
AGTTC
Found at i:1845560 original size:37 final size:37
Alignment explanation
Indices: 1845428--1845768 Score: 344
Period size: 37 Copynumber: 9.4 Consensus size: 37
1845418 TTTCTAAAAC
* *
1845428 ATATTATATATA-CTTCAAAAATGTTTTCAAAACTAT
1 ATATTATATATATTTTCAAAAATGTTTTCAAAATTAT
* *
1845464 ATA-T-TATATA-TTTAAAAAATGTTTAC-AAATTAT
1 ATATTATATATATTTTCAAAAATGTTTTCAAAATTAT
* **
1845497 ACATTATATAT-TTTTTTAAAATGTTTT-AAAATTCAT
1 ATATTATATATATTTTCAAAAATGTTTTCAAAATT-AT
* *
1845533 ATATTATATATATTTTCGAAAATGTTTTCAAAATCAT
1 ATATTATATATATTTTCAAAAATGTTTTCAAAATTAT
* * *
1845570 ATATTATATAT-TTTCTAAAAAACGTTTTCAAAATTAC
1 ATATTATATATATTT-TCAAAAATGTTTTCAAAATTAT
* * *
1845607 ATGTTATATATATTTTCGAAAATGTTTTCAAAATCAT
1 ATATTATATATATTTTCAAAAATGTTTTCAAAATTAT
* ** *
1845644 ATATTATATAT-TTTTTAAAAACATTTTCAAAATTAC
1 ATATTATATATATTTTCAAAAATGTTTTCAAAATTAT
* *
1845680 ATATTATATATATTTTTGAAAAATGTTTTCAAAACTAT
1 ATATTATATATA-TTTTCAAAAATGTTTTCAAAATTAT
* *
1845718 ATACTATATATATTTTCAAAAACT-TCTTT-AAAACTAT
1 ATATTATATATATTTTCAAAAA-TGT-TTTCAAAATTAT
1845755 ATATTATATTATAT
1 ATATTATA-TATAT
1845769 ATATATCAAA
Statistics
Matches: 253, Mismatches: 38, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
33 8 0.03
34 20 0.08
35 23 0.09
36 48 0.19
37 106 0.42
38 48 0.19
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (37 bp):
ATATTATATATATTTTCAAAAATGTTTTCAAAATTAT
Found at i:1846708 original size:201 final size:201
Alignment explanation
Indices: 1846152--1846905 Score: 852
Period size: 201 Copynumber: 3.8 Consensus size: 201
1846142 GTCAATCTTT
* * * * *
1846152 GTCTTTTTCTTGACTTAAAAACTTCAGTTTGAAAATTCGACCGGAAAGTAGTTCCTCACTACTAC
1 GTCTTCTTCTTGACTTAAAGACCTCAGTTT-AAAATTCAACCGGAAAGTAGTTCCTCACTGCTAC
* * * ** * *
1846217 TAAGCGGCTGATATGCCTTCGAGCTGAATGGAA-CTGAACTCGAAAGTTTTCGTTGACAGATAAC
65 CATGCGGTTGATACACCCTCGAGCTGAATGGAATC-GAACTCGAAAGTTTTCGTTGACAGATAGC
* * * * * *
1846281 CCTTCTTGCCTTGAACTATGCTGTAGATTAGGCTAAGAGATAATTCATTGTTGCTAAATCGCAGC
129 TCTTCTTGCCTTGAGCTATGCTGTAAATTAGGCTGAGGGATAGTTCATTGTTGCTAAATCGCAGC
*
1846346 CAACTTAG
194 CAACCTAG
* * * * * * *
1846354 GTTTTCTTCTTGAGTTAAAGACCTCGGTTT--ACTTCAACCGGAAAGTAGTTTCTCGCTGCTGCC
1 GTCTTCTTCTTGACTTAAAGACCTCAGTTTAAAATTCAACCGGAAAGTAGTTCCTCACTGCTACC
* * *
1846417 ATGCGGTTGATACACCCTCGAACTAAATGGAATCGAACTCGAAAGTTTTTGTTGACAGATAGCTC
66 ATGCGGTTGATACACCCTCGAGCTGAATGGAATCGAACTCGAAAGTTTTCGTTGACAGATAGCTC
* * * * * * *
1846482 TACTTGCCTTGAGCTATGATGTAAATTCGGCTGAGGGGTAGTTCCTTTTTGCTAAATCGCAACCA
131 TTCTTGCCTTGAGCTATGCTGTAAATTAGGCTGAGGGATAGTTCATTGTTGCTAAATCGCAGCCA
1846547 ACCTAG
196 ACCTAG
* * * *
1846553 GTCTTCTTCTTGACTTAAATACCTCGGTTTAAAATTCAACTGGTAAGTAGTTCCTCACTGCTACC
1 GTCTTCTTCTTGACTTAAAGACCTCAGTTTAAAATTCAACCGGAAAGTAGTTCCTCACTGCTACC
* * * ** * *
1846618 ATGCGGTTGATACACCCTCGACCTGAATGGAATCAAAATCGAAAAATTTCGTTGACATATAGCTT
66 ATGCGGTTGATACACCCTCGAGCTGAATGGAATCGAACTCGAAAGTTTTCGTTGACAGATAGCTC
* * *
1846683 TTCTCGACTT-ATGCTATGCTGTAAATTTGGCTG-GGAGATAGTTCATTGTTGCTAAATCGCAGC
131 TTCTTGCCTTGA-GCTATGCTGTAAATTAGGCTGAGG-GATAGTTCATTGTTGCTAAATCGCAGC
*
1846746 CAACCCAG
194 CAACCTAG
* * * * **
1846754 GTCTTCTTCTTGACTTAAAGACCTCATTTTAAACTTCAACTGGAAAATAGTTCCTCGTTGCTACC
1 GTCTTCTTCTTGACTTAAAGACCTCAGTTTAAAATTCAACCGGAAAGTAGTTCCTCACTGCTACC
* ** * *
1846819 ATGCGGTTAATATGCCCTCGAGCTGAATGGAATCGAACTTGAAAGTTTTCGTTGACAGATAGCCC
66 ATGCGGTTGATACACCCTCGAGCTGAATGGAATCGAACTCGAAAGTTTTCGTTGACAGATAGCTC
** *
1846884 TTCCCGCCTTGAGCTATACTGT
131 TTCTTGCCTTGAGCTATGCTGT
1846906 GAACGGTTCA
Statistics
Matches: 459, Mismatches: 87, Indels: 13
0.82 0.16 0.02
Matches are distributed among these distances:
199 164 0.36
200 4 0.01
201 266 0.58
202 25 0.05
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (201 bp):
GTCTTCTTCTTGACTTAAAGACCTCAGTTTAAAATTCAACCGGAAAGTAGTTCCTCACTGCTACC
ATGCGGTTGATACACCCTCGAGCTGAATGGAATCGAACTCGAAAGTTTTCGTTGACAGATAGCTC
TTCTTGCCTTGAGCTATGCTGTAAATTAGGCTGAGGGATAGTTCATTGTTGCTAAATCGCAGCCA
ACCTAG
Found at i:1847136 original size:22 final size:22
Alignment explanation
Indices: 1847106--1847149 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1847096 CTGAATTCGT
*
1847106 TCTGAATTGGCTCTCGAACCTG
1 TCTGAATTGGCTATCGAACCTG
*
1847128 TCTGGATTGGCTATCGAACCTG
1 TCTGAATTGGCTATCGAACCTG
1847150 ATTTGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (22 bp):
TCTGAATTGGCTATCGAACCTG
Found at i:1854627 original size:6 final size:6
Alignment explanation
Indices: 1854613--1854665 Score: 61
Period size: 6 Copynumber: 8.2 Consensus size: 6
1854603 TTGGACATAC
*
1854613 AAATGA AAATAA AAATAAA AAATAA AAATAA AAATAAA TAAATAGA AAATAA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA AAAT-AA -AAATA-A AAATAA
1854665 A
1 A
1854666 TAAATAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
6 23 0.55
7 14 0.33
8 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:1854653 original size:4 final size:4
Alignment explanation
Indices: 1854625--1854676 Score: 56
Period size: 4 Copynumber: 13.5 Consensus size: 4
1854615 ATGAAAATAA
* *
1854625 AAAT AAA- AAAT AAA- AATAA AAAT AAAT AAAT AGA- AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1854671 AAAT AA
1 AAAT AA
1854677 TATGTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
3 7 0.17
4 32 0.78
5 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:1854670 original size:23 final size:20
Alignment explanation
Indices: 1854613--1854676 Score: 89
Period size: 19 Copynumber: 3.3 Consensus size: 20
1854603 TTGGACATAC
*
1854613 AAATGAAAATAAAAATAAA-
1 AAATAAAAATAAAAATAAAT
1854632 AAATAAAAATAAAAATAAAT
1 AAATAAAAATAAAAATAAAT
1854652 AAATAGAAAAT--AAATAAAT
1 AAATA-AAAATAAAAATAAAT
1854671 AAATAA
1 AAATAA
1854677 TATGTATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
18 1 0.02
19 31 0.74
20 5 0.12
21 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAT
Found at i:1854671 original size:15 final size:13
Alignment explanation
Indices: 1854613--1854665 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
1854603 TTGGACATAC
1854613 AAAT-GAAAATAA
1 AAATAGAAAATAA
*
1854625 AAATAAAAAATAA
1 AAATAGAAAATAA
1854638 AAATA-AAAATAAA
1 AAATAGAAAAT-AA
1854651 TAAATAGAAAATAA
1 -AAATAGAAAATAA
1854665 A
1 A
1854666 TAAATAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 9 0.25
13 15 0.42
14 7 0.19
15 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (13 bp):
AAATAGAAAATAA
Found at i:1854674 original size:27 final size:27
Alignment explanation
Indices: 1854619--1854676 Score: 54
Period size: 27 Copynumber: 2.2 Consensus size: 27
1854609 ATACAAATGA
1854619 AAAT-AAAAATAAAAAATAAAAAT-AA-
1 AAATAAAAAAT-AAAAATAAAAATAAAT
1854644 AAATAAATAAATAGAAAAT--AAATAAAT
1 AAATAAA-AAATA-AAAATAAAAATAAAT
1854671 AAATAA
1 AAATAA
1854677 TATGTATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
25 8 0.29
26 5 0.18
27 15 0.54
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (27 bp):
AAATAAAAAATAAAAATAAAAATAAAT
Found at i:1854678 original size:15 final size:14
Alignment explanation
Indices: 1854613--1854678 Score: 68
Period size: 15 Copynumber: 4.8 Consensus size: 14
1854603 TTGGACATAC
*
1854613 AAATGAAAAT-AA-
1 AAATAAAAATAAAT
1854625 AAATAAAAA-ATAA-
1 AAATAAAAATA-AAT
1854638 AAATAAAAATAAAT
1 AAATAAAAATAAAT
1854652 AAATAGAAAATAAAT
1 AAATA-AAAATAAAT
1854667 AAATAAATAATA
1 AAATAAA-AATA
1854679 TGTATATATA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
12 8 0.17
13 13 0.28
14 8 0.17
15 18 0.38
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:1854784 original size:37 final size:38
Alignment explanation
Indices: 1854736--1855121 Score: 397
Period size: 37 Copynumber: 10.4 Consensus size: 38
1854726 GTTTTCTAAA
* *
1854736 ATATATTATATATATTTTCCAAAAACGTTTT-AAAACT
1 ATATATTATATATATTTTTCAAAAATGTTTTCAAAACT
* *
1854773 ATATA-T-TATATATTTTTCGAAAGATGATTTCAAAACT
1 ATATATTATATATATTTTTC-AAAAATGTTTTCAAAACT
1854810 ATATATTATATATA--TTTCAAAAATGTTTTCAAAACT
1 ATATATTATATATATTTTTCAAAAATGTTTTCAAAACT
** *
1854846 ATATA-T-TATATA-TTTAAAAAAATGTTTTCAAAATT
1 ATATATTATATATATTTTTCAAAAATGTTTTCAAAACT
* * **
1854881 ATACATTATATATTTTTTTTGAAAATGTTTTCAAAA-T
1 ATATATTATATATATTTTTCAAAAATGTTTTCAAAACT
* * *
1854918 CATATATTATATAT-TTTTTAAAAAATGTTATCAAAATT
1 -ATATATTATATATATTTTTCAAAAATGTTTTCAAAACT
**
1854956 ATATATTATATATA-TTTTCGTAAATGTTTTCAAAA-T
1 ATATATTATATATATTTTTCAAAAATGTTTTCAAAACT
* ** *
1854992 CATATATTATATAT-TTTTTAAAAAACATTTTCAAAATT
1 -ATATATTATATATATTTTTCAAAAATGTTTTCAAAACT
* *
1855030 ACATATTATATATATTTTTGAAAAATGTTTTCAAAACT
1 ATATATTATATATATTTTTCAAAAATGTTTTCAAAACT
* *
1855068 ATATACTATATATA-TTTTCAAAAACGTCTTT-AAAACT
1 ATATATTATATATATTTTTCAAAAATGT-TTTCAAAACT
1855105 ATATTATATATATATAT
1 ATA-TAT-TATATATAT
1855122 CAAATAGGAC
Statistics
Matches: 293, Mismatches: 37, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
34 6 0.02
35 35 0.12
36 32 0.11
37 136 0.46
38 70 0.24
39 14 0.05
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (38 bp):
ATATATTATATATATTTTTCAAAAATGTTTTCAAAACT
Found at i:1856283 original size:41 final size:41
Alignment explanation
Indices: 1856238--1856331 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
1856228 TATCAATACA
** * * *
1856238 TTAGTGGTGTTTTTATACAAACGCCGCTATAGACTAGTACT
1 TTAGTGGCATTTTTACACAAACGCCACTAAAGACTAGTACT
*
1856279 TTAGTGGCATTTTTACACAAACGCCACTAAAGACTCGTACT
1 TTAGTGGCATTTTTACACAAACGCCACTAAAGACTAGTACT
1856320 TTAGTGG-ATTTT
1 TTAGTGGCATTTT
1856332 GCGTTTACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 5 0.11
41 42 0.89
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (41 bp):
TTAGTGGCATTTTTACACAAACGCCACTAAAGACTAGTACT
Found at i:1860796 original size:19 final size:19
Alignment explanation
Indices: 1860772--1860810 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1860762 TCTTACTGAG
1860772 GAGTTTGTCTATTTGATAT
1 GAGTTTGTCTATTTGATAT
1860791 GAGTTTGTCTATTTGATAT
1 GAGTTTGTCTATTTGATAT
1860810 G
1 G
1860811 GTTGAGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.23, T:0.51
Consensus pattern (19 bp):
GAGTTTGTCTATTTGATAT
Found at i:1860867 original size:17 final size:17
Alignment explanation
Indices: 1860845--1860882 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1860835 GCATTGTTTC
1860845 ATATGTTCTTTGGTTCT
1 ATATGTTCTTTGGTTCT
1860862 ATATGTTCTTTGGTTCT
1 ATATGTTCTTTGGTTCT
1860879 ATAT
1 ATAT
1860883 TGGTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.58
Consensus pattern (17 bp):
ATATGTTCTTTGGTTCT
Found at i:1868655 original size:22 final size:22
Alignment explanation
Indices: 1868625--1868689 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
1868615 CATTTTGGTG
1868625 CAGAGGGAATCGATCCCCCCTA
1 CAGAGGGAATCGATCCCCCCTA
*
1868647 -ATGAGGGAACCGATTCCCCCC-A
1 CA-GAGGGAATCGA-TCCCCCCTA
1868669 CAG-GGGAATCGATACCCCCCT
1 CAGAGGGAATCGAT-CCCCCCT
1868690 GGGGTTCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
20 1 0.03
21 15 0.42
22 12 0.33
23 8 0.22
ACGTcount: A:0.26, C:0.37, G:0.23, T:0.14
Consensus pattern (22 bp):
CAGAGGGAATCGATCCCCCCTA
Found at i:1875406 original size:18 final size:18
Alignment explanation
Indices: 1875385--1875419 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1875375 ATCTACATAC
* *
1875385 TTATCATTACTTACTTTA
1 TTATCACTAATTACTTTA
1875403 TTATCACTAATTACTTT
1 TTATCACTAATTACTTT
1875420 TCATCATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATCACTAATTACTTTA
Found at i:1876848 original size:21 final size:21
Alignment explanation
Indices: 1876822--1876898 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
1876812 AAGTTCCCCG
1876822 GGTATCGATACCCTCCACATA
1 GGTATCGATACCCTCCACATA
*
1876843 GGTATCGATA-CCTCCTCCATA
1 GGTATCGATACCCTCC-ACATA
** * * *
1876864 TGGTATCGATACTATTCATACA
1 -GGTATCGATACCCTCCACATA
1876886 GGTATCGATACCC
1 GGTATCGATACCC
1876899 CATGCATCAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 5 0.11
21 25 0.57
22 12 0.27
23 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (21 bp):
GGTATCGATACCCTCCACATA
Found at i:1876871 original size:22 final size:22
Alignment explanation
Indices: 1876822--1876875 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
1876812 AAGTTCCCCG
1876822 GGTATCGATA-CCCTCCACATA
1 GGTATCGATACCCCTCCACATA
*
1876843 GGTATCGATACCTCCTCCATAT-
1 GGTATCGATACC-CCTCCACATA
1876865 GGTATCGATAC
1 GGTATCGATAC
1876876 TATTCATACA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.33
22 12 0.40
23 8 0.27
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (22 bp):
GGTATCGATACCCCTCCACATA
Found at i:1878280 original size:21 final size:21
Alignment explanation
Indices: 1878254--1878308 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1878244 TGATTTATTA
1878254 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
1878275 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
*
1878296 TTATGGATGTCAA
1 TTATGGATTTCAA
1878309 ATTTATTGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:1884145 original size:35 final size:34
Alignment explanation
Indices: 1884060--1884146 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1884050 ATTTGGTATT
*
1884060 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
1884094 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
1884132 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1884147 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:1884372 original size:3 final size:3
Alignment explanation
Indices: 1884364--1884410 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
1884354 CTCGCTGTCA
* * * *
1884364 TCG TCG TCG TCG TCG TCG TCA CCA TCG TCA TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
1884411 CTGAGTAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.06, C:0.36, G:0.26, T:0.32
Consensus pattern (3 bp):
TCG
Found at i:1886499 original size:111 final size:111
Alignment explanation
Indices: 1886305--1886637 Score: 630
Period size: 111 Copynumber: 3.0 Consensus size: 111
1886295 ATTACAAAAA
*
1886305 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1886370 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
1886416 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1886481 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
1886527 TTAATTCTTGATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
1886592 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
1886638 ATGATTTCCA
Statistics
Matches: 218, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 218 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:1886980 original size:50 final size:50
Alignment explanation
Indices: 1886926--1887049 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
1886916 AGATACTTAA
* * * *
1886926 GTATAGCGCGGATCAGGGGGGGCGCTATACCCACGTGGTGCCAGATCACC
1 GTATAGCGCGGATCAGGGGGCGCGATATACCCACGTGGCGCCAAATCACC
* * * * *
1886976 GTATATCACGGGTCAGGGGGCGTGATATACCCACGTGGCGCCAAATCAGC
1 GTATAGCGCGGATCAGGGGGCGCGATATACCCACGTGGCGCCAAATCACC
*
1887026 GTATAGCGC-GATTCAGGTGGCGCG
1 GTATAGCGCGGA-TCAGGGGGCGCG
1887050 CTTTACTGCT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
49 1 0.02
50 58 0.98
ACGTcount: A:0.21, C:0.26, G:0.35, T:0.18
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCGCGATATACCCACGTGGCGCCAAATCACC
Found at i:1889964 original size:21 final size:21
Alignment explanation
Indices: 1889939--1889985 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
1889929 TGAGGGTTGG
*
1889939 GTTGTGTTAAACACTGATGTT
1 GTTGTGTTAAACACTGATGCT
1889960 GTTGTGTTAAACACTGATGCT
1 GTTGTGTTAAACACTGATGCT
1889981 GTTGT
1 GTTGT
1889986 TTCACGCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.43
Consensus pattern (21 bp):
GTTGTGTTAAACACTGATGCT
Found at i:1890381 original size:9 final size:9
Alignment explanation
Indices: 1890355--1890394 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
1890345 AGCAAGAGGT
1890355 AAAAAT-GA
1 AAAAATAGA
1890363 ATAAAA-AGA
1 A-AAAATAGA
1890372 AAAAATAG-
1 AAAAATAGA
1890380 AAAAATAGA
1 AAAAATAGA
1890389 AAAAAT
1 AAAAAT
1890395 GAATGAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
8 13 0.46
9 15 0.54
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (9 bp):
AAAAATAGA
Found at i:1890403 original size:17 final size:17
Alignment explanation
Indices: 1890355--1890403 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
1890345 AGCAAGAGGT
*
1890355 AAAAATGAATAAAAAGA
1 AAAAATGAATAAATAGA
1890372 AAAAATAGAA-AAATAGA
1 AAAAAT-GAATAAATAGA
*
1890389 AAAAATGAATGAATA
1 AAAAATGAATAAATA
1890404 AAATAAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 22 0.79
18 3 0.11
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.14
Consensus pattern (17 bp):
AAAAATGAATAAATAGA
Found at i:1890967 original size:26 final size:26
Alignment explanation
Indices: 1890927--1890996 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
1890917 AGTAAGAGAC
1890927 AACATTTTTC-AAAATTCTTTTATCA
1 AACATTTTTCAAAAATTCTTTTATCA
1890952 AACATTTTTCAAAAATTC-TTTATCA
1 AACATTTTTCAAAAATTCTTTTATCA
* *
1890977 ATCATTTTTCAAAACTTCTT
1 AACATTTTTCAAAAATTCTT
1890997 AATTAATCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
25 33 0.80
26 8 0.20
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (26 bp):
AACATTTTTCAAAAATTCTTTTATCA
Found at i:1891004 original size:25 final size:24
Alignment explanation
Indices: 1890929--1891012 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
1890919 TAAGAGACAA
*
1890929 CATTTTTCAAAATTCTTTTATCAAA
1 CATTTTTCAAAATTC-TTTATCAAT
1890954 CATTTTTCAAAAATTCTTTATCAAT
1 CATTTTTC-AAAATTCTTTATCAAT
* *
1890979 CATTTTTCAAAACTTCTTAATTAAT
1 CATTTTTCAAAA-TTCTTTATCAAT
1891004 C-TTTTTCAA
1 CATTTTTCAA
1891013 CTTTTGAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
24 12 0.22
25 35 0.65
26 7 0.13
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.49
Consensus pattern (24 bp):
CATTTTTCAAAATTCTTTATCAAT
Found at i:1891729 original size:35 final size:35
Alignment explanation
Indices: 1891611--1891793 Score: 132
Period size: 38 Copynumber: 5.0 Consensus size: 35
1891601 ATCTTGCATC
* *
1891611 AAAATTTCATGTCACTTGAGATATTTTCCCTTTAA
1 AAAATTTCATCTCACTTGAGATATTTTCCCTTGAA
* * * * * * * *
1891646 AAATTTTTCGTCTCGCTCGAGACAGTTTCTCGTGAAA
1 AAA-ATTTCATCTCACTTGAGATATTTTCCCTTG-AA
* * *
1891683 CACAAAATTCATCTCCCTTGATATATTTTCCCTTGAA
1 -A-AAATTTCATCTCACTTGAGATATTTTCCCTTGAA
** * * * *
1891720 AACTTTTCATCTTACTCGAGATAGTTTCTCTTGAAACA
1 AAAATTTCATCTCACTTGAGATATTTTCCCTTG--A-A
1891758 AAAATTTCATCTCACTTGAGATATTTTCCCTTGAA
1 AAAATTTCATCTCACTTGAGATATTTTCCCTTGAA
1891793 A
1 A
1891794 TTTGTTGTCT
Statistics
Matches: 106, Mismatches: 35, Indels: 14
0.68 0.23 0.09
Matches are distributed among these distances:
35 28 0.26
36 22 0.21
37 5 0.05
38 49 0.46
39 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (35 bp):
AAAATTTCATCTCACTTGAGATATTTTCCCTTGAA
Found at i:1891755 original size:73 final size:74
Alignment explanation
Indices: 1891610--1891819 Score: 266
Period size: 73 Copynumber: 2.9 Consensus size: 74
1891600 TATCTTGCAT
* * * * *
1891610 CAAAATTTCATGTCACTTGAGATATTTTCCCTTTAAAAATTTTTCGTCTCGCTCGAGACAGTTTC
1 CAAAATTTCATCTCACTTGAGATATTTTCCC-TTGAAAACTTTTCATCTCACTCGAGACAGTTTC
1891675 TCGTGAAACA
65 TCGTGAAACA
* * * *
1891685 CAAAA-TTCATCTCCCTTGATATATTTTCCCTTGAAAACTTTTCATCTTACTCGAGATAGTTTCT
1 CAAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAACTTTTCATCTCACTCGAGACAGTTTCT
*
1891749 CTTGAAACA
66 CGTGAAACA
**
1891758 -AAAATTTCATCTCACTTGAGATATTTTCCCTTG-AAA-TTTGTTGTCTCACTCGAGACAGTTTC
1 CAAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAACTTT-TCATCTCACTCGAGACAGTTTC
1891820 ACTCGAAACA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
71 3 0.03
72 25 0.21
73 62 0.53
74 22 0.19
75 5 0.04
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (74 bp):
CAAAATTTCATCTCACTTGAGATATTTTCCCTTGAAAACTTTTCATCTCACTCGAGACAGTTTCT
CGTGAAACA
Found at i:1892058 original size:36 final size:37
Alignment explanation
Indices: 1891970--1892060 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
1891960 TTCACTTAAG
** *
1891970 ATTTTATCTTTCTTGAGATTGTTTTTCTTAAAACAAA
1 ATTTTATCTCACTTGAGATTGTTGTTCTTAAAACAAA
1892007 ATTTTATCTCACTTGAGATTGTTGTTCTTAAAAC-AA
1 ATTTTATCTCACTTGAGATTGTTGTTCTTAAAACAAA
* *
1892043 ATTTTGTCTCGCTTGAGA
1 ATTTTATCTCACTTGAGA
1892061 CAGTTTCTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 18 0.37
37 31 0.63
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.47
Consensus pattern (37 bp):
ATTTTATCTCACTTGAGATTGTTGTTCTTAAAACAAA
Found at i:1892272 original size:101 final size:100
Alignment explanation
Indices: 1891982--1892425 Score: 585
Period size: 101 Copynumber: 4.4 Consensus size: 100
1891972 TTTATCTTTC
1891982 TTGAGATTGTTTTTCTTAAAACAAAATTTTATCTCACTTGAGATTGTTGTTCTTAAAACAAATTT
1 TTGAGATTGTTTTTCTTAAAACAAAA-TTTATCTCACTTGAGATTGTTGTTCTTAAAACAAA-TT
* *
1892047 TGTCTCGCTTGAGACAGTTTCTCTTGAAACTCAAACT
64 TGTCTCGCTTGAGACAATTTCTCATGAAACTCAAACT
* * * * *
1892084 TTGAGATTGTTTTCCTT-AAA-AAAA-TTATCTCACTTGGGATTGATATTTTTAAAACAAATTGT
1 TTGAGATTGTTTTTCTTAAAACAAAATTTATCTCACTTGAGATTGTTGTTCTTAAAACAAATT-T
* * * *
1892146 GTCTCTCTTGAGATAGTTTATCATGAAACTCAAACT
65 GTCTCGCTTGAGACAATTTCTCATGAAACTCAAACT
* * *
1892182 TTGAGATTGTTTTTCTTAAAACAAAATTTATTTCACTTAAGATTGTTGTTCTTTAAACAAATTTC
1 TTGAGATTGTTTTTCTTAAAACAAAATTTATCTCACTTGAGATTGTTGTTCTTAAAACAAATTT-
*
1892247 ATCTCGCTTGAGACAATTTCTCATGAAA-TACAAACT
65 GTCTCGCTTGAGACAATTTCTCATGAAACT-CAAACT
* *
1892283 TTGAGATTGTTTTTCTTAAAACAAAATTCATCTCACTTGATATTGTTGTTCTTAAAACAAAGTTT
1 TTGAGATTGTTTTTCTTAAAACAAAATTTATCTCACTTGAGATTGTTGTTCTTAAAACAAA-TTT
* *
1892348 GTCTCGCTTGAGACAATTTCTCTTGAAACTTAAA-T
65 GTCTCGCTTGAGACAATTTCTCATGAAACTCAAACT
* *
1892383 CTTGAAATTGTTTTTCTTAAAAC-AAATTTGGTCTCACTTGAGA
1 -TTGAGATTGTTTTTCTTAAAACAAAATTT-ATCTCACTTGAGA
1892426 CAATCTTTCC
Statistics
Matches: 298, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
97 2 0.01
98 79 0.27
99 3 0.01
100 16 0.05
101 178 0.60
102 20 0.07
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (100 bp):
TTGAGATTGTTTTTCTTAAAACAAAATTTATCTCACTTGAGATTGTTGTTCTTAAAACAAATTTG
TCTCGCTTGAGACAATTTCTCATGAAACTCAAACT
Found at i:1892400 original size:65 final size:66
Alignment explanation
Indices: 1892318--1892442 Score: 184
Period size: 65 Copynumber: 1.9 Consensus size: 66
1892308 ATTCATCTCA
* *
1892318 CTTGATATTGTTGTTCTTAAAACAAAGTTT-GTCTCGCTTGAGACAA--TTTCTCTTGAAACTTA
1 CTTGAAATTGTTGTTCTTAAAACAAA-TTTGGTCTCACTTGAGACAATCTTTC-CTTGAAACTTA
1892380 AAT
64 AAT
*
1892383 CTTGAAATTGTTTTTCTTAAAACAAATTTGGTCTCACTTGAGACAATCTTTCCTTGAAAC
1 CTTGAAATTGTTGTTCTTAAAACAAATTTGGTCTCACTTGAGACAATCTTTCCTTGAAAC
1892443 ACAAAATTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
64 3 0.06
65 39 0.72
66 8 0.15
67 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (66 bp):
CTTGAAATTGTTGTTCTTAAAACAAATTTGGTCTCACTTGAGACAATCTTTCCTTGAAACTTAAA
T
Found at i:1892643 original size:3 final size:3
Alignment explanation
Indices: 1892635--1892679 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
1892625 GTTCGGGTAT
1892635 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1892680 TTTTACAGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1894761 original size:17 final size:18
Alignment explanation
Indices: 1894723--1894763 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1894713 ACACAGACCA
* *
1894723 TAAAATTATTGTTTTAAT
1 TAAAATTAATATTTTAAT
1894741 TAAAATTAATATTTT-AT
1 TAAAATTAATATTTTAAT
1894758 TAAAAT
1 TAAAAT
1894764 GAAAAATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TAAAATTAATATTTTAAT
Found at i:1895628 original size:21 final size:21
Alignment explanation
Indices: 1895604--1895646 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1895594 AAGAATAAGA
*
1895604 AGAAAAAAGAGAATGAGAATG
1 AGAAAAAAGAGAATAAGAATG
* *
1895625 AGAAGAATGAGAATAAGAATG
1 AGAAAAAAGAGAATAAGAATG
1895646 A
1 A
1895647 AGATTTAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (21 bp):
AGAAAAAAGAGAATAAGAATG
Found at i:1895631 original size:15 final size:15
Alignment explanation
Indices: 1895613--1895643 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1895603 AAGAAAAAAG
*
1895613 AGAATGAGAATGAGA
1 AGAATGAGAATAAGA
1895628 AGAATGAGAATAAGA
1 AGAATGAGAATAAGA
1895643 A
1 A
1895644 TGAAGATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (15 bp):
AGAATGAGAATAAGA
Found at i:1898828 original size:46 final size:46
Alignment explanation
Indices: 1898717--1898811 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 46
1898707 TTTCGGTGCT
** * * *
1898717 CAATCAATGCACCGCTTTAGCTACTTTTCAAAGCTCATTCATTACAT
1 CAAT-AATGCACCATTTTAGCAACTTTTCAAAGCTCATTCAATACAG
*
1898764 CAATAATGCACCATTTTAGCAACTTTTCAAAGCTCATTCAATGCAG
1 CAATAATGCACCATTTTAGCAACTTTTCAAAGCTCATTCAATACAG
1898810 CA
1 CA
1898812 TTCAAGCAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 38 0.90
47 4 0.10
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (46 bp):
CAATAATGCACCATTTTAGCAACTTTTCAAAGCTCATTCAATACAG
Found at i:1899016 original size:35 final size:35
Alignment explanation
Indices: 1898970--1899037 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
1898960 CATTTTCACT
* *
1898970 GTTTCAACTACTTTTCGGTGCTCATTCAATGCACA
1 GTTTCAACTACTTTTCAGAGCTCATTCAATGCACA
*
1899005 GTTTCAACTACTTTTCAGAGCTCATTCATTGCA
1 GTTTCAACTACTTTTCAGAGCTCATTCAATGCA
1899038 GTAATAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (35 bp):
GTTTCAACTACTTTTCAGAGCTCATTCAATGCACA
Found at i:1899047 original size:46 final size:46
Alignment explanation
Indices: 1898997--1899084 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
1898987 GTGCTCATTC
* *
1898997 AATGCAC-AGTTTCAACTACTTTTCAGAGCTCATTCATTGCAGTAAT
1 AATGCACTA-TTTCAACAACTTTTCAGAGCTCATTCAATGCAGTAAT
* *
1899043 AATGCACTATTTCAGCAACTTTTCATAGCTCATTCAATGCAG
1 AATGCACTATTTCAACAACTTTTCAGAGCTCATTCAATGCAG
1899085 CATTCAAGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 36 0.97
47 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (46 bp):
AATGCACTATTTCAACAACTTTTCAGAGCTCATTCAATGCAGTAAT
Found at i:1899188 original size:275 final size:275
Alignment explanation
Indices: 1898689--1899365 Score: 957
Period size: 275 Copynumber: 2.4 Consensus size: 275
1898679 CATCTCAGTA
*
1898689 TTCAATGA-TTCAACTATTTTTCGGTGCTCAATCAATGCACCGCTTTAGCTACTTTTCAAAGCTC
1 TTCAAT-ATTTCAACTATTTTTCGGTGCTCAATCAATGCA-CG-TTTAGCTACTTTTCAGAGCTC
* * *
1898753 ATTCATTACA-TCAATAATGCACCATTTTAGCAACTTTTCAAAGCTCATTCAATGCAGCATTCAA
63 ATTCATTGCAGT-AATAATGCACTATTTCAGCAACTTTTCAAAGCTCATTCAATGCAGCATTCAA
* **
1898817 GCAACTATTTAGAAAACGGGTGAAAATAGTGGTTTATTATCATCTTCTGCAACTTTTCAATGATA
127 GCAACTATTCAGAAAACGGGTGAAAATAGTGGTGCATTATCATCTTCTGCAACTTTTCAATGATA
* *
1898882 TATCAACTCAAATCATAAACCTTTTCAATGTTGAATTATCACTTCAAATCATT-AAAAAAA-GTA
192 TATCAACTCAAATCAGAAACCTTTTCAATGTTGAATTATAACTTCAAATCATTAAAAAAAATGTA
* *
1898945 TTTTAATAACGCCAACATT
257 TTTTAACAACGCCAAAATT
* * * * *
1898964 TTCACTGTTTCAACTACTTTTCGGTGCTCATTCAATGCACAGTTTCAACTACTTTTCAGAGCTCA
1 TTCAATATTTCAACTATTTTTCGGTGCTCAATCAATGCAC-GTTT-AGCTACTTTTCAGAGCTCA
*
1899029 TTCATTGCAGTAATAATGCACTATTTCAGCAACTTTTCATAGCTCATTCAATGCAGCATTCAAGC
64 TTCATTGCAGTAATAATGCACTATTTCAGCAACTTTTCAAAGCTCATTCAATGCAGCATTCAAGC
* * *
1899094 AACTATTCAGAAAATGGGTGAAAATAGTGGTGCATTATCATCTTCTGCGACTTTTCAGTGATATA
129 AACTATTCAGAAAACGGGTGAAAATAGTGGTGCATTATCATCTTCTGCAACTTTTCAATGATATA
1899159 TCAACTCAAATCAGAAACCTTTTCAATGTTGAATTATAACTTCAAATCATTAAAAAAAATGTGTA
194 TCAACTCAAATCAGAAACCTTTTCAATGTTGAATTATAACTTCAAATCATTAAAAAAAA--TGTA
* *
1899224 TTTTAACCAGGCCAAAATT
257 TTTTAACAACGCCAAAATT
*
1899243 TTCAATATTTTAACTATTTTTCGGTGCTCAATCAATGCATCGTTTTAGCTACTTTTCAGAGCTCA
1 TTCAATATTTCAACTATTTTTCGGTGCTCAATCAATGCA-CG-TTTAGCTACTTTTCAGAGCTCA
* * * * * * * *
1899308 ATCATTGTAGCAATAATACAATATTTCAGCAACTTTTTAGAGCTCATTCAATGTAGCA
64 TTCATTGCAGTAATAATGCACTATTTCAGCAACTTTTCAAAGCTCATTCAATGCAGCA
1899366 ATAATACACC
Statistics
Matches: 356, Mismatches: 36, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
274 4 0.01
275 219 0.62
276 8 0.02
279 121 0.34
280 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (275 bp):
TTCAATATTTCAACTATTTTTCGGTGCTCAATCAATGCACGTTTAGCTACTTTTCAGAGCTCATT
CATTGCAGTAATAATGCACTATTTCAGCAACTTTTCAAAGCTCATTCAATGCAGCATTCAAGCAA
CTATTCAGAAAACGGGTGAAAATAGTGGTGCATTATCATCTTCTGCAACTTTTCAATGATATATC
AACTCAAATCAGAAACCTTTTCAATGTTGAATTATAACTTCAAATCATTAAAAAAAATGTATTTT
AACAACGCCAAAATT
Found at i:1899592 original size:42 final size:43
Alignment explanation
Indices: 1899545--1899631 Score: 149
Period size: 42 Copynumber: 2.0 Consensus size: 43
1899535 CTTCAAAAGC
1899545 TTGAGTTTTTTTCAAACATGTCAACTGATTGTACAACTG-TTT
1 TTGAGTTTTTTTCAAACATGTCAACTGATTGTACAACTGATTT
* *
1899587 TTGAGTTTTTTTCAATCATGTCAACTGATTGTGCAACTGATTT
1 TTGAGTTTTTTTCAAACATGTCAACTGATTGTACAACTGATTT
1899630 TT
1 TT
1899632 TTGATTACAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 37 0.88
43 5 0.12
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (43 bp):
TTGAGTTTTTTTCAAACATGTCAACTGATTGTACAACTGATTT
Found at i:1900757 original size:30 final size:30
Alignment explanation
Indices: 1900723--1900781 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
1900713 ATATGAAAAA
1900723 AATAGTCTATAATGGATAATGATGTGATTT
1 AATAGTCTATAATGGATAATGATGTGATTT
1900753 AATAGTCTATAATGGATAATGATGTGATT
1 AATAGTCTATAATGGATAATGATGTGATT
1900782 GAGGATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.39
Consensus pattern (30 bp):
AATAGTCTATAATGGATAATGATGTGATTT
Found at i:1903210 original size:3 final size:3
Alignment explanation
Indices: 1903202--1903240 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
1903192 TACAAAAGTG
* *
1903202 TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAC TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1903241 ATTAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Done.