Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 54
Found at i:1883675 original size:22 final size:21
Alignment explanation
Indices: 1883627--1883678 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
1883617 GGGAGCCGTT
1883627 TGAGCCGACCGAGCCGTATGA
1 TGAGCCGACCGAGCCGTATGA
* *
1883648 TCGAGCCGACCGAGCTGTGTGA
1 T-GAGCCGACCGAGCCGTATGA
1883670 CTGAGCCGA
1 -TGAGCCGA
1883679 TTGAGTCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.21, C:0.29, G:0.35, T:0.15
Consensus pattern (21 bp):
TGAGCCGACCGAGCCGTATGA
Found at i:1885325 original size:20 final size:20
Alignment explanation
Indices: 1885284--1885331 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
1885274 CCAAAACTCA
* *
1885284 GAAGAGTCTGAATTACTCGG
1 GAAGACTCTGAATAACTCGG
1885304 GAAGACTCTGAAGTAACT-GG
1 GAAGACTCTGAA-TAACTCGG
1885324 GATAGACT
1 GA-AGACT
1885332 TGACTACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (20 bp):
GAAGACTCTGAATAACTCGG
Found at i:1887494 original size:24 final size:24
Alignment explanation
Indices: 1887467--1887539 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
1887457 GTAAACGGAG
* *
1887467 ATATCAGAAATCAAAACTGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
1887491 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTC
*
1887515 AGATCAGAAATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
1887539 A
1 A
1887540 GGTAATGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.21
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:1887540 original size:12 final size:12
Alignment explanation
Indices: 1887501--1887540 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1887491 ATATCAGATA
1887501 TCAGAACAGAAT
1 TCAGAACAGAAT
* * *
1887513 CCAGATCAGAAA
1 TCAGAACAGAAT
1887525 TCAGAACAGAAT
1 TCAGAACAGAAT
1887537 TCAG
1 TCAG
1887541 GTAATGTATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.15
Consensus pattern (12 bp):
TCAGAACAGAAT
Found at i:1887575 original size:24 final size:24
Alignment explanation
Indices: 1887470--1887577 Score: 96
Period size: 24 Copynumber: 4.5 Consensus size: 24
1887460 AACGGAGATA
* *
1887470 TCAGAAATCAAAACTGAATTCATA-
1 TCAGAAATCAGAACAGAATTCA-AG
* *
1887494 TCAGATATCAGAACAGAA-TCCAG
1 TCAGAAATCAGAACAGAATTCAAG
*
1887517 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
* * *
1887542 TAATG-TATCATAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
1887566 TCAGAAATCAGA
1 TCAGAAATCAGA
1887578 TAAAATATTT
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
22 1 0.02
23 3 0.05
24 57 0.88
25 4 0.06
ACGTcount: A:0.47, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:1890011 original size:7 final size:7
Alignment explanation
Indices: 1889999--1890041 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
1889989 GGTCAACAGT
1889999 GGTCAAC
1 GGTCAAC
1890006 GGTCAAC
1 GGTCAAC
1890013 GGGTCAAC
1 -GGTCAAC
1890021 GGTCAAC
1 GGTCAAC
1890028 GGGTC-A-
1 -GGTCAAC
1890034 GGTCAAC
1 GGTCAAC
1890041 G
1 G
1890042 AGTCGGGCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.12
6 1 0.03
7 16 0.50
8 11 0.34
ACGTcount: A:0.26, C:0.26, G:0.35, T:0.14
Consensus pattern (7 bp):
GGTCAAC
Found at i:1890019 original size:8 final size:8
Alignment explanation
Indices: 1889989--1890033 Score: 58
Period size: 7 Copynumber: 5.6 Consensus size: 8
1889979 GGTCAATAGT
1889989 GGTCAACAG
1 GGTCAAC-G
1889998 TGGTCAAC-
1 -GGTCAACG
1890006 GGTCAACG
1 GGTCAACG
1890014 GGTCAAC-
1 GGTCAACG
1890021 GGTCAACG
1 GGTCAACG
1890029 GGTCA
1 GGTCA
1890034 GGTCAACGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.42
8 12 0.36
10 7 0.21
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16
Consensus pattern (8 bp):
GGTCAACG
Found at i:1890019 original size:15 final size:15
Alignment explanation
Indices: 1889989--1890041 Score: 74
Period size: 15 Copynumber: 3.5 Consensus size: 15
1889979 GGTCAATAGT
1889989 GGTCAACAGTGGTCAAC
1 GGTCAAC-G-GGTCAAC
1890006 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
1890021 GGTCAACGGGTC-A-
1 GGTCAACGGGTCAAC
1890034 GGTCAACG
1 GGTCAACG
1890042 AGTCGGGCCG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.22
14 1 0.03
15 19 0.53
16 1 0.03
17 7 0.19
ACGTcount: A:0.26, C:0.25, G:0.34, T:0.15
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:1890078 original size:31 final size:31
Alignment explanation
Indices: 1890021--1890086 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
1890011 ACGGGTCAAC
*
1890021 GGTCAACGGGTCAGGTCAACGAGTCGGGCCG
1 GGTCAACGGGTCAGGTAAACGAGTCGGGCCG
* * *
1890052 GGTCAACTGGTC-GGATAAACGGGTCGGGTCG
1 GGTCAACGGGTCAGG-TAAACGAGTCGGGCCG
1890083 GGTC
1 GGTC
1890087 GGGTCGGACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.18, C:0.23, G:0.42, T:0.17
Consensus pattern (31 bp):
GGTCAACGGGTCAGGTAAACGAGTCGGGCCG
Found at i:1893819 original size:35 final size:36
Alignment explanation
Indices: 1893770--1893896 Score: 150
Period size: 36 Copynumber: 3.6 Consensus size: 36
1893760 GATTTAATTT
*
1893770 TGATCAAGCTGGTAATTCCTTATATAGGTTCAACAC
1 TGATCAAGCTGGTAATTCCTTATATAGGTTCAGCAC
* * **
1893806 TGATCAA-CTGGTAATTCCTTATTGTATGTTCAGTTC
1 TGATCAAGCTGGTAATTCCTTA-TATAGGTTCAGCAC
* *
1893842 TGATCAAGTTTGTAATTCCTTATATAGGTTCAGCAC
1 TGATCAAGCTGGTAATTCCTTATATAGGTTCAGCAC
**
1893878 CAATCAA-CTGGTAATTCCT
1 TGATCAAGCTGGTAATTCCT
1893897 CATGAACCTA
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
35 24 0.32
36 38 0.51
37 12 0.16
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (36 bp):
TGATCAAGCTGGTAATTCCTTATATAGGTTCAGCAC
Found at i:1911828 original size:12 final size:13
Alignment explanation
Indices: 1911811--1911848 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
1911801 TGTAATAGTT
1911811 ATAAATTCTA-AA
1 ATAAATTCTATAA
1911823 ATAAATTCTAATAA
1 ATAAATTCT-ATAA
1911837 ATAATATTCTAT
1 ATAA-ATTCTAT
1911849 CGGGAGGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 8 0.35
15 5 0.22
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAAATTCTATAA
Found at i:1915155 original size:16 final size:16
Alignment explanation
Indices: 1915134--1915171 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
1915124 GTAGTCATCG
1915134 CACCCCTCGATCGTTT
1 CACCCCTCGATCGTTT
1915150 CACCCCTCGATCGTTT
1 CACCCCTCGATCGTTT
1915166 CACCCC
1 CACCCC
1915172 GCATCGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.13, C:0.50, G:0.11, T:0.26
Consensus pattern (16 bp):
CACCCCTCGATCGTTT
Found at i:1916018 original size:17 final size:17
Alignment explanation
Indices: 1915992--1916025 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1915982 TGAAATACAT
1915992 AAAATATGACTTTTTGG
1 AAAATATGACTTTTTGG
*
1916009 AAAATTTGACTTTTTGG
1 AAAATATGACTTTTTGG
1916026 TCAAAGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (17 bp):
AAAATATGACTTTTTGG
Found at i:1916067 original size:23 final size:22
Alignment explanation
Indices: 1916025--1916067 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
1916015 TGACTTTTTG
1916025 GTCAAAGTTAAAGTCAACTCTA
1 GTCAAAGTTAAAGTCAACTCTA
1916047 GTCAAAG-TAAACGGTCAACTC
1 GTCAAAGTTAAA--GTCAACTC
1916068 AATGGTCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 7 0.37
23 8 0.42
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (22 bp):
GTCAAAGTTAAAGTCAACTCTA
Found at i:1920139 original size:27 final size:28
Alignment explanation
Indices: 1920082--1920152 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
1920072 AGGTCTTGGA
* *
1920082 GGTATTTTGGGTCATTTTACACTTTAGG
1 GGTATTTTGGGTCATTTTACACTTCAAG
*
1920110 GGTATTTT-GGTTATTTTAC-CATTCAAG
1 GGTATTTTGGGTCATTTTACAC-TTCAAG
*
1920137 GGTATTTT-AGTCATTT
1 GGTATTTTGGGTCATTT
1920153 CTTTCAGTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.03
27 28 0.76
28 8 0.22
ACGTcount: A:0.20, C:0.10, G:0.21, T:0.49
Consensus pattern (28 bp):
GGTATTTTGGGTCATTTTACACTTCAAG
Found at i:1924310 original size:21 final size:21
Alignment explanation
Indices: 1924286--1924327 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1924276 TCATGCCTTG
1924286 AATGTTTTCCATGAAGGATTT
1 AATGTTTTCCATGAAGGATTT
1924307 AATGTTTTCCATGAAGGATTT
1 AATGTTTTCCATGAAGGATTT
1924328 TAAGGGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.43
Consensus pattern (21 bp):
AATGTTTTCCATGAAGGATTT
Found at i:1924757 original size:45 final size:45
Alignment explanation
Indices: 1924685--1924819 Score: 180
Period size: 45 Copynumber: 3.0 Consensus size: 45
1924675 TTAGGGAAGT
* * *
1924685 AGTTCATTCATGTATTTTAGTTTATTTAATAAGCTACTTCATTTAG
1 AGTTCATTCATGCA-TTTAGTTCATTTAATAAACTACTTCATTTAG
* * *
1924731 AGTTCATTCATACATTTAGTTCATTTAATAAACTACTTTATTTAT
1 AGTTCATTCATGCATTTAGTTCATTTAATAAACTACTTCATTTAG
* **
1924776 AGTTCATTCATGCATTTAGCTCGCTTAATAAACTACTTCATTTA
1 AGTTCATTCATGCATTTAGTTCATTTAATAAACTACTTCATTTA
1924820 AGTCAGCAAG
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 66 0.85
46 12 0.15
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (45 bp):
AGTTCATTCATGCATTTAGTTCATTTAATAAACTACTTCATTTAG
Found at i:1924850 original size:17 final size:17
Alignment explanation
Indices: 1924828--1924871 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1924818 TAAGTCAGCA
1924828 AGTTCATTGA-TTATACT
1 AGTTCATTGATTTA-ACT
*
1924845 AGTTCATTCATTTAACT
1 AGTTCATTGATTTAACT
1924862 AGTTCATTGA
1 AGTTCATTGA
1924872 ACAAACTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (17 bp):
AGTTCATTGATTTAACT
Found at i:1925173 original size:68 final size:67
Alignment explanation
Indices: 1925061--1925189 Score: 170
Period size: 68 Copynumber: 1.9 Consensus size: 67
1925051 ATTCATGGCA
* * *
1925061 ATTCAAGGCCTTATTTATAATATTTTGAAGGATATTCATGTTCTAACAAGGATACATGCAATAAC
1 ATTCAAGGCC-TATTTATAATATTTTAAAGGATATTCACGTTCTAACAA-GACACATGCAATAAC
1925126 AAGC
64 AAGC
* * *
1925130 ATTCAAGGCC-ATGTTATCATATTTTAAAGGCTTTTCACGTTCTAACAAGACACATGCAAT
1 ATTCAAGGCCTAT-TTATAATATTTTAAAGGATATTCACGTTCTAACAAGACACATGCAAT
1925190 GAAGGCTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 13 0.25
68 30 0.57
69 10 0.19
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (67 bp):
ATTCAAGGCCTATTTATAATATTTTAAAGGATATTCACGTTCTAACAAGACACATGCAATAACAA
GC
Found at i:1928245 original size:20 final size:20
Alignment explanation
Indices: 1928212--1928267 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1928202 TCAATAGTTG
* *
1928212 AGACCGATTCGGGTTGACTC
1 AGACCGATTTGGGTTGAATC
**
1928232 AGACCTTTTTGGGTTGAATC
1 AGACCGATTTGGGTTGAATC
1928252 AGACCGATTTGGGTTG
1 AGACCGATTTGGGTTG
1928268 TATTAGTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (20 bp):
AGACCGATTTGGGTTGAATC
Found at i:1932664 original size:252 final size:256
Alignment explanation
Indices: 1932196--1932707 Score: 960
Period size: 252 Copynumber: 2.0 Consensus size: 256
1932186 TTTTTTCATC
*
1932196 ATAAGGATATTTTCGTAATTTTCTATTCCAAACAATCCTGAAATTAGAACTTTAGTGAGATTATT
1 ATAAGGATATTTTCGTAATTTTCTATTCCAAACAATCCTGAAATTAGAACTGTAGTGAGATTATT
1932261 AAGCATGTAAAGATCATGGGGTTAATTCTTGTATTAATTAATAACTAACATTGATTTTATTTCTT
66 AAGCATGTAAAGATCATGGGGTTAA-T-TTGTATTAATTAATAACTAACATTGATTTTATTTCTT
1932326 TTCGGCCTTCTAGTTCTTTAAACAAGTCATCTAGCTTTTTATTCGAGTCATTTAAGTAATATCTA
129 TTCGGCCTTCTAGTTCTTTAAACAAGTCATCTAGCTTTTTATTCGAGTCATTTAAGTAATATCTA
1932391 ATACAATATCATTATTTCATATTTAGTACTAGGTTTATAGTAATCAATCATGAG-CATGAGTA
194 ATACAATATCATTATTTCATATTTAGTACTAGGTTTATAGTAATCAATCATGAGACATGAGTA
1932453 ATAAGGATATTTTCGTAA-TTTCTATTCCAAACAATCCTGAAATTAGAACTGTAGTGAGATTATT
1 ATAAGGATATTTTCGTAATTTTCTATTCCAAACAATCCTGAAATTAGAACTGTAGTGAGATTATT
1932517 AAGCATGTAAAGATCATGGGGTTAA-TTGTATT-ATTAATAACTAACATTGATTTTATTTCTTTT
66 AAGCATGTAAAGATCATGGGGTTAATTTGTATTAATTAATAACTAACATTGATTTTATTTCTTTT
1932580 CGGCCTTCTAGTTCTTTAAACAAGTCATCTAGCTTTTTATTCGAGTCATTTAAGTAATATCTAAT
131 CGGCCTTCTAGTTCTTTAAACAAGTCATCTAGCTTTTTATTCGAGTCATTTAAGTAATATCTAAT
1932645 ACAATATCATTATTTCATATTTAGTACTAGGTTTATAGTAATCAATCATGAGCACATGAGTA
196 ACAATATCATTATTTCATATTTAGTACTAGGTTTATAGTAATCAATCATGAG-ACATGAGTA
1932707 A
1 A
1932708 AGTTATAAAA
Statistics
Matches: 252, Mismatches: 1, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
252 148 0.59
253 7 0.03
254 9 0.04
256 70 0.28
257 18 0.07
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (256 bp):
ATAAGGATATTTTCGTAATTTTCTATTCCAAACAATCCTGAAATTAGAACTGTAGTGAGATTATT
AAGCATGTAAAGATCATGGGGTTAATTTGTATTAATTAATAACTAACATTGATTTTATTTCTTTT
CGGCCTTCTAGTTCTTTAAACAAGTCATCTAGCTTTTTATTCGAGTCATTTAAGTAATATCTAAT
ACAATATCATTATTTCATATTTAGTACTAGGTTTATAGTAATCAATCATGAGACATGAGTA
Found at i:1935171 original size:39 final size:39
Alignment explanation
Indices: 1935112--1935200 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
1935102 ACATATAGCA
* *
1935112 TAAGGACTTACCCTGTGCACAAAGTAAAGGAGCCTGGGG
1 TAAGGACTTACCCTGAGCACAAAGTAAAGGAGCCTGCGG
* * **
1935151 TAAGGACTTACCTTGAGCACAGAGTCGAGGAGCCTGCGG
1 TAAGGACTTACCCTGAGCACAAAGTAAAGGAGCCTGCGG
1935190 TAAGGACTTAC
1 TAAGGACTTAC
1935201 AAATCATAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.19
Consensus pattern (39 bp):
TAAGGACTTACCCTGAGCACAAAGTAAAGGAGCCTGCGG
Found at i:1935865 original size:18 final size:18
Alignment explanation
Indices: 1935842--1935887 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1935832 TTGTCGAAGC
*
1935842 CAACGGTCAACGGTCGAT
1 CAACGGTCAACGATCGAT
*
1935860 CAACGGTCAACGATCGGT
1 CAACGGTCAACGATCGAT
*
1935878 CAATGGTCAA
1 CAACGGTCAA
1935888 TAATCGGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (18 bp):
CAACGGTCAACGATCGAT
Found at i:1940143 original size:39 final size:38
Alignment explanation
Indices: 1940067--1940143 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
1940057 AGTGTAATAC
* * **
1940067 GGTGGGAATGACCTTATGTGTAGCACTTTGGTACATAT
1 GGTGGGAACGACCTTATGTATAGCACTACGGTACATAT
* *
1940105 GGTGGGCACGACCTTATGTATAAGCACTACGGTGCATAT
1 GGTGGGAACGACCTTATGTAT-AGCACTACGGTACATAT
1940144 ATTACTCGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
38 18 0.56
39 14 0.44
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (38 bp):
GGTGGGAACGACCTTATGTATAGCACTACGGTACATAT
Found at i:1944212 original size:64 final size:64
Alignment explanation
Indices: 1944159--1944321 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
1944149 CGGTGCACCA
*
1944159 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
1944223 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
1944288 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
1944322 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:1944293 original size:19 final size:19
Alignment explanation
Indices: 1944269--1944319 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1944259 GAAAATATTC
1944269 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
1944288 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
1944307 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
1944320 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:1944361 original size:65 final size:65
Alignment explanation
Indices: 1944163--1944370 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
1944153 GCACCAAGTG
* * ** *
1944163 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
1944226 G-
64 GA
* * *
1944227 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
1944290 A
65 A
* *
1944291 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATTGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
1944353 CTGA
62 CTGA
1944357 TGCATCGGTGCATG
1 TGCATCGGTGCATG
1944371 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 51 0.41
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:1948200 original size:38 final size:39
Alignment explanation
Indices: 1948158--1948238 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 39
1948148 ACTAAGAGTA
* * *
1948158 ATATGGTGGGAACAACCTTATGTGT-AGCACTTCGGTGC
1 ATATGGTGGGAACAACCTTATGTATAAGCACTACAGTGC
* *
1948196 ATATGGTGGGCACGACCTTATGTATAAGCACTACAGTGC
1 ATATGGTGGGAACAACCTTATGTATAAGCACTACAGTGC
1948235 ATAT
1 ATAT
1948239 ATTACTCGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 22 0.59
39 15 0.41
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (39 bp):
ATATGGTGGGAACAACCTTATGTATAAGCACTACAGTGC
Found at i:1948595 original size:2 final size:2
Alignment explanation
Indices: 1948588--1948618 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1948578 TAGTGGCATG
1948588 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 T
1948619 GTCCTAGTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1952619 original size:30 final size:30
Alignment explanation
Indices: 1952583--1952649 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
1952573 AACCGCTATA
* * *
1952583 GAACCGGTTGGGAACCGACAAAACCTGTGT
1 GAACCGGTTGGGAAACGACAAAACCGGTGG
* *
1952613 GAACCGGTTGGGAAACGGCAAACCCGGTGG
1 GAACCGGTTGGGAAACGACAAAACCGGTGG
1952643 GAACCGG
1 GAACCGG
1952650 CGATTCTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.24, G:0.36, T:0.12
Consensus pattern (30 bp):
GAACCGGTTGGGAAACGACAAAACCGGTGG
Found at i:1954225 original size:43 final size:43
Alignment explanation
Indices: 1954177--1954258 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
1954167 AAACGTTACT
* *
1954177 GGTACAACATATCATGATAATAATTCAAAATTCACCACATATG
1 GGTACAACACATCACGATAATAATTCAAAATTCACCACATATG
1954220 GGTACAACACATCACGATAATAATTCAAAATTCACCACA
1 GGTACAACACATCACGATAATAATTCAAAATTCACCACA
1954259 AATATTTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24
Consensus pattern (43 bp):
GGTACAACACATCACGATAATAATTCAAAATTCACCACATATG
Found at i:1962240 original size:32 final size:32
Alignment explanation
Indices: 1962158--1962230 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
1962148 TATATATATA
1962158 TCGGATCGATTCAAGTGGAGGAAATATTCTTT
1 TCGGATCGATTCAAGTGGAGGAAATATTCTTT
* *
1962190 TTGGATTGATTCAAGTGGAGGAAATATGT-TTT
1 TCGGATCGATTCAAGTGGAGGAAATAT-TCTTT
1962222 TCGGATCGA
1 TCGGATCGA
1962231 GTCGGGTGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (32 bp):
TCGGATCGATTCAAGTGGAGGAAATATTCTTT
Found at i:1963649 original size:27 final size:26
Alignment explanation
Indices: 1963619--1963677 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
1963609 AATAACTGAA
1963619 ATACCCTTGAACCGTAAAATGACCAAC
1 ATACCCTT-AACCGTAAAATGACCAAC
*** *
1963646 ATACTCCTTAAGTTTAAAATGACCCAC
1 ATAC-CCTTAACCGTAAAATGACCAAC
1963673 ATACC
1 ATACC
1963678 TCCAAGCCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 22 0.81
28 4 0.15
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (26 bp):
ATACCCTTAACCGTAAAATGACCAAC
Found at i:1966237 original size:19 final size:19
Alignment explanation
Indices: 1966173--1966230 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
1966163 TTTTAGGAGC
1966173 TAAAAAAATCGAAAAACGT
1 TAAAAAAATCGAAAAACGT
*
1966192 TAAAAAAATTGAAAAACGT
1 TAAAAAAATCGAAAAACGT
1966211 TAAAAAAATCGAAAAACGT
1 TAAAAAAATCGAAAAACGT
1966230 T
1 T
1966231 GTAAAAACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.62, C:0.09, G:0.10, T:0.19
Consensus pattern (19 bp):
TAAAAAAATCGAAAAACGT
Found at i:1967270 original size:59 final size:59
Alignment explanation
Indices: 1967199--1967403 Score: 266
Period size: 59 Copynumber: 3.5 Consensus size: 59
1967189 ATATTGGTCT
* * * * * *
1967199 CTCGAGTGAGGCGTCGTTGATTCGAAATGCAATAAATAGAGAAAAGGTAATGTTAATCC
1 CTCGAGTGAGGCGTCGCTGATTCGAAATGCCATGAATCGAGCAAAGGAAATGTTAATCC
* *
1967258 CTCGAGTGAGGCGTTGCTGATTCGAAATGCCGTGAATCGAGCAAAGGAAATGTTAATCC
1 CTCGAGTGAGGCGTCGCTGATTCGAAATGCCATGAATCGAGCAAAGGAAATGTTAATCC
* * * * *
1967317 CTTGAGTGAGGTGTCACTGATTCAAAATTCCATGAATCGAGCAAAGGAAATGTTAATCC
1 CTCGAGTGAGGCGTCGCTGATTCGAAATGCCATGAATCGAGCAAAGGAAATGTTAATCC
** *
1967376 CTTAAGTGAGGTGTCGCTGATTCGAAAT
1 CTCGAGTGAGGCGTCGCTGATTCGAAAT
1967404 ATCGTGAATT
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 128 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (59 bp):
CTCGAGTGAGGCGTCGCTGATTCGAAATGCCATGAATCGAGCAAAGGAAATGTTAATCC
Found at i:1967993 original size:40 final size:36
Alignment explanation
Indices: 1967913--1968267 Score: 145
Period size: 36 Copynumber: 9.5 Consensus size: 36
1967903 AGGGAAAATT
** * *
1967913 TCTCAAGCAAGATGAAATTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAAATTTCTTTTAAGAAAAACAA
* * **
1967949 TCTCAAGTGAAATAAAATTTCTTGTTCCGAGTAAAAACTG
1 TCTCAAGTGAGATAAAATTTCTT-TT--AAG-AAAAACAA
* * *
1967989 TCTCAAGCGAGATAAAGTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAAATTTCTTTTAAGAAAAACAA
* ***
1968025 TCTCAAGTGAGATAAAATTTCTGTTTTAAGTGAAAATTG
1 TCTCAAGTGAGATAAAATTTC--TTTTAAG-AAAAACAA
** ** * *
1968064 TCTCAAGCAAGACGAAGTTT-TTTTAAGAAAAATAA
1 TCTCAAGTGAGATAAAATTTCTTTTAAGAAAAACAA
* * * * * **
1968099 TCTCAAGTGACATAAAATTTATGTTTCGAGTGAAAGCTG
1 TCTCAAGTGAGATAAAATTTCT-TTT-AAG-AAAAACAA
* ** * * *
1968138 TCTCAAGCGAGACGAAGTTTATTTTAAGAAGAAAAAA
1 TCTCAAGTGAGATAAAATTTCTTTTAAGAA-AAACAA
* * ** * * **
1968175 TCTTAAATGAGACCAAATTTCTGTTTCGAGTGAAAACTG
1 TCTCAAGTGAGATAAAATTTCT-TTT-AAG-AAAAACAA
* * * * *
1968214 TCTCAAGCGAGATGAAGTTTTTTTTAAGAAAAACTA
1 TCTCAAGTGAGATAAAATTTCTTTTAAGAAAAACAA
*
1968250 TCTTAAGTGAGATAAAAT
1 TCTCAAGTGAGATAAAAT
1968268 ATTTGATCTT
Statistics
Matches: 226, Mismatches: 78, Indels: 30
0.68 0.23 0.09
Matches are distributed among these distances:
35 19 0.08
36 71 0.31
37 29 0.13
38 18 0.08
39 63 0.28
40 26 0.12
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (36 bp):
TCTCAAGTGAGATAAAATTTCTTTTAAGAAAAACAA
Found at i:1968010 original size:76 final size:75
Alignment explanation
Indices: 1967913--1968267 Score: 460
Period size: 76 Copynumber: 4.7 Consensus size: 75
1967903 AGGGAAAATT
* * * *
1967913 TCTCAAGCAAGATGAAATTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAAATTTCTTGTTCCG
1 TCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC-TGTTTCG
*
1967978 AGTAAAAACTG
65 AGTGAAAACTG
* **
1967989 TCTCAAGCGAGATAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTTAA
1 TCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCGA
*
1968054 GTGAAAATTG
66 GTGAAAACTG
* * * * *
1968064 TCTCAAGCAAGACGAAGTTT-TTTTAAGAAAAATAATCTCAAGTGACATAAAATTTATGTTTCGA
1 TCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCGA
*
1968128 GTGAAAGCTG
66 GTGAAAACTG
* * * * * **
1968138 TCTCAAGCGAGACGAAGTTTATTTTAAGAAGAAAAAATCTTAAATGAGACCAAATTTCTGTTTCG
1 TCTCAAGCGAGATGAAGTTTGTTTTAAGAA-AAACAATCTCAAGTGAGATAAAATTTCTGTTTCG
1968203 AGTGAAAACTG
65 AGTGAAAACTG
* * *
1968214 TCTCAAGCGAGATGAAGTTTTTTTTAAGAAAAACTATCTTAAGTGAGATAAAAT
1 TCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAAT
1968268 ATTTGATCTT
Statistics
Matches: 242, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
74 66 0.27
75 58 0.24
76 118 0.49
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (75 bp):
TCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCGA
GTGAAAACTG
Found at i:1968104 original size:150 final size:150
Alignment explanation
Indices: 1967889--1968267 Score: 476
Period size: 150 Copynumber: 2.5 Consensus size: 150
1967879 AAACAATTTC
* * * * *
1967889 AAATTTATATTTCAAGGGAAAATT-TCTCAAGCAAGATGAAATTTGTTTTAAGAAAAACAATCTC
1 AAATTTCTGTTTCAAGTGAAAATTGTCTCAAGCAAGATGAAGTTT-TTTTAAGAAAAATAATCTC
* * *
1967953 AAGTGAAATAAAATTTCTTGTTCCGAGTAAAAACTGTCTCAAGCGAGATAAAGTTTGTTTTAAGA
65 AAGTGAAATAAAATTT-ATGTTCCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGA
* * *
1968018 A-AAACAATCTCAAGTGAGATA
129 AGAAAAAATCTCAAATGAGACA
* *
1968039 AAATTTCTGTTTTAAGTGAAAATTGTCTCAAGCAAGACGAAGTTTTTTTAAGAAAAATAATCTCA
1 AAATTTCTGTTTCAAGTGAAAATTGTCTCAAGCAAGATGAAGTTTTTTTAAGAAAAATAATCTCA
* * * * *
1968104 AGTGACATAAAATTTATGTTTCGAGTGAAAGCTGTCTCAAGCGAGACGAAGTTTATTTTAAGAAG
66 AGTGAAATAAAATTTATGTTCCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAG
* *
1968169 AAAAAATCTTAAATGAGACC
131 AAAAAATCTCAAATGAGACA
* * *
1968189 AAATTTCTGTTTCGAGTGAAAACTGTCTCAAGCGAGATGAAGTTTTTTTTAAGAAAAACT-ATCT
1 AAATTTCTGTTTCAAGTGAAAATTGTCTCAAGCAAGATGAAG-TTTTTTTAAGAAAAA-TAATCT
* *
1968253 TAAGTGAGATAAAAT
64 CAAGTGAAATAAAAT
1968268 ATTTGATCTT
Statistics
Matches: 198, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
149 42 0.21
150 105 0.53
151 50 0.25
152 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.32
Consensus pattern (150 bp):
AAATTTCTGTTTCAAGTGAAAATTGTCTCAAGCAAGATGAAGTTTTTTTAAGAAAAATAATCTCA
AGTGAAATAAAATTTATGTTCCGAGTAAAAACTGTCTCAAGCGAGACAAAGTTTATTTTAAGAAG
AAAAAATCTCAAATGAGACA
Found at i:1968159 original size:39 final size:38
Alignment explanation
Indices: 1968116--1968233 Score: 87
Period size: 39 Copynumber: 3.1 Consensus size: 38
1968106 TGACATAAAA
1968116 TTTATGTTTCGAGTGAAAGCTGTCTCAAGCGAGACGAAG
1 TTTATGTTTCGAGTGAAA-CTGTCTCAAGCGAGACGAAG
* * *** * ** * *
1968155 TTTAT-TTT-AAGAAGAAAAAATCTTAAATGAGACCAAA
1 TTTATGTTTCGAG-TGAAACTGTCTCAAGCGAGACGAAG
* *
1968192 TTTCTGTTTCGAGTGAAAACTGTCTCAAGCGAGATGAAG
1 TTTATGTTTCGAGTG-AAACTGTCTCAAGCGAGACGAAG
1968231 TTT
1 TTT
1968234 TTTTTAAGAA
Statistics
Matches: 53, Mismatches: 22, Indels: 8
0.64 0.27 0.10
Matches are distributed among these distances:
37 18 0.34
38 11 0.21
39 24 0.45
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (38 bp):
TTTATGTTTCGAGTGAAACTGTCTCAAGCGAGACGAAG
Found at i:1974363 original size:24 final size:24
Alignment explanation
Indices: 1974336--1974382 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1974326 TGGGCTTGGT
1974336 TTGGGCCCCGGGTCAGGTCCTGGC
1 TTGGGCCCCGGGTCAGGTCCTGGC
*
1974360 TTGGGCCCCGGGTCGGGTCCTGG
1 TTGGGCCCCGGGTCAGGTCCTGG
1974383 TTTAGGTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.32, G:0.45, T:0.21
Consensus pattern (24 bp):
TTGGGCCCCGGGTCAGGTCCTGGC
Found at i:1974394 original size:24 final size:24
Alignment explanation
Indices: 1974339--1974400 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
1974329 GCTTGGTTTG
* *
1974339 GGCCCCGGGTCAGGTCCTGGCTTG
1 GGCCCCGGGTCGGGTCCTGGCTTA
*
1974363 GGCCCCGGGTCGGGTCCTGGTTTA
1 GGCCCCGGGTCGGGTCCTGGCTTA
**
1974387 GGTTCCGGGTCGGG
1 GGCCCCGGGTCGGG
1974401 CTCGATATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.03, C:0.29, G:0.45, T:0.23
Consensus pattern (24 bp):
GGCCCCGGGTCGGGTCCTGGCTTA
Found at i:1982702 original size:11 final size:11
Alignment explanation
Indices: 1982674--1982711 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
1982664 TCTATTTTTT
1982674 AAAAGAAAAGAG
1 AAAAGAAAA-AG
*
1982686 AAAAGAAAAAC
1 AAAAGAAAAAG
1982697 AAAAGAAAAAG
1 AAAAGAAAAAG
1982708 AAAA
1 AAAA
1982712 AGGGAGGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:1984346 original size:57 final size:58
Alignment explanation
Indices: 1984200--1984351 Score: 254
Period size: 58 Copynumber: 2.7 Consensus size: 58
1984190 ATGACGATTA
* *
1984200 CCCA-ATGGACACTTTGTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTT
1 CCCATATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAAATT
* *
1984257 CCCATATGGGCACTTTGTGTACAAAAAGTTAAGAAATTCATGATTAGTTTATGAAATT
1 CCCATATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAAATT
1984315 -CCATATGGGCACTTTGTGTGCAAAAAGTTAAGAAATT
1 CCCATATGGGCACTTTGTGTGCAAAAAGTTAAGAAATT
1984352 ATATGAATTT
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
57 40 0.45
58 49 0.55
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (58 bp):
CCCATATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAAATT
Found at i:1984614 original size:81 final size:81
Alignment explanation
Indices: 1984512--1984896 Score: 521
Period size: 81 Copynumber: 4.8 Consensus size: 81
1984502 ATAGTCCTAA
* *
1984512 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGGAAAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
1984577 -GGATTAAATAACATTG
66 CAG-TTAAATACCATTG
* * * *
1984593 AGAAAAAGATTAATGACCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATTAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1984658 CAGTTAAATACCATTG
66 CAGTTAAATACCATTG
* * * * *
1984674 GGTAAAAGTTTAATGGCCTAGCTGTGCATTTGGCATAAATGTGTCAA-T-T---AGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
** *
1984734 TGGTTAAATACCGTTG
66 CAGTTAAATACCATTG
*
1984750 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1984815 CAGTTAAATACCGTTG
66 CAGTTAAATACCATTG
* * * *
1984831 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATTCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1984896 C
66 C
1984897 GGTTGGCCTA
Statistics
Matches: 268, Mismatches: 30, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
76 65 0.24
77 1 0.00
78 1 0.00
79 1 0.00
80 1 0.00
81 198 0.74
82 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
CAGTTAAATACCATTG
Found at i:1984806 original size:157 final size:157
Alignment explanation
Indices: 1984512--1984880 Score: 533
Period size: 157 Copynumber: 2.3 Consensus size: 157
1984502 ATAGTCCTAA
* *
1984512 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGGAAAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAA-T-T---AGTTAGATGAA
*
1984577 GGATTAAATAACATTGAGAAAAAGATTAATGACCTAGTTGTGCATTTGGTAGAAAGGTGTCAATT
61 GGATTAAATAACATTGAGAAAAAGATTAATGACCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
* *
1984642 ATGCCAGTTAGATTAACAGTTAAATACCATTG
126 ATACCAGTTAGATGAACAGTTAAATACCATTG
* * * *
1984674 GGTAAAAGTTTAATGGCCTAGCTGTGCATTTGGCATAAATGTGTCAATTAGTTAGATGAATGG-T
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTAGTTAGATGAA-GGAT
* * * *
1984738 TAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATAC
65 TAAATAACATTGAGAAAAAGATTAATGACCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATAC
*
1984803 CAGTTAGATGAACAGTTAAATACCGTTG
130 CAGTTAGATGAACAGTTAAATACCATTG
* *
1984831 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTA
1984881 TTCTAGTTAG
Statistics
Matches: 187, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
157 142 0.76
158 2 0.01
160 1 0.01
161 1 0.01
162 41 0.22
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (157 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTAGTTAGATGAAGGATT
AAATAACATTGAGAAAAAGATTAATGACCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATACC
AGTTAGATGAACAGTTAAATACCATTG
Found at i:1984930 original size:56 final size:56
Alignment explanation
Indices: 1984844--1984956 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
1984834 AAAAGATTAA
* *
1984844 TGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATTCTAGTTAGATGAACGGT
1 TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGT
1984900 TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGT
1 TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGT
1984956 T
1 T
1984957 AAATACCGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (56 bp):
TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGT
Found at i:1985068 original size:217 final size:213
Alignment explanation
Indices: 1984687--1985114 Score: 662
Period size: 217 Copynumber: 2.0 Consensus size: 213
1984677 AAAAGTTTAA
* * *
1984687 TGGCCTAGCTGTGCATTTGGCATAAATGTGTCAATTAGTTAGATGAATGGTTAAATACCGTTGAG
1 TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAGTTAGATGAACGGTTAAATACCGTTGAG
* *
1984752 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAACA
66 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTATCAATTATACCAGTTAGATGAACA
** * ** *
1984817 GTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTAT
131 GTTAAATACAATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTCGACAGAAAGATGTCAATTAT
1984882 -TCTAGTTAGATGAACGGT
196 GTC-AGTTAGATGAACGGT
1984900 TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCG
1 TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTC-A--AT--TAGTTAGATGAACGGTTAAATACCG
*
1984965 TTGAGTAAAAGATTAATGGCCTAGCTGTGCA-TTGGCATAAAGGTATCAATTATACCAGTTAGAT
61 TTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTATCAATTATACCAGTTAGAT
* *
1985029 GAACGGTTAAATACAATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTCGACAGAAAGATGTCA
126 GAACAGTTAAATACAATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTCGACAGAAAGATGTCA
1985094 ATTATGTCAGTTAGATGAACG
191 ATTATGTCAGTTAGATGAACG
1985115 ATTAAATACT
Statistics
Matches: 195, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
213 30 0.15
214 1 0.01
216 2 0.01
217 106 0.54
218 56 0.29
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (213 bp):
TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAGTTAGATGAACGGTTAAATACCGTTGAG
TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTATCAATTATACCAGTTAGATGAACA
GTTAAATACAATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTCGACAGAAAGATGTCAATTAT
GTCAGTTAGATGAACGGT
Found at i:1985147 original size:298 final size:294
Alignment explanation
Indices: 1984609--1985194 Score: 890
Period size: 298 Copynumber: 2.0 Consensus size: 294
1984599 AGATTAATGA
* * *
1984609 CCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATTAACAGTTAAATACCATTG
1 CCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATTG
* * * * *
1984674 GGTAAAAGTTTAATGGCCTAGCTGTGCATTTGGCATAAATGTGTCAATTAGTTAGATGAATGGTT
66 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCATAAAGGTATCAATTAGTTAGATGAACGGTT
** * * *
1984739 AAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATACC
131 AAATACAATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTCGACAGAAAGATGTCAATTATACC
*
1984804 AGTTAGATGAACAGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAA
196 AGTTAGATGAACAGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAA
1984869 AGGTGTCAATTAT-TCTAGTTAGATGAACGGTTGG
261 AGGTGTCAATTATGTC-AGTTAGATGAACGGTTGG
* * *
1984903 CCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCGTTG
1 CCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATTG
1984968 AGTAAAAGATTAATGGCCTAGCTGTGCA-TTGGCATAAAGGTATCAATTATACCAGTTAGATGAA
66 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCATAAAGGTATCAA-T-T---AGTTAGATGAA
1985032 CGGTTAAATACAATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTCGACAGAAAGATGTCAATT
126 CGGTTAAATACAATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTCGACAGAAAGATGTCAATT
** * *
1985097 ATGTCAGTTAGATGAAC-GATTAAATACTGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTG
191 ATACCAGTTAGATGAACAG-TTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTG
*
1985161 GCAGAAAGGTGTCAGTTATGTCAGTTAGATGAAC
255 GCAGAAAGGTGTCAATTATGTCAGTTAGATGAAC
1985195 AGTTAAATAC
Statistics
Matches: 263, Mismatches: 22, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
293 16 0.06
294 86 0.33
295 1 0.00
297 1 0.00
298 157 0.60
299 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (294 bp):
CCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATTG
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCATAAAGGTATCAATTAGTTAGATGAACGGTT
AAATACAATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTCGACAGAAAGATGTCAATTATACC
AGTTAGATGAACAGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAA
AGGTGTCAATTATGTCAGTTAGATGAACGGTTGG
Found at i:1985224 original size:379 final size:375
Alignment explanation
Indices: 1984525--1985279 Score: 1120
Period size: 379 Copynumber: 2.0 Consensus size: 375
1984515 AAAAGATTAA
* *
1984525 TGGCCTAGTTGTGCATTTGGGAAAAAGGTGTCAATTATGCCAGTTAGATGAAGGATTAAATAACA
1 TGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAAGGATTAAATAACA
* * * *
1984590 TTGAGAAAAAGATTAATGACCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGAT
66 TTGAGAAAAAGATTAATGACCTAGCTGTGCATTTGGCAGAAAGGTATCAATTATACCAGTTAGAT
* * * * * * *
1984655 TAACAGTTAAATACCATTGGGTAAAAGTTTAATGGCCTAGCTGTGCATTTGGCATAAATGTGTCA
131 GAACAGTTAAATACAATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTCGACAGAAATGTGTCA
* *
1984720 ATTAGTTAGATGAATGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCA
196 ATTAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCA
*
1984785 GAAAGGTGTCAATTATACCAGTTAGATGAACAGTTAAATACCGTTGAGTAAAAGATTAATGGCCT
261 GAAAGGTGTCAATTATACCAGTTAGATGAACAGTTAAATACCATTGAGTAAAAGATTAATGGCCT
* * *
1984850 AGCTGTGCATTTGGTAGAAAGGTGTCAATTATTCTAGTTAGATGAACGGT
326 AGCTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAACGGT
* * *
1984900 TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGG-TTAAATACC
1 TGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAA-GGATTAAATAAC
* * * *
1984964 GTTGAGTAAAAGATTAATGGCCTAGCTGTGCA-TTGGCATAAAGGTATCAATTATACCAGTTAGA
65 ATTGAGAAAAAGATTAATGACCTAGCTGTGCATTTGGCAGAAAGGTATCAATTATACCAGTTAGA
* *
1985028 TGAACGGTTAAATACAATTGAGTAAAAGATTAATGGCCTAGTTGTGCATTCGACAGAAA-GATGT
130 TGAACAGTTAAATACAATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTCGACAGAAATG-TGT
*
1985092 CAATTATGTCAGTTAGATGAACGATTAAATACTGTTGAGTAAAAGATTAATGGCCTAGTTGTGCA
194 C-A--AT-T-AGTTAGATGAACGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCA
* ** *
1985157 TTTGGCAGAAAGGTGTCAGTTATGTCAGTTAGATGAACAGTTAAATACCATTGAGTAAAATATTA
254 TTTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAACAGTTAAATACCATTGAGTAAAAGATTA
*
1985222 ATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAACGGT
319 ATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAACGGT
1985279 T
1 T
1985280 AAATACCTTT
Statistics
Matches: 339, Mismatches: 34, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
373 1 0.00
374 82 0.24
375 85 0.25
376 2 0.01
377 2 0.01
378 1 0.00
379 166 0.49
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (375 bp):
TGGCCTAGCTGTGCATTTGGCAAAAAGGTGTCAATTATGCCAGTTAGATGAAGGATTAAATAACA
TTGAGAAAAAGATTAATGACCTAGCTGTGCATTTGGCAGAAAGGTATCAATTATACCAGTTAGAT
GAACAGTTAAATACAATTGAGTAAAAGATTAATGGCCTAGCTGTGCATTCGACAGAAATGTGTCA
ATTAGTTAGATGAACGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCA
GAAAGGTGTCAATTATACCAGTTAGATGAACAGTTAAATACCATTGAGTAAAAGATTAATGGCCT
AGCTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAACGGT
Found at i:1985445 original size:81 final size:80
Alignment explanation
Indices: 1984900--1985445 Score: 734
Period size: 81 Copynumber: 6.8 Consensus size: 80
1984890 GATGAACGGT
* *
1984900 TGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAACGGTTAAATACCG
1 TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGC-AGTTAGATGAACGGTTAAATACCA
1984965 TTGAGTAAAAGATTAA
65 TTGAGTAAAAGATTAA
* * * * *
1984981 TGGCCTAGCTGTGCA-TTGGCATAAAGGTATCAATTATACCAGTTAGATGAACGGTTAAATACAA
1 TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTAT-GCAGTTAGATGAACGGTTAAATACCA
1985045 TTGAGTAAAAGATTAA
65 TTGAGTAAAAGATTAA
* * * * **
1985061 TGGCCTAGTTGTGCATTCGACAGAAAGATGTCAATTATGTCAGTTAGATGAACGATTAAATACTG
1 TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAACGGTTAAATACCA
1985126 TTGAGTAAAAGATTAA
65 TTGAGTAAAAGATTAA
* *
1985142 TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAGTTATGTCAGTTAGATGAACAGTTAAATACCA
1 TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAACGGTTAAATACCA
*
1985207 TTGAGTAAAATATTAA
65 TTGAGTAAAAGATTAA
* *
1985223 TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAACGGTTAAATACCT
1 TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTAT-GCAGTTAGATGAACGGTTAAATACCA
*
1985288 TTGGGTAAAAGATTAA
65 TTGAGTAAAAGATTAA
* * * **
1985304 TGACTTAGTTGTGCATTTGGCTGAAAGGTGTCAATTATGCCAGTTAGATGAATAGTTAAATACCA
1 TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAACGGTTAAATACCA
*
1985369 TTGAGTAAACGATTAA
65 TTGAGTAAAAGATTAA
* * * * * * *
1985385 TGGCCTAGCTATGCATTTGGAAGAAATGTGTCAGTTATGCATGTTAGATGAAAGGCTAAAT
1 TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCA-GTTAGATGAACGGTTAAAT
1985446 GCATTTTGGT
Statistics
Matches: 409, Mismatches: 50, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
80 74 0.18
81 335 0.82
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (80 bp):
TGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCAGTTAGATGAACGGTTAAATACCAT
TGAGTAAAAGATTAA
Found at i:1985546 original size:47 final size:51
Alignment explanation
Indices: 1985495--1985615 Score: 187
Period size: 51 Copynumber: 2.5 Consensus size: 51
1985485 GATATAAACT
*
1985495 ATGCATAAGTGTTATGAAAGGATG-C-TATATATATATA-A-TGTACAACA
1 ATGCATAAGTGGTATGAAAGGATGCCATATATATATATATAGTGTACAACA
1985542 ATGCATAAGTGGTATGAAAGGATGCCATATATATATATATAGTGTACAACA
1 ATGCATAAGTGGTATGAAAGGATGCCATATATATATATATAGTGTACAACA
* *
1985593 ATGCATAATTGGTATGAATGGAT
1 ATGCATAAGTGGTATGAAAGGAT
1985616 ATAATAAGGC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
47 23 0.34
48 1 0.01
49 12 0.18
50 1 0.01
51 30 0.45
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (51 bp):
ATGCATAAGTGGTATGAAAGGATGCCATATATATATATATAGTGTACAACA
Found at i:1988061 original size:2 final size:2
Alignment explanation
Indices: 1988054--1988091 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1988044 TGAAGTCAGA
*
1988054 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1988092 TGTCTTTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1988874 original size:152 final size:152
Alignment explanation
Indices: 1988598--1988902 Score: 610
Period size: 152 Copynumber: 2.0 Consensus size: 152
1988588 TTAAAATATT
1988598 AAATACGTTAATTATGCATTTAGGTGAAAACAAGAGGTACTAAGTTTTAACAAATTGGGTTGGTG
1 AAATACGTTAATTATGCATTTAGGTGAAAACAAGAGGTACTAAGTTTTAACAAATTGGGTTGGTG
1988663 AGCTGGTTTGAATTGATTCATCACGAAAATTGAAATTTGATTAGAATTAGATCATAAAAAATAAT
66 AGCTGGTTTGAATTGATTCATCACGAAAATTGAAATTTGATTAGAATTAGATCATAAAAAATAAT
1988728 CAATATAGATAAGACTAGAGAA
131 CAATATAGATAAGACTAGAGAA
1988750 AAATACGTTAATTATGCATTTAGGTGAAAACAAGAGGTACTAAGTTTTAACAAATTGGGTTGGTG
1 AAATACGTTAATTATGCATTTAGGTGAAAACAAGAGGTACTAAGTTTTAACAAATTGGGTTGGTG
1988815 AGCTGGTTTGAATTGATTCATCACGAAAATTGAAATTTGATTAGAATTAGATCATAAAAAATAAT
66 AGCTGGTTTGAATTGATTCATCACGAAAATTGAAATTTGATTAGAATTAGATCATAAAAAATAAT
1988880 CAATATAGATAAGACTAGAGAA
131 CAATATAGATAAGACTAGAGAA
1988902 A
1 A
1988903 TCTAGAGACT
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 153 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (152 bp):
AAATACGTTAATTATGCATTTAGGTGAAAACAAGAGGTACTAAGTTTTAACAAATTGGGTTGGTG
AGCTGGTTTGAATTGATTCATCACGAAAATTGAAATTTGATTAGAATTAGATCATAAAAAATAAT
CAATATAGATAAGACTAGAGAA
Found at i:1989539 original size:57 final size:57
Alignment explanation
Indices: 1989464--1989607 Score: 227
Period size: 57 Copynumber: 2.5 Consensus size: 57
1989454 TTACCCAATA
*
1989464 GGCACTTTCTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATG
1 GGCACTTTCTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAAATTCCATATG
* *
1989521 GGCAC-TTCGTGTACAAAAAGTTAAGAAATTCATGATTAGTTTATGAAATTCCATATG
1 GGCACTTTC-TGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAAATTCCATATG
* *
1989578 GACACTTTCTTTGCAAAAAGTTAAGAAATT
1 GGCACTTTCTGTGCAAAAAGTTAAGAAATT
1989608 ATATGAATTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
56 3 0.04
57 73 0.92
58 3 0.04
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (57 bp):
GGCACTTTCTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAAATTCCATATG
Found at i:1989817 original size:81 final size:80
Alignment explanation
Indices: 1989767--1990407 Score: 770
Period size: 81 Copynumber: 7.9 Consensus size: 80
1989757 ACAGTTCTAA
1989767 AGTAAAAGATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATGC-AGTTAGATGAA
* * *
1989832 CGGTTAAATACCGTTG
65 TGGTTAAAAACAGTTG
* **
1989848 AGTAAAAGATTAATGGCCTAG-TTGTGCATTTGGAAGAAATATGTCAATTATGCCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTT-TGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGA
* *
1989912 AAGGTTAAATACCA-TTG
64 ATGGTTAAA-AACAGTTG
** * * *
1989929 AGTAAAAGATTAATAACTTAGCTATGCATTTGGCAGAAAAGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAA
* **
1989994 TGGTTAAATATTGTTG
65 TGGTTAAAAACAGTTG
* * *
1990010 AGTAAAAGATTAATGGCCTAG-TTGTACATTTGGCAGAAAGATGTCAATTATACTAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTT-TGCATTTGGCAGAAAGGTGTCAATTATGC-AGTTAGATGA
* * * *
1990074 ACGATTAAATACCGTTG
64 ATGGTTAAAAACAGTTG
* * *
1990091 AGTAAAAGATTAATGGCCTAGATTTGAATTTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAA
*
1990156 TGGTTAAATATC-GTTG
65 TGGTTAAA-AACAGTTG
* * *
1990172 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCCAATTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAA
1990237 TGGTTAAATAAC-GTTG
65 TGGTTAAA-AACAGTTG
* * * *
1990253 ATTAAAAGATTAATGACCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGTA
1 AGTAAAAGATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAA
*** * *
1990318 CAATTAAATACTGTTG
65 TGGTTAAAAACAGTTG
*
1990334 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATG-CAGTTAGATGAA
1990399 TGGTTAAAA
65 TGGTTAAAA
1990408 GATTAATGGC
Statistics
Matches: 483, Mismatches: 66, Indels: 22
0.85 0.12 0.04
Matches are distributed among these distances:
80 6 0.01
81 470 0.97
82 7 0.01
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (80 bp):
AGTAAAAGATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATGCAGTTAGATGAAT
GGTTAAAAACAGTTG
Found at i:1990034 original size:162 final size:162
Alignment explanation
Indices: 1989767--1990869 Score: 1509
Period size: 162 Copynumber: 6.9 Consensus size: 162
1989757 ACAGTTCTAA
* *
1989767 AGTAAAAGATTAATGGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * * * **
1989832 CGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGAAGAAATATGTCAATT
66 TGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATT
* *
1989897 ATGCCAGTTAGATGAAAGGTTAAATACCATTG
131 ATGCCAGTTAGATGAACGGTTAAATACCGTTG
** * * * *
1989929 AGTAAAAGATTAATAACTTAGCTATGCATTTGGCAGAAAAGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * * *
1989994 TGGTTAAATATTGTTGAGTAAAAGATTAATGGCCTAGTTGTACATTTGGCAGAAAGATGTCAATT
66 TGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATT
* * *
1990059 ATACTAGTTAGATGAACGATTAAATACCGTTG
131 ATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * *
1990091 AGTAAAAGATTAATGGCCTAGATTTGAATTTGGCAGAAAGGTGTCAATTAAGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1990156 TGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATT
66 TGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATT
* * *
1990221 ATGCCAATTAGATGAATGGTTAAATAACGTTG
131 ATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * *
1990253 ATTAAAAGATTAATGACCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGTA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
***
1990318 CAATTAAATA-CTGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAAT
66 TGGTTAAATATC-GTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAAT
1990382 TATGCCAGTTAGAT-----G---AAT---G--G
130 TATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * * *
1990402 -TTAAAAGATTAATGGCCTAGTTCTGCATTTGGAAGAATGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
1990466 TGGTTAAATATCGTCGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCATAAAGGTGTCAATT
66 TGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATT
*
1990531 ATG-CAGTTAGATGAACGATTAAATACCGTTG
131 ATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
1990562 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
1990627 TGGTTAAATATCGTTGAGTAAAAGATTAATGGCTTAGCTGTGCATTTGGCATAAAGGTGTCAATT
66 TGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATT
* * *
1990692 ATGCCAATTATATGAACGGTTAAATACCATTG
131 ATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * *
1990724 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCATAAAGGTGTCAATTATGCCAATTAGATTAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * * * * *
1990789 TGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAACTGTACATTTGGTAGAAATGTGTCAATT
66 TGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATT
*
1990854 ATGCAAGTTAGATGAA
131 ATGCCAGTTAGATGAA
1990870 TTGCTAAATT
Statistics
Matches: 832, Mismatches: 92, Indels: 34
0.87 0.10 0.04
Matches are distributed among these distances:
147 9 0.01
148 117 0.14
149 2 0.00
151 1 0.00
154 3 0.00
155 3 0.00
157 1 0.00
158 1 0.00
160 1 0.00
161 124 0.15
162 570 0.69
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (162 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
TGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATT
ATGCCAGTTAGATGAACGGTTAAATACCGTTG
Found at i:1990202 original size:243 final size:243
Alignment explanation
Indices: 1989767--1990870 Score: 1544
Period size: 243 Copynumber: 4.6 Consensus size: 243
1989757 ACAGTTCTAA
1989767 AGTAAAAGATTAATGGCCTAGCTT-TGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAG-TTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGA
* * * **
1989831 ACGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGAAGAAATATGTCAAT
65 ACGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGATGTGCATTTGGCAGAAAGGTGTCAAT
* * * ** * *
1989896 TATGCCAGTTAGATGAAAGGTTAAATACCATTGAGTAAAAGATTAATAACTTAGCTATGCATTTG
130 TATGCCAGTTAGATGAATGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTG
* * *
1989961 GCAGAAAAGTGTCAATTATGTCAGTTAGATGAATGGTTAAATATTGTTG
195 GCAGAAAAGTGTCAATTATGCCAATTAGATGAATGGTTAAATATCGTTG
* * *
1990010 AGTAAAAGATTAATGGCCTAGTTGTACATTTGGCAGAAAGATGTCAATTATACTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
* *
1990075 CGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGATTTGAATTTGGCAGAAAGGTGTCAATT
66 CGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATT
*
1990140 AAGCCAGTTAGATGAATGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
131 ATGCCAGTTAGATGAATGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
*
1990205 CAG-AAAGATGTCAATTATGCCAATTAGATGAATGGTTAAATAACGTTG
196 CAGAAAAG-TGTCAATTATGCCAATTAGATGAATGGTTAAATATCGTTG
* * * *
1990253 ATTAAAAGATTAATGACCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATG-TCAGTTAGATGT
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCT-AGTTAGATGA
* * *
1990317 ACAATTAAATACTGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAAT
65 ACGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGATGTGCATTTGGCAGAAAGGTGTCAAT
* *
1990382 TATGCCAGTTAGATGAAT-G---------G-T---TAAAAGATTAATGGCCTAGTTCTGCATTTG
130 TATGCCAGTTAGATGAATGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTG
* ** * *
1990433 GAAGAATGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATATCGTCG
195 GCAGAAAAGTGTCAATTATGCCAATTAGATGAATGGTTAAATATCGTTG
*
1990482 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCATAAAGGTGTCAATTATGC-AGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
*
1990546 CGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATT
66 CGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATT
* *
1990611 ATGCAAGTTAGATGAATGGTTAAATATCGTTGAGTAAAAGATTAATGGCTTAGCTGTGCATTTGG
131 ATGCCAGTTAGATGAATGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
* * * * * *
1990676 CATAAAGGTGTCAATTATGCCAATTATATGAACGGTTAAATACCATTG
196 CAGAAAAGTGTCAATTATGCCAATTAGATGAATGGTTAAATATCGTTG
* * * *
1990724 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCATAAAGGTGTCAATTATGCCAATTAGATTAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
* * * *
1990789 TGATTAAATACCGTTGAGTAAAAGATTAATGGCCTA-ACTGTACATTTGGTAGAAATGTGTCAAT
66 CGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGA-TGTGCATTTGGCAGAAAGGTGTCAAT
*
1990853 TATGCAAGTTAGATGAAT
130 TATGCCAGTTAGATGAAT
1990871 TGCTAAATTC
Statistics
Matches: 770, Mismatches: 70, Indels: 42
0.87 0.08 0.05
Matches are distributed among these distances:
228 89 0.12
229 117 0.15
230 2 0.00
232 1 0.00
233 1 0.00
238 1 0.00
239 1 0.00
242 128 0.17
243 430 0.56
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (243 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
CGATTAAATACCGTTGAGTAAAAGATTAATGGCCTAGATGTGCATTTGGCAGAAAGGTGTCAATT
ATGCCAGTTAGATGAATGGTTAAATATCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
CAGAAAAGTGTCAATTATGCCAATTAGATGAATGGTTAAATATCGTTG
Found at i:1990444 original size:67 final size:67
Alignment explanation
Indices: 1990336--1990473 Score: 240
Period size: 67 Copynumber: 2.1 Consensus size: 67
1990326 TACTGTTGAG
* *
1990336 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATTAATGGCCTAGCTCTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAATG
1990401 GT
66 GT
* *
1990403 TAAAAGATTAATGGCCTAGTTCTGCATTTGGAAGAATGGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATTAATGGCCTAGCTCTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAATG
1990468 GT
66 GT
1990470 TAAA
1 TAAA
1990474 TATCGTCGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (67 bp):
TAAAAGATTAATGGCCTAGCTCTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAATG
GT
Found at i:1990893 original size:81 final size:81
Alignment explanation
Indices: 1990403--1990870 Score: 672
Period size: 81 Copynumber: 5.8 Consensus size: 81
1990393 GATGAATGGT
* * * * *
1990403 TAAAAGATTAATGGCCTAGTTCTGCATTTGGAAGAATGGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCAAGTTAGATGAATG
* *
1990468 GTTAAATATCGTCGAG
66 GTTAAATACCGTTGAG
* * *
1990484 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCATAAAGGTGTCAATTATGC-AGTTAGATGAACG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCAAGTTAGATGAATG
*
1990548 ATTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
1990564 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCAAGTTAGATGAATG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCAAGTTAGATGAATG
*
1990629 GTTAAATATCGTTGAG
66 GTTAAATACCGTTGAG
* * * *
1990645 TAAAAGATTAATGGCTTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCCAA-TTATATGAAC
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATG-CAAGTTAGATGAAT
*
1990709 GGTTAAATACCATTGAG
65 GGTTAAATACCGTTGAG
* * *
1990726 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCATAAAGGTGTCAATTATGCCAA-TTAGATTAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATG-CAAGTTAGATGAAT
*
1990790 GATTAAATACCGTTGAG
65 GGTTAAATACCGTTGAG
* * * *
1990807 TAAAAGATTAATGGCCTAACTGTACATTTGGTAGAAATGTGTCAATTATGCAAGTTAGATGAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCAAGTTAGATGAAT
1990871 TGCTAAATTC
Statistics
Matches: 351, Mismatches: 33, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
80 77 0.22
81 271 0.77
82 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCAAGTTAGATGAATG
GTTAAATACCGTTGAG
Found at i:1992667 original size:29 final size:29
Alignment explanation
Indices: 1992634--1992691 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1992624 GAACTCGACT
* *
1992634 CGAATATCACACTTAAAAAACCCCAACCC
1 CGAATATCAAACTTAAAAAAACCCAACCC
*
1992663 CGAATATCAAACTTAAAAAAACCCGACCC
1 CGAATATCAAACTTAAAAAAACCCAACCC
1992692 GAACCCGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.34, G:0.05, T:0.14
Consensus pattern (29 bp):
CGAATATCAAACTTAAAAAAACCCAACCC
Found at i:1992692 original size:28 final size:28
Alignment explanation
Indices: 1992629--1992694 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
1992619 AACCCGAACT
* * *
1992629 CGACTCGAATATCACACTTAAAAAACCC
1 CGACCCGAATATCAAACTTAAAAAAACC
*
1992657 CAACCCCGAATATCAAACTTAAAAAAACC
1 CGA-CCCGAATATCAAACTTAAAAAAACC
1992686 CGACCCGAA
1 CGACCCGAA
1992695 CCCGACCTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.45, C:0.33, G:0.08, T:0.14
Consensus pattern (28 bp):
CGACCCGAATATCAAACTTAAAAAAACC
Found at i:1995680 original size:16 final size:15
Alignment explanation
Indices: 1995654--1995687 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1995644 TGCATGTTAT
1995654 ATTAGATATTAAATA
1 ATTAGATATTAAATA
*
1995669 ATTAGTATATTACATA
1 ATTAG-ATATTAAATA
1995685 ATT
1 ATT
1995688 CATATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (15 bp):
ATTAGATATTAAATA
Found at i:1997917 original size:790 final size:775
Alignment explanation
Indices: 1996601--1998141 Score: 2618
Period size: 790 Copynumber: 2.0 Consensus size: 775
1996591 AGGAATGAAG
*
1996601 TAAAGCTTACCATCGTCAGAGGGAAGTACGATTTGTTGGGTGAGTCTCCTTTTAATTTTTAGTTT
1 TAAAGCTTACCATCGACAGAGGGAAGTACGATTTGTTGGGTGAGTCTCCTTTTAATTTTTAGTTT
* *
1996666 AAATATGTGCATTTTTTAGGTTTTGAATTGATCATCCGGAGGTGGCTGGTGGTTAAAGCTTCGAT
66 AAATATGTGCATTTTTGAGGTTTTGAATTGATCATCCGGAGGTGGCTGGTGGTTAAAGCTTCGAC
*
1996731 CGACGTCGGGTAGGCGACAGAGATTGAGATTCGGCTAGCGAGGATTTGGTATTTGGGTGTTTGGA
131 CGACGTCGGGTAGGCGACAGAGATGGAGATTCGGCTAGCGAGGATTTGGTATTTGGGTGTTTGGA
1996796 TAGTGTTTTTTGGGCATAGAGGTTAAGAAAAGTTTGATTTTTGTTGGTGTTCTTGAAATTTTAAG
196 TAGTGTTTTTTGGGCATAGAGGTTAAGAAAAGTTTGATTTTTGTTGGTGTTCTTGAAATTTTAAG
*
1996861 GGAAAATGTTGGTTTTGATCTTTAAGAAACAAGTTGGATTTGTCTTTGGGTGTTGTTAGAGGATC
261 GGAAAAAGTTGGTTTTGATCTTTAAGAAACAAGTTGGATTTGTCTTTGGGTGTTGTTAGAGGATC
*
1996926 AAAATGGGTTTTGGAGAATGAACATTTGATATTTCTTAGGAAATATAGGTGTTTGATCTTCCACA
326 AAAATGGGTTTTGGAGAATGAACATTTGATATTTCTTAAGAAATATAGGTGTTTGATCTTCCACA
1996991 AACCAATTTCGGGTTGGTTTTGGCGTTGTTTTTGGATCAAAACTAGGTTTTTTTATGAACTAAGA
391 AACCAATTTCGGGTTGGTTTTGGCGTTGTTTTTGGATCAAAACTAGGTTTTTTTATGAACTAAGA
*
1997056 ATGAACATCAAGAACAAGGGATGAACATGCTTGGTGATGGGAAATTTCAGTTGAGAGAATAGGGA
456 ATGAACATCAAGAACAAGGGATGAACATGCTTGGTGATGGGAAATTTCAGTTAAGAGAATAGGGA
1997121 GGAAGAGAGAACTTTTGGAGTTGTAAAAATGAGCTTGTTTCTAATTTTTGGGGTCTTATAGTTTC
521 GGAAGAGAGAACTTTTGGAGTTGTAAAAATGAGCTTGTTTCTAATTTTTGGGGTCTTATAGTTTC
1997186 AAATTTTTGGGCTATTCACTTCATATAAACACTACACTTCATGCGTGTTTTAGCTCTTGGCTTTG
586 AAATTTTTGGGCTATTCACTTCATATAAACACTACACTTCATGCGTGTTTTAG--C-T--C-TTG
*
1997251 GCTTTGTATTATATTATTTTAGTCACCATTTATTTGTAATTTTACTCCAAATTTTAATTGAATGC
645 GCTTTGTATTATATTATTTTAGTCACCATTTATTTGTAATTGTACTCCAAATTTTAATTGAATGC
* *
1997316 AATTTAGTCATTAATTTATTTTGAATCTCCTTGAATCTTTTATTGAATGTGTTTAATTATTAATA
710 AATTTAGTCATTAATTTATTTCGAATCACCTTGAATCTTTTATTGAATGTGTTTAATTATTAATA
1997381 T
775 T
* * *
1997382 TAAAGCTTACTATCGACGGAGGGAAGTACGATTTGTTGGGTGAGTCTTCTTTTAATTTTTAGTTT
1 TAAAGCTTACCATCGACAGAGGGAAGTACGATTTGTTGGGTGAGTCTCCTTTTAATTTTTAGTTT
* *
1997447 GAATATGTGCATTTTTGAGGTTTTGAATTGATCATCCGGAGGTGGCTGGTGGTTGAAGCTTCGAC
66 AAATATGTGCATTTTTGAGGTTTTGAATTGATCATCCGGAGGTGGCTGGTGGTTAAAGCTTCGAC
* * * *
1997512 CGACGTCGGGTTA-GCGGCAGAGATGGAGATTTGGCTGGCGAGGTTTTGGTATTTGGGTGTTTGG
131 CGACGTCGGG-TAGGCGACAGAGATGGAGATTCGGCTAGCGAGGATTTGGTATTTGGGTGTTTGG
* * *
1997576 GTAGTGTTTTTTGGGCTTAGAGGTTAAGAAAAGTTTGGTTTTTGTTGTTGTTCTTGGTGTTCTTG
195 ATAGTGTTTTTTGGGCATAGAGGTTAAGAAAAGTTT-G---AT-TT-TTG---TTGGTGTTCTTG
*
1997641 AAATTTTAAGGGAAAAAGTTGGTTTTGATCTTTAATAAACAAGTTGGATTTGTCTTTGGGTGTTG
251 AAATTTTAAGGGAAAAAGTTGGTTTTGATCTTTAAGAAACAAGTTGGATTTGTCTTTGGGTGTTG
*
1997706 TTAGAGGATCAAAATGGGTTTTGGAGGATGAACATTTGATATTTCTTAAGAAATATAGGTGTTTG
316 TTAGAGGATCAAAATGGGTTTTGGAGAATGAACATTTGATATTTCTTAAGAAATATAGGTGTTTG
* *
1997771 ATCTTCCACAAACCAATTTCGGGTTGGTTTTGGTGTTGTTTTTGGATCAAAGCTAGGTTTTTTTG
381 ATCTTCCACAAACCAATTTCGGGTTGGTTTTGGCGTTGTTTTTGGATCAAAACTAGGTTTTTTT-
* *
1997836 ATGAACTAAGGATGAACATCAATAACAAGGGATGAACATGCTTGGTG-TGGGAAATTTCAGTTAA
445 ATGAACTAAGAATGAACATCAAGAACAAGGGATGAACATGCTTGGTGATGGGAAATTTCAGTTAA
1997900 GAGAATAGGGAGGAAGAGAGAACTTTTGGAGTTGTAAAAATGAGCTTGTTTCTAATTTTTGGGGT
510 GAGAATAGGGAGGAAGAGAGAACTTTTGGAGTTGTAAAAATGAGCTTGTTTCTAATTTTTGGGGT
* *
1997965 CTTATAGTTTCAAATTTTTTGGCTATTTACTTCATATAAACACTACACTTCATGCGTGTTTTAGC
575 CTTATAGTTTCAAATTTTTGGGCTATTCACTTCATATAAACACTACACTTCATGCGTGTTTTAGC
* **
1998030 TCTTGGCTTTGTATTATATTTTTTTAGTCACCATTTATTTGTAATTGTACTCTGAATTTTAATTG
640 TCTTGGCTTTGTATTATATTATTTTAGTCACCATTTATTTGTAATTGTACTCCAAATTTTAATTG
1998095 AATGCAATTTAGTCATTAATTTATTTCGAATCACCTTGAATCTTTTA
705 AATGCAATTTAGTCATTAATTTATTTCGAATCACCTTGAATCTTTTA
1998142 AATTGGTCAC
Statistics
Matches: 716, Mismatches: 33, Indels: 19
0.93 0.04 0.02
Matches are distributed among these distances:
781 212 0.30
782 3 0.00
784 104 0.15
785 2 0.00
786 2 0.00
787 4 0.01
788 1 0.00
790 343 0.48
791 45 0.06
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (775 bp):
TAAAGCTTACCATCGACAGAGGGAAGTACGATTTGTTGGGTGAGTCTCCTTTTAATTTTTAGTTT
AAATATGTGCATTTTTGAGGTTTTGAATTGATCATCCGGAGGTGGCTGGTGGTTAAAGCTTCGAC
CGACGTCGGGTAGGCGACAGAGATGGAGATTCGGCTAGCGAGGATTTGGTATTTGGGTGTTTGGA
TAGTGTTTTTTGGGCATAGAGGTTAAGAAAAGTTTGATTTTTGTTGGTGTTCTTGAAATTTTAAG
GGAAAAAGTTGGTTTTGATCTTTAAGAAACAAGTTGGATTTGTCTTTGGGTGTTGTTAGAGGATC
AAAATGGGTTTTGGAGAATGAACATTTGATATTTCTTAAGAAATATAGGTGTTTGATCTTCCACA
AACCAATTTCGGGTTGGTTTTGGCGTTGTTTTTGGATCAAAACTAGGTTTTTTTATGAACTAAGA
ATGAACATCAAGAACAAGGGATGAACATGCTTGGTGATGGGAAATTTCAGTTAAGAGAATAGGGA
GGAAGAGAGAACTTTTGGAGTTGTAAAAATGAGCTTGTTTCTAATTTTTGGGGTCTTATAGTTTC
AAATTTTTGGGCTATTCACTTCATATAAACACTACACTTCATGCGTGTTTTAGCTCTTGGCTTTG
TATTATATTATTTTAGTCACCATTTATTTGTAATTGTACTCCAAATTTTAATTGAATGCAATTTA
GTCATTAATTTATTTCGAATCACCTTGAATCTTTTATTGAATGTGTTTAATTATTAATAT
Found at i:1998305 original size:33 final size:34
Alignment explanation
Indices: 1998234--1998307 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
1998224 TAGATTTTTT
* **
1998234 AATT-AAGCCTTAGATTTTAGGTTCTTTAGTTATT
1 AATTAAAGCCTTAGA-TTTAGGTTCTTTAATTAGA
1998268 AATTAAAGCCTTAG-TTTAGGTT-TCTTAATTAGA
1 AATTAAAGCCTTAGATTTAGGTTCT-TTAATTAGA
1998301 AATTAAA
1 AATTAAA
1998308 TAAGTTCAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 1 0.03
33 21 0.60
34 4 0.11
35 9 0.26
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.45
Consensus pattern (34 bp):
AATTAAAGCCTTAGATTTAGGTTCTTTAATTAGA
Found at i:1999770 original size:15 final size:15
Alignment explanation
Indices: 1999752--1999783 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1999742 CTTTCTTTGT
*
1999752 TTTTCTTTGCTTTCA
1 TTTTCTTTGCGTTCA
1999767 TTTTCTTTGCGTTCA
1 TTTTCTTTGCGTTCA
1999782 TT
1 TT
1999784 GCATCATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.09, T:0.66
Consensus pattern (15 bp):
TTTTCTTTGCGTTCA
Found at i:2007137 original size:54 final size:53
Alignment explanation
Indices: 2007055--2007606 Score: 608
Period size: 54 Copynumber: 10.2 Consensus size: 53
2007045 TTCTTTGAGA
* *
2007055 TGCACA-TGTAGTGCCTATAAGGTCGTTCATCAATATATGATGAATTATGTGGGT
1 TGCACACT-TAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TGTGGGT
* *
2007109 TGCACACTTAGTGCCTATATGGTCGTTCATTAACATATGATGAATTATGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TGTGGGT
* ** *
2007163 TGCACACTTAGTGTCTATACGGTAATT-ATCAACATATGATGAATTACGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TGTGGGT
**
2007216 TGCACACTTAGTGTTTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TGTGGGT
* * **
2007270 TGCACACTTAGTGTCTATACGGCCGTTCATCAACATATGATGAAATTCCTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATG-AATTTGTGGGT
*
2007324 TGCACACTTAGTGCCTATACGATCGTTCATCAACATATGATGAATTTCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTT-GTGGGT
* * * * *
2007378 TGCACACTTAGTGCCGATACAGTCGGTCATAAACATATTATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TGTGGGT
* ** * * * *
2007432 TGCACACTTAGT-ACTGATACGACCATTCATAAACATATTATGAATTTTGAGGGT
1 TGCACACTTAGTGCCT-ATACGGTCGTTCATCAACATATGATGAA-TTTGTGGGT
* * ** * *
2007486 TGCCCACTTAGT-ACTGATACGGTCGTTCAAAAACATTTTATGAATTTCGTGGGT
1 TGCACACTTAGTGCCT-ATACGGTCGTTCATCAACATATGATGAATTT-GTGGGT
* * * * * *
2007540 TGAACACTTAGTGCCAATACGGTCATTCATAAACATATTATGAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TGTGGGT
2007594 TGCACACTTAGTG
1 TGCACACTTAGTG
2007607 TCGATAGTAC
Statistics
Matches: 435, Mismatches: 53, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
53 56 0.13
54 370 0.85
55 9 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (53 bp):
TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTGTGGGT
Found at i:2008138 original size:269 final size:269
Alignment explanation
Indices: 2007659--2008196 Score: 1033
Period size: 269 Copynumber: 2.0 Consensus size: 269
2007649 ATTTAACCAC
2007659 ATGCAACTATAACTCTTAATGTACATAATAAATGCACTCACTCGGTACACCTCGTTAATATGCTT
1 ATGCAACTATAACTCTTAATGTACATAATAAATGCACTCACTCGGTACACCTCGTTAATATGCTT
2007724 TAAGGATGTCCAGCTATTCGGCAACCTTATCTTTTCCCTTTTTCTTGCTTGACTCGGGAGCTTGG
66 TAAGGATGTCCAGCTATTCGGCAACCTTATCTTTTCCCTTTTTCTTGCTTGACTCGGGAGCTTGG
*
2007789 TTACGATCTACACAAGCATCCAATAAGTACACATGTCATTCCAATGTTAGTATACTCTCTAACAT
131 TTACGATCTACACAAGCATCCAATAAGTACACATGTCATACCAATGTTAGTATACTCTCTAACAT
*
2007854 TTATACTTTTAATAATACTTAAAAGTACTATCATATTCAATTTCTATCACAATTCGTCCTATCTT
196 TTATACTTTTAATAATACTTAAAAGTACTATCATATCCAATTTCTATCACAATTCGTCCTATCTT
2007919 AAATTTTCA
261 AAATTTTCA
2007928 ATGCAACTATAACTCTTAATGTACATAATAAATGCACTCAC-CTGGTACACCTCGTTAATATGCT
1 ATGCAACTATAACTCTTAATGTACATAATAAATGCACTCACTC-GGTACACCTCGTTAATATGCT
2007992 TTAAGGATGTCCAGCTATTCGGCAACCTTATCTTTTCCCTTTTTCTTGCTTGACTCGGGAGCTTG
65 TTAAGGATGTCCAGCTATTCGGCAACCTTATCTTTTCCCTTTTTCTTGCTTGACTCGGGAGCTTG
*
2008057 GTTATGATCTACACAAGCATCCAATAAGTACACATGTCATACCAATGTTAGTATACTCTCTAACA
130 GTTACGATCTACACAAGCATCCAATAAGTACACATGTCATACCAATGTTAGTATACTCTCTAACA
2008122 TTTATACTTTTAATAATACTTAAAAGTACTATCATATCCAATTTCTATCACAATTCGTCCTATCT
195 TTTATACTTTTAATAATACTTAAAAGTACTATCATATCCAATTTCTATCACAATTCGTCCTATCT
2008187 TAAATTTTCA
260 TAAATTTTCA
2008197 GACTCAATAG
Statistics
Matches: 265, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
268 1 0.00
269 264 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (269 bp):
ATGCAACTATAACTCTTAATGTACATAATAAATGCACTCACTCGGTACACCTCGTTAATATGCTT
TAAGGATGTCCAGCTATTCGGCAACCTTATCTTTTCCCTTTTTCTTGCTTGACTCGGGAGCTTGG
TTACGATCTACACAAGCATCCAATAAGTACACATGTCATACCAATGTTAGTATACTCTCTAACAT
TTATACTTTTAATAATACTTAAAAGTACTATCATATCCAATTTCTATCACAATTCGTCCTATCTT
AAATTTTCA
Found at i:2009309 original size:107 final size:107
Alignment explanation
Indices: 2009182--2009396 Score: 430
Period size: 107 Copynumber: 2.0 Consensus size: 107
2009172 ACTATTCATA
2009182 TGTTTCAAACTCATCATTTTTTGTTAAAAAGTCGGCGTTTGTCTAAGCTAGACGTTAACTAGTTG
1 TGTTTCAAACTCATCATTTTTTGTTAAAAAGTCGGCGTTTGTCTAAGCTAGACGTTAACTAGTTG
2009247 ATTGTGATATAGTAAAATATGATCTCATAACTGTTTGAGTTG
66 ATTGTGATATAGTAAAATATGATCTCATAACTGTTTGAGTTG
2009289 TGTTTCAAACTCATCATTTTTTGTTAAAAAGTCGGCGTTTGTCTAAGCTAGACGTTAACTAGTTG
1 TGTTTCAAACTCATCATTTTTTGTTAAAAAGTCGGCGTTTGTCTAAGCTAGACGTTAACTAGTTG
2009354 ATTGTGATATAGTAAAATATGATCTCATAACTGTTTGAGTTG
66 ATTGTGATATAGTAAAATATGATCTCATAACTGTTTGAGTTG
2009396 T
1 T
2009397 ATTTTTTTTA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (107 bp):
TGTTTCAAACTCATCATTTTTTGTTAAAAAGTCGGCGTTTGTCTAAGCTAGACGTTAACTAGTTG
ATTGTGATATAGTAAAATATGATCTCATAACTGTTTGAGTTG
Found at i:2010342 original size:68 final size:68
Alignment explanation
Indices: 2010228--2010375 Score: 287
Period size: 68 Copynumber: 2.2 Consensus size: 68
2010218 ATTATTTTTT
2010228 AGGACATTGTTAGTTACTAAATTAATGGAATCAAATCTTTAAGCACGAATAAAGTGGTCTCTGTG
1 AGGA-ATTGTTAGTTACTAAATTAATGGAATCAAATCTTTAAGCACGAATAAAGTGGTCTCTGTG
2010293 ATAA
65 ATAA
2010297 AGGAATTGTTAGTTACTAAATTAATGGAATCAAATCTTTAAGCACGAATAAAGTGGTCTCTGTGA
1 AGGAATTGTTAGTTACTAAATTAATGGAATCAAATCTTTAAGCACGAATAAAGTGGTCTCTGTGA
2010362 TAA
66 TAA
2010365 AGGAATTGTTA
1 AGGAATTGTTA
2010376 TTTTTTTTAG
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 75 0.95
69 4 0.05
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (68 bp):
AGGAATTGTTAGTTACTAAATTAATGGAATCAAATCTTTAAGCACGAATAAAGTGGTCTCTGTGA
TAA
Found at i:2012497 original size:81 final size:80
Alignment explanation
Indices: 2012406--2012700 Score: 323
Period size: 81 Copynumber: 3.6 Consensus size: 80
2012396 GGTTCATCCA
* * * * * * *
2012406 TAGTGACGTTTTTCA-ACAAACATCGTGACAGAGTAGTACTTTAGCGGCGTTTTTATACAAACGC
1 TAGTGGCGTTTTT-ATACAAAC-CCGTGATAGACTCGTACTTTAGTGGCGTTTTCATACAAACGC
2012470 CG-TATAGACTTGTACTT
64 CGCTATAGACTTGT-CTT
*
2012487 TAGTTGCGTTTTTATACAAACGCCGCT-ATAGACTCGTACTTTAGTGGCGTTTTCATACAAACGC
1 TAGTGGCGTTTTTATACAAAC-CCG-TGATAGACTCGTACTTTAGTGGCGTTTTCATACAAACGC
* *
2012551 CGCTATGGACTCT-TCTC
64 CGCTATAGACT-TGTCTT
* *
2012568 TAGTGGAGTTTTTATACAAACGC-TGCTATAGACTCGTACTTTAGTGGCGTTTTCATACAAACGC
1 TAGTGGCGTTTTTATACAAACCCGTG--ATAGACTCGTACTTTAGTGGCGTTTTCATACAAACGC
*
2012632 CGCTATAGACTCGTCTT
64 CGCTATAGACTTGTCTT
* *
2012649 TAGTGGCGTTTTTATACAAATGCCGCT-AAAGACTCGTACTTTAGTGGCGTTT
1 TAGTGGCGTTTTTATACAAA-CCCG-TGATAGACTCGTACTTTAGTGGCGTTT
2012701 GTATTTACAA
Statistics
Matches: 182, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
78 1 0.01
80 2 0.01
81 167 0.92
82 10 0.05
83 1 0.01
84 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (80 bp):
TAGTGGCGTTTTTATACAAACCCGTGATAGACTCGTACTTTAGTGGCGTTTTCATACAAACGCCG
CTATAGACTTGTCTT
Found at i:2012529 original size:41 final size:41
Alignment explanation
Indices: 2012441--2012700 Score: 391
Period size: 40 Copynumber: 6.4 Consensus size: 41
2012431 TGACAGAGTA
* *
2012441 GTACTTTAGCGGCGTTTTTATACAAACGCCG-TATAGACTT
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
*
2012481 GTACTTTAGTTGCGTTTTTATACAAACGCCGCTATAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* *
2012522 GTACTTTAGTGGCGTTTTCATACAAACGCCGCTATGGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* * * *
2012563 -TTCTCTAGTGGAGTTTTTATACAAACGCTGCTATAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
*
2012603 GTACTTTAGTGGCGTTTTCATACAAACGCCGCTATAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* *
2012644 GT-CTTTAGTGGCGTTTTTATACAAATGCCGCTAAAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
2012684 GTACTTTAGTGGCGTTT
1 GTACTTTAGTGGCGTTT
2012701 GTATTTACAA
Statistics
Matches: 197, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
40 100 0.51
41 97 0.49
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
Found at i:2016375 original size:39 final size:40
Alignment explanation
Indices: 2016236--2016375 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 40
2016226 AATTCGCAAC
* * * ***
2016236 GCGAACTTCAATTTCGCAACACAG-TTTCCAAATTCACAAC
1 GCGAATTTCAATTTCGCAACACAGAATT-AAAATTCACGTT
* * ** *
2016276 GCGAATTTAAAATTCGCAACACATCATTAAAATTCGCGTT
1 GCGAATTTCAATTTCGCAACACAGAATTAAAATTCACGTT
** *
2016316 GCGAATTTCAATTTAACAACACAGAATTGAAATTCACGTT
1 GCGAATTTCAATTTCGCAACACAGAATTAAAATTCACGTT
*
2016356 GCG-ATTTCACTTTCGCAACA
1 GCGAATTTCAATTTCGCAACA
2016376 GTACACCTTT
Statistics
Matches: 78, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
39 14 0.18
40 62 0.79
41 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (40 bp):
GCGAATTTCAATTTCGCAACACAGAATTAAAATTCACGTT
Found at i:2017413 original size:37 final size:38
Alignment explanation
Indices: 2017358--2017443 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 38
2017348 ATTCAAAGAA
*
2017358 ATGTGTTGCTAAAGTGAAA-ACAACGCGAATTTCAATT
1 ATGTGTTGTTAAAGTGAAATACAACGCGAATTTCAATT
* * * *
2017395 TTGTGTTGTTAAATTGAAATTCGCAACGCGAATTTTAATT
1 ATGTGTTGTTAAAGTGAAA-T-ACAACGCGAATTTCAATT
2017435 ATGTGTTGT
1 ATGTGTTGT
2017444 GAATTTCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
37 16 0.40
40 24 0.60
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (38 bp):
ATGTGTTGTTAAAGTGAAATACAACGCGAATTTCAATT
Found at i:2018004 original size:43 final size:42
Alignment explanation
Indices: 2017955--2018092 Score: 168
Period size: 43 Copynumber: 3.2 Consensus size: 42
2017945 GATAATTAGC
* *
2017955 GGTGTTTTTCTTAAAAATGCCGCTATAGATCATGACCTTTTGT
1 GGTGTTTTTCTTAAAAACGCCGCTATAGAGC-TGACCTTTTGT
* * *
2017998 GGTGTTTTTCTTAAAAACACCGCTATAGAGCTTCACATTTTGT
1 GGTGTTTTTCTTAAAAACGCCGCTATAGAGC-TGACCTTTTGT
* * *
2018041 GGTGTGTTTCTTAAAAACGCCACTATAGAGCTGGACCTTTTGC
1 GGTGTTTTTCTTAAAAACGCCGCTATAGAGCT-GACCTTTTGT
*
2018084 GGCGTTTTT
1 GGTGTTTTT
2018093 GTTCACAAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 79 0.99
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (42 bp):
GGTGTTTTTCTTAAAAACGCCGCTATAGAGCTGACCTTTTGT
Found at i:2018258 original size:14 final size:15
Alignment explanation
Indices: 2018229--2018260 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2018219 TATTTAGTAG
2018229 TAAATTAATAATTTT
1 TAAATTAATAATTTT
*
2018244 TAAATTAATATTTTT
1 TAAATTAATAATTTT
2018259 TA
1 TA
2018261 TGATAAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAAATTAATAATTTT
Found at i:2018278 original size:2 final size:2
Alignment explanation
Indices: 2018273--2018311 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2018263 ATAAATACTA
2018273 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2018312 TAAAGAGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2023128 original size:24 final size:24
Alignment explanation
Indices: 2023101--2023166 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
2023091 AAAATCAAAA
2023101 CATAATTCAGGTCAAGTAGCAGAT
1 CATAATTCAGGTCAAGTAGCAGAT
* * *
2023125 CATAATCCAGGTCAAGTATCATAT
1 CATAATTCAGGTCAAGTAGCAGAT
*
2023149 CA-AAATCTAGGTCAAGTA
1 CATAATTC-AGGTCAAGTA
2023167 TCATATCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 3 0.08
24 33 0.92
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (24 bp):
CATAATTCAGGTCAAGTAGCAGAT
Found at i:2023167 original size:24 final size:24
Alignment explanation
Indices: 2023108--2023181 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
2023098 AAACATAATT
* * *
2023108 CAGGTCAAGTAGCAGATCATAATC
1 CAGGTCAAGTATCATATCAAAATC
2023132 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
*
2023156 TAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
2023180 CA
1 CA
2023182 AATCGGAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAAAATC
Found at i:2026064 original size:20 final size:20
Alignment explanation
Indices: 2026017--2026056 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2026007 CGGATCGTCG
2026017 TGAATCGATGAAAAACCATT
1 TGAATCGATGAAAAACCATT
2026037 TGAATCGATGAAAAACCATT
1 TGAATCGATGAAAAACCATT
2026057 GAAATCGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
TGAATCGATGAAAAACCATT
Found at i:2029106 original size:20 final size:21
Alignment explanation
Indices: 2029081--2029121 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
2029071 TTGTTTTGCT
2029081 CTGAATG-GAACCATTCAACG
1 CTGAATGAGAACCATTCAACG
*
2029101 CTGAATGATGAACCGTTCAAC
1 CTGAATGA-GAACCATTCAAC
2029122 ATTCAGACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
CTGAATGAGAACCATTCAACG
Found at i:2029227 original size:27 final size:28
Alignment explanation
Indices: 2029187--2029249 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
2029177 AACAGTGCTG
2029187 AATGATT-AAGCACAGAAGTACATTCTA
1 AATGATTCAAGCACAGAAGTACATTCTA
*
2029214 AATGATTCAA-CACATAAGTACATTCTA
1 AATGATTCAAGCACAGAAGTACATTCTA
2029241 AATGATTCA
1 AATGATTCA
2029250 GAGCCATTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (28 bp):
AATGATTCAAGCACAGAAGTACATTCTA
Found at i:2029340 original size:15 final size:16
Alignment explanation
Indices: 2029302--2029341 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2029292 ATAGAGCCTC
*
2029302 TGAATCATTTAGCATT
1 TGAATCATTTAGCACT
*
2029318 TGAATCATTTAGCGCT
1 TGAATCATTTAGCACT
2029334 T-AATCATT
1 TGAATCATT
2029342 CTGAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (16 bp):
TGAATCATTTAGCACT
Found at i:2035771 original size:3 final size:3
Alignment explanation
Indices: 2035759--2035789 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2035749 CCAGAAACTC
2035759 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
2035790 CTTTCCTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:2036403 original size:64 final size:63
Alignment explanation
Indices: 2036320--2036476 Score: 170
Period size: 64 Copynumber: 2.5 Consensus size: 63
2036310 TTAAAGGTGT
* ** **
2036320 ACCGATGCACAAGTAGTGCATCGATGCACTTCTTAATAATAGAAACATTGAATGCAATTAATGC
1 ACCGATGCACAAGGAGTGCATCGATGCACACCTTAAT-ATAGAAACATCAAATGCAATTAATGC
* * * * * * * *
2036384 ATCGATGCATAAGGCGTGCATCGATTCATCACCTTAATATTGAAACATCAAATGTATTTTATGC
1 ACCGATGCACAAGGAGTGCATCGATGCA-CACCTTAATATAGAAACATCAAATGCAATTAATGC
*
2036448 ACCGATGCACAAGTAGTGCATCGATGCAC
1 ACCGATGCACAAGGAGTGCATCGATGCAC
2036477 CGTTAAAGAA
Statistics
Matches: 74, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
63 1 0.01
64 66 0.89
65 7 0.09
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (63 bp):
ACCGATGCACAAGGAGTGCATCGATGCACACCTTAATATAGAAACATCAAATGCAATTAATGC
Found at i:2037844 original size:22 final size:22
Alignment explanation
Indices: 2037819--2037958 Score: 218
Period size: 22 Copynumber: 6.6 Consensus size: 22
2037809 GGGTATATTA
2037819 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
* *
2037841 GTCCTTCGGGACATATCCAATG
1 GTCCTTCGGGACGTATCCAGTG
*
2037863 TTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
2037885 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
2037907 GTCCTTCGGGACGTAT-CAGTG
1 GTCCTTCGGGACGTATCCAGTG
2037928 GTCCTTCGGGAC--AT--AGTG
1 GTCCTTCGGGACGTATCCAGTG
2037946 GTCCTTCGGGACG
1 GTCCTTCGGGACG
2037959 AATACTGAAC
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
18 16 0.14
19 2 0.02
21 17 0.15
22 76 0.68
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.28
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:2039895 original size:22 final size:22
Alignment explanation
Indices: 2039867--2039937 Score: 133
Period size: 22 Copynumber: 3.2 Consensus size: 22
2039857 GGATTGTCCA
2039867 TAGCGCTACCCATATCAGTCGG
1 TAGCGCTACCCATATCAGTCGG
2039889 TAGCGCTACCCATATCAGTCGG
1 TAGCGCTACCCATATCAGTCGG
*
2039911 TAGTGCTACCCATATCAGTCGG
1 TAGCGCTACCCATATCAGTCGG
2039933 TAGCG
1 TAGCG
2039938 GGACCTCAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.24
Consensus pattern (22 bp):
TAGCGCTACCCATATCAGTCGG
Found at i:2045863 original size:18 final size:18
Alignment explanation
Indices: 2045840--2045889 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
2045830 TCTAAAGTAC
* *
2045840 TAATAAAAATTAATCATA
1 TAATAAAAATTAATAAAA
*
2045858 TAATAATAATTAATAAAA
1 TAATAAAAATTAATAAAA
2045876 T-ATAAAAAATTAAT
1 TAAT-AAAAATTAAT
2045890 TATTTTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATAAAAATTAATAAAA
Found at i:2046972 original size:15 final size:16
Alignment explanation
Indices: 2046952--2046989 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2046942 GGTTCGCTCG
*
2046952 TGGGCCT-GCTGGATC
1 TGGGCCTGGATGGATC
*
2046967 TGGGCCTGGATGGGTC
1 TGGGCCTGGATGGATC
2046983 TGGGCCT
1 TGGGCCT
2046990 AAATCTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.05, C:0.24, G:0.45, T:0.26
Consensus pattern (16 bp):
TGGGCCTGGATGGATC
Found at i:2047918 original size:20 final size:20
Alignment explanation
Indices: 2047879--2047982 Score: 163
Period size: 20 Copynumber: 5.1 Consensus size: 20
2047869 AAACTAATAG
*
2047879 ATGACCCAAAGGATTTTACAA
1 ATGACCCAAAGG-CTTTACAA
2047900 ATGACCCAAAGGCTTTACAA
1 ATGACCCAAAGGCTTTACAA
2047920 ATGACCCAAAGGCTTTACAA
1 ATGACCCAAAGGCTTTACAA
*
2047940 ATGACCCGAAGGCTTTACAA
1 ATGACCCAAAGGCTTTACAA
*
2047960 ATGACCCGAAGGCTTTTACAA
1 ATGACCCAAAGGC-TTTACAA
2047981 AT
1 AT
2047983 TCATGAGAAA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
20 59 0.74
21 21 0.26
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (20 bp):
ATGACCCAAAGGCTTTACAA
Found at i:2054627 original size:75 final size:75
Alignment explanation
Indices: 2054504--2054654 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
2054494 ATTGGTACCG
2054504 ATATTTATTAATTAATGTATTTGCAATAACTTATAAATTTGCTCTTTAAACTTAATAATATTTAA
1 ATATTTATTAATTAATGTATTTGCAATAACTTATAAATTTGCTCTTTAAACTTAATAATATTTAA
2054569 TATAAATGCT
66 TATAAATGCT
2054579 ATATTTATTAATTAATGTATTTGCAATAACTTATAAATTTGCTCTTTAAACTTAATAATATTTAA
1 ATATTTATTAATTAATGTATTTGCAATAACTTATAAATTTGCTCTTTAAACTTAATAATATTTAA
2054644 TATAAATGCT
66 TATAAATGCT
2054654 A
1 A
2054655 AATAAAAATC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.46
Consensus pattern (75 bp):
ATATTTATTAATTAATGTATTTGCAATAACTTATAAATTTGCTCTTTAAACTTAATAATATTTAA
TATAAATGCT
Found at i:2054657 original size:41 final size:41
Alignment explanation
Indices: 2054537--2054657 Score: 114
Period size: 41 Copynumber: 3.1 Consensus size: 41
2054527 CAATAACTTA
2054537 TAAATTTGCTCTTTAAACTTAATAATATTTAATATAAATGC
1 TAAATTTGCTCTTTAAACTTAATAATATTTAATATAAATGC
* * * * * **
2054578 TATA-TT--T-ATT-AA-TTAAT-GTATTTGCA-ATAACTTA
1 TAAATTTGCTCTTTAAACTTAATAATATTT-AATATAAATGC
2054612 TAAATTTGCTCTTTAAACTTAATAATATTTAATATAAATGC
1 TAAATTTGCTCTTTAAACTTAATAATATTTAATATAAATGC
2054653 TAAAT
1 TAAAT
2054658 AAAAATCACT
Statistics
Matches: 57, Mismatches: 14, Indels: 18
0.64 0.16 0.20
Matches are distributed among these distances:
34 13 0.23
35 8 0.14
36 2 0.04
37 3 0.05
38 3 0.05
39 2 0.04
40 8 0.14
41 18 0.32
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (41 bp):
TAAATTTGCTCTTTAAACTTAATAATATTTAATATAAATGC
Found at i:2057538 original size:25 final size:25
Alignment explanation
Indices: 2057489--2057538 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2057479 AGTTTTGCAT
* *
2057489 GTCATGTTTTTATTATTATATTTAA
1 GTCATGTTTGTATCATTATATTTAA
2057514 GTCATGTTTGTA-CATTATATGTTAA
1 GTCATGTTTGTATCATTATAT-TTAA
2057539 TATGTGTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (25 bp):
GTCATGTTTGTATCATTATATTTAA
Found at i:2058663 original size:17 final size:17
Alignment explanation
Indices: 2058641--2058689 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 17
2058631 TTGCTTTGTA
2058641 ATAATAATATTTATAAT
1 ATAATAATATTTATAAT
*
2058658 ATAATATTA-TTAT-AT
1 ATAATAATATTTATAAT
* *
2058673 ATAA-CATATATATAAT
1 ATAATAATATTTATAAT
2058689 A
1 A
2058690 AACGTCACTC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 2 0.08
15 9 0.35
16 7 0.27
17 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAATAATATTTATAAT
Found at i:2061743 original size:2 final size:2
Alignment explanation
Indices: 2061736--2061782 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2061726 GTTTACATTC
2061736 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2061778 TA TA T
1 TA TA T
2061783 TAATGACCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2067980 original size:32 final size:32
Alignment explanation
Indices: 2067941--2068019 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
2067931 GGTGAACTTG
*
2067941 GGTAGGCTCTAAGGCCCCAAGGCATTTCCTTA
1 GGTAGGCTCTAAGGCCCCAAGGCACTTCCTTA
* * *
2067973 GGTAGGCTATAACGCCCCAAGGTACTTCCTTA
1 GGTAGGCTCTAAGGCCCCAAGGCACTTCCTTA
* *
2068005 GGTAGACTCTTAGGC
1 GGTAGGCTCTAAGGC
2068020 TTTAATGTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (32 bp):
GGTAGGCTCTAAGGCCCCAAGGCACTTCCTTA
Found at i:2069434 original size:81 final size:81
Alignment explanation
Indices: 2069223--2069435 Score: 277
Period size: 81 Copynumber: 2.6 Consensus size: 81
2069213 CATTTAACTT
* * * ** *
2069223 TTCATCTAACTTGCATGATTGACA-CTCATCTGCCAAATGCACAACTAGGCCATGTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCT-TTCTATCAAATGCACAGCTAGGCCATGTATCTTTTAC
**
2069287 TCAACGGTCTTTAACCG
65 TCAACAATCTTTAACCG
* * *
2069304 TTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGCACCGCTAGGCCACT-TATTTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCCA-TGTATCTTTTAC
*
2069368 TCAACAATCTTTAATCG
65 TCAACAATCTTTAACCG
*
2069385 TTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGTTAGGCC
1 TTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCC
2069436 TCAAAGACAC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 113 0.97
82 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGCTAGGCCATGTATCTTTTACT
CAACAATCTTTAACCG
Found at i:2069509 original size:19 final size:19
Alignment explanation
Indices: 2069485--2069532 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
2069475 TACATTTCTG
*
2069485 TCAAATGCACAGTTAGGCC
1 TCAAATGCACAGTTAAGCC
*
2069504 TCAAATGCACAGTTAAGTC
1 TCAAATGCACAGTTAAGCC
*
2069523 TCAAAGGCAC
1 TCAAATGCAC
2069533 TTAGCCTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (19 bp):
TCAAATGCACAGTTAAGCC
Found at i:2069571 original size:87 final size:87
Alignment explanation
Indices: 2069417--2069600 Score: 298
Period size: 87 Copynumber: 2.1 Consensus size: 87
2069407 CACCTTTCTA
* *
2069417 TCAAATGCACAGTTAGGCCTCAAAGACACTTAGCATTTCATCTAACTGGCATAATTGATACATTT
1 TCAAATGCACAGTTAAGCCTCAAAGACACTTAGCATTTCATCTAACTGGCATAATTGACACATTT
2069482 CTGTCAAATGCACAGTTAGGCC
66 CTGTCAAATGCACAGTTAGGCC
* * *
2069504 TCAAATGCACAGTTAAGTCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCA-T
1 TCAAATGCACAGTTAAGCCTCAAAGACACTTAGCATTTCATCTAACTGGCATAATTGACA-CATT
2069568 TCTGTCAAATGCACAGTTAGGCC
65 TCTGTCAAATGCACAGTTAGGCC
*
2069591 TCAAAGGCAC
1 TCAAATGCAC
2069601 TTAGCCTTTC
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 88 0.98
88 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (87 bp):
TCAAATGCACAGTTAAGCCTCAAAGACACTTAGCATTTCATCTAACTGGCATAATTGACACATTT
CTGTCAAATGCACAGTTAGGCC
Found at i:2069613 original size:68 final size:68
Alignment explanation
Indices: 2069504--2069677 Score: 285
Period size: 68 Copynumber: 2.6 Consensus size: 68
2069494 CAGTTAGGCC
* * *
2069504 TCAAATGCACAGTTAAGTCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCATT
1 TCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGACACCATT
2069569 CTG
66 CTG
* *
2069572 TCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGACATCTTT
1 TCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGACACCATT
2069637 CTG
66 CTG
* *
2069640 TCAAATGCACAATTAGGCCTCACAGGCACTTAGCCTTT
1 TCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTT
2069678 TAATCTTTTA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 99 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (68 bp):
TCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAATTGACACCATT
CTG
Found at i:2071652 original size:21 final size:21
Alignment explanation
Indices: 2071627--2071667 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2071617 ATTTGTTTTC
*
2071627 CATTCCTACTAACCGTTTTGT
1 CATTCCTACTAACCCTTTTGT
2071648 CATTCCTACTAACCCTTTTG
1 CATTCCTACTAACCCTTTTG
2071668 CAGCCGACGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.32, G:0.07, T:0.41
Consensus pattern (21 bp):
CATTCCTACTAACCCTTTTGT
Found at i:2075719 original size:68 final size:68
Alignment explanation
Indices: 2075605--2075786 Score: 276
Period size: 68 Copynumber: 2.7 Consensus size: 68
2075595 CATCCAAGTG
* * *
2075605 CCTTT-TTGTCAAATGCATAGTTAGGCCTCAAAGGCACATAGTCTTTCATCTAACTGGCATAATT
1 CCTTTCTT-TCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATT
2075669 GACA
65 GACA
*
2075673 CCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGACACTTAGCCTTTCATCTAACTGGCATAATTG
1 CCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTG
2075738 ACA
66 ACA
* * * *
2075741 GCTTTCTGTCAAATGCACAGTTAGGCCACACAGGCACTTAGCCTTT
1 CCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTT
2075787 TAATCTTTTA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
68 102 0.98
69 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (68 bp):
CCTTTCTTTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTG
ACA
Found at i:2076122 original size:55 final size:55
Alignment explanation
Indices: 2076010--2076147 Score: 206
Period size: 55 Copynumber: 2.5 Consensus size: 55
2076000 ACGAAAACTA
* * * *
2076010 ATACACTTAGTATGAAGTTCTTAG-TTTGTACACATAGTGCCCATACGGAAATTC
1 ATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACCGAAATTC
*
2076064 ATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCTCATACCGAAATTC
1 ATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACCGAAATTC
*
2076119 ATACACTTAGTATGGATTTCTTAAGTTTT
1 ATACACTTAGTATGAATTTCTT-AGTTTT
2076148 TGCATGCTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
54 23 0.30
55 47 0.62
56 6 0.08
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (55 bp):
ATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACCGAAATTC
Found at i:2076543 original size:19 final size:21
Alignment explanation
Indices: 2076499--2076550 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
2076489 CTCCCATCAT
*
2076499 GGTATCGATACTACTATGCTAT
1 GGTATCGATACTACTAT-CTAC
2076521 GGTATCGATACT-CTAT-TAC
1 GGTATCGATACTACTATCTAC
*
2076540 GGTACCGATAC
1 GGTATCGATAC
2076551 CATTTTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.43
21 4 0.14
22 12 0.43
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
GGTATCGATACTACTATCTAC
Found at i:2078193 original size:16 final size:16
Alignment explanation
Indices: 2078172--2078206 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2078162 TTGAGTATCT
*
2078172 ATCACATTAACCGGAC
1 ATCACATTAACCAGAC
2078188 ATCACATTAACCAGAC
1 ATCACATTAACCAGAC
2078204 ATC
1 ATC
2078207 TTTTTCTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.20
Consensus pattern (16 bp):
ATCACATTAACCAGAC
Found at i:2080155 original size:2 final size:2
Alignment explanation
Indices: 2080148--2080182 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2080138 TATCAATCCT
2080148 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
2080183 CCCCAATTAT
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:2080601 original size:81 final size:79
Alignment explanation
Indices: 2080512--2080715 Score: 291
Period size: 81 Copynumber: 2.5 Consensus size: 79
2080502 CATTTAATTT
* * * *
2080512 TTCATCTAACTTGCATGATTGACACTCTTCTGCCAAATGCACAGCAATGCCATGTATATTTTACT
1 TTCATCTAACTGGCATAATTGACAC-CTTCTGTCAAATGCACA-CAAGGCCATGTATATTTTACT
*
2080577 CAACGGTCTTTAACCG
64 CAACAGTCTTTAACCG
* *
2080593 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACCACTAGGCCATTTATATTTTACT
1 TTCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCA-CACAAGGCCATGTATATTTTACT
*
2080658 CAACAGTTTTTAACCG
64 CAACAGTCTTTAACCG
*
2080674 CTCATCTAACTGGCATAATTGACACCTTCTGTCAAATGCACA
1 TTCATCTAACTGGCATAATTGACACCTTCTGTCAAATGCACA
2080716 ATTAGGTCTC
Statistics
Matches: 112, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
79 2 0.02
80 15 0.13
81 93 0.83
82 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (79 bp):
TTCATCTAACTGGCATAATTGACACCTTCTGTCAAATGCACACAAGGCCATGTATATTTTACTCA
ACAGTCTTTAACCG
Found at i:2080922 original size:68 final size:68
Alignment explanation
Indices: 2080675--2081198 Score: 773
Period size: 68 Copynumber: 7.7 Consensus size: 68
2080665 TTTTAACCGC
* * * *
2080675 TCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCACAATTAGGTCTCAAAAGCACTTAGT
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
2080739 CTT
66 CTT
* * *
2080742 TCATTTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTGGGCCTCTCAAAGGTACTTA
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGG-C-CTCAAAGGCACTTA
2080807 GCCTT
64 GCCTT
* * * *
2080812 TCATCTAACTGTCATAATTGATACC-TTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAGT
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
2080876 CTT
66 CTT
* * *
2080879 TCATCTAACTGGCATAATTGACACCTATCTGTCAAATGCATAGTTAGGCCTTAAAGGCACTTAGC
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
2080944 CTT
66 CTT
* * *
2080947 TCATCTAACTGGCATAATTAACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAATGCACTTAGT
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
2081012 CTT
66 CTT
* * *
2081015 TCATTTAACTGGCATAATTGACAGCTTTCTGTCAAATACACAGTTAGGCCTCAAAGGCACTTAGC
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
2081080 CTT
66 CTT
* * *
2081083 TCATCTAACTGGCATAATTGACACCATTCTGTCAAATGCATAGTTAGGCCTCAAAGACACTTAGC
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
2081148 CTT
66 CTT
* ** *
2081151 TCCTCTAACTTACATAATTGACACCTTTCTGTTAAATGCACAGTTAGG
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGG
2081199 TCATTTAATC
Statistics
Matches: 410, Mismatches: 43, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
67 64 0.16
68 288 0.70
69 20 0.05
70 38 0.09
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (68 bp):
TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
CTT
Found at i:2081479 original size:54 final size:54
Alignment explanation
Indices: 2081412--2081563 Score: 198
Period size: 55 Copynumber: 2.8 Consensus size: 54
2081402 ACATATATTT
* * *
2081412 CCTATACGGAAATTAATACACTTAGTATGGAGTTCTTAGTTT-GCACACATAGTG
1 CCTATAC-GAAATTCATACACTTAGTATGGATTTCTTAGTTTCGCACACAAAGTG
* *
2081466 CCTATACGAAAATTCATACACTTAGTATGAATTTCTTAATTTCGCACACAAAGTG
1 CCTATACG-AAATTCATACACTTAGTATGGATTTCTTAGTTTCGCACACAAAGTG
* *
2081521 CCAATACCGAAATTCATACACTTAATATGGATTTCTTAAGTTT
1 CCTATA-CGAAATTCATACACTTAGTATGGATTTCTT-AGTTT
2081564 TTGCACGCTT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
53 1 0.01
54 36 0.42
55 42 0.49
56 6 0.07
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (54 bp):
CCTATACGAAATTCATACACTTAGTATGGATTTCTTAGTTTCGCACACAAAGTG
Found at i:2081966 original size:19 final size:21
Alignment explanation
Indices: 2081922--2081973 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
2081912 CCCCCATCAT
*
2081922 GGTATCGATACTACTATGCTAT
1 GGTATCGATACTACTAT-CTAC
2081944 GGTATCGATACTA-TAT-TAC
1 GGTATCGATACTACTATCTAC
*
2081963 GGTACCGATAC
1 GGTATCGATAC
2081974 CATTTTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.43
21 3 0.11
22 13 0.46
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
GGTATCGATACTACTATCTAC
Found at i:2084323 original size:20 final size:21
Alignment explanation
Indices: 2084282--2084333 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2084272 ATAATTATTT
*
2084282 AAAAAATTAAATAAAAATATC
1 AAAAAATTTAATAAAAATATC
2084303 AAAAATATTTAAT-AAAA-ATC
1 AAAAA-ATTTAATAAAAATATC
2084323 AAAAAAATTTA
1 -AAAAAATTTA
2084334 GGCTGAACCG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.29
21 14 0.50
22 6 0.21
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAATTTAATAAAAATATC
Found at i:2085358 original size:112 final size:110
Alignment explanation
Indices: 2085031--2085594 Score: 784
Period size: 111 Copynumber: 5.1 Consensus size: 110
2085021 TTGTCGGTTT
* * * * * *
2085031 GTGTCAATACTTTATAAAAATATATTGATCCCTAATAATATAATAGGTAAAAAATGACAAAATCA
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAATGACAAAA-CC
2085096 GTCTATAAAATGACAAAACAGGTAAAGCGCTACCAGATATATT-AAA
65 GTCTAT-AAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* * * * *
2085142 GTGTCGATATTTTATAAAAATATATTGATCCATAACAAAAAAACAGGTAAAAAATAACAAAATCC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAATGACAAAA-CC
* * *
2085207 GTCTATAAATGACCAAACATGTAAAGCGCTACCGGATATATTGAAA
65 GTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
*
2085253 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATGACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
*
2085318 GGTCTATAAATGACAAAACATGTAAAGCGCTACCAGATATATTGAAA
65 -GTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* * * *
2085365 GTGTCGATACTTTATAAAAATGTATAGATCCATAACAATATATCATGTAAAAAAATGAC-AAA--
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
*
2085427 ----ATAAATGAAAAAACAGGTAAAGCGCTACCAGATATATTGAAA
65 GTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* *
2085469 GTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACC-
* *
2085534 GTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATA
65 GTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
2085580 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
2085595 TATAAGTATC
Statistics
Matches: 407, Mismatches: 35, Indels: 22
0.88 0.08 0.05
Matches are distributed among these distances:
103 10 0.02
104 87 0.21
110 33 0.08
111 166 0.41
112 111 0.27
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (110 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
TCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
Found at i:2085785 original size:182 final size:182
Alignment explanation
Indices: 2085466--2085920 Score: 689
Period size: 182 Copynumber: 2.5 Consensus size: 182
2085456 AGATATATTG
*
2085466 AAAGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA-ATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* ** ** * *
2085530 ACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGATAGTGTCGATACTTTAT
66 ATCGGTCTCGAAATGACAAAACAGGTAAAGAACTACCAGATATGTTGAAAGTGTCGATACTTTAA
*
2085595 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGAG-CTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGAGTC-AAT
2085647 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * * *
2085712 ATCGGTCTCGAAATGACAAAACTGGTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTAA
66 ATCGGTCTCGAAATGACAAAACAGGTAAAGAACTACCAGATATGTTGAAAGTGTCGATACTTTAA
* *
2085777 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAATAAGTTATAGCGTCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGAGTCAAT
* * ** *
2085829 AAAGTGTCGATATTTTATAAAAATTTATTAATCCATAACAATATAACTGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
2085894 ATCGGTCTCGAAATAACAAAACCGGTA
66 ATCGGTCTCGAAATGACAAAACAGGTA
2085921 GTAAAAAAGT
Statistics
Matches: 250, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
181 55 0.22
182 194 0.78
183 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ATCGGTCTCGAAATGACAAAACAGGTAAAGAACTACCAGATATGTTGAAAGTGTCGATACTTTAA
TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGAGTCAAT
Found at i:2087416 original size:2 final size:2
Alignment explanation
Indices: 2087409--2087449 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2087399 TGAAAATGAC
2087409 AT AT AT AT AT 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 AT AT AT AT AT A
2087450 ATCTAACTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2092975 original size:189 final size:190
Alignment explanation
Indices: 2092654--2093027 Score: 669
Period size: 189 Copynumber: 2.0 Consensus size: 190
2092644 GGTTGATTTG
*
2092654 GTAAAATCAAAGGATAACATTGTAGATTTGCTAATCAAAGGGTTAAATCAAGATCAAGTTGAGAA
1 GTAAAATCAAAGGATAACATTATAGATTTGCTAATCAAAGGGTTAAATCAAGATCAAGTTGAGAA
* *
2092719 AACATCTAAAGGACTTGGACTAAAGCCCCTGAAATTTAAAGGCTCTATGTGAAGGAAAACCCTAC
66 AACATCTAAAGGAATTGGACTAAAGCCCATGAAATTTAAAGGCTCTATGTGAAGGAAAACCCTAC
*
2092784 CTTGTTGATTAGAGATCCCAATATCTAGGATCAAAGAAACAACCTAATTGCATAACCTGT
131 CTTGTTGATTAGAGATCCCAAGATCTAGGATCAAAGAAACAACCTAATTGCATAACCTGT
* *
2092844 GTAAAATCAAAGTATAACATTATAGATTTGCTAATCAAAGGGTTAAATCGAGATCAAGTTGAG-A
1 GTAAAATCAAAGGATAACATTATAGATTTGCTAATCAAAGGGTTAAATCAAGATCAAGTTGAGAA
2092908 AACATCTAAAGGAATTGGACTAAAGCCCATGAAATTTAAAGGCTCTATGTGAAGGAAAACCCTAC
66 AACATCTAAAGGAATTGGACTAAAGCCCATGAAATTTAAAGGCTCTATGTGAAGGAAAACCCTAC
* *
2092973 CTTGTTGATTAGAGATCCCAAGATCTAGGTTCAAAGAACCAACCTAATTGCATAA
131 CTTGTTGATTAGAGATCCCAAGATCTAGGATCAAAGAAACAACCTAATTGCATAA
2093028 ATTGTGTACG
Statistics
Matches: 176, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
189 116 0.66
190 60 0.34
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (190 bp):
GTAAAATCAAAGGATAACATTATAGATTTGCTAATCAAAGGGTTAAATCAAGATCAAGTTGAGAA
AACATCTAAAGGAATTGGACTAAAGCCCATGAAATTTAAAGGCTCTATGTGAAGGAAAACCCTAC
CTTGTTGATTAGAGATCCCAAGATCTAGGATCAAAGAAACAACCTAATTGCATAACCTGT
Found at i:2116620 original size:28 final size:27
Alignment explanation
Indices: 2116588--2116642 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
2116578 TTCCACGTGA
2116588 CATTAATATTAATATCATTCAACTAATT
1 CATTAATATTAATATC-TTCAACTAATT
* * * *
2116616 CATTATTTTTAGTATCTTCTACTAATT
1 CATTAATATTAATATCTTCAACTAATT
2116643 TGGTAGGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.49
Consensus pattern (27 bp):
CATTAATATTAATATCTTCAACTAATT
Found at i:2123011 original size:15 final size:15
Alignment explanation
Indices: 2122991--2123044 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
2122981 ATCAATAAAA
2122991 AATAATTTATTATTT
1 AATAATTTATTATTT
2123006 AATAATTTA-T-TTT
1 AATAATTTATTATTT
*
2123019 AATAATTTATTACTT
1 AATAATTTATTATTT
2123034 AATAATTTATT
1 AATAATTTATT
2123045 TTAAATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
13 12 0.33
14 2 0.06
15 22 0.61
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
AATAATTTATTATTT
Found at i:2123058 original size:28 final size:28
Alignment explanation
Indices: 2122991--2123048 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
2122981 ATCAATAAAA
*
2122991 AATAATTTATTATTTAATAATTTATTTT
1 AATAATTTATTACTTAATAATTTATTTT
2123019 AATAATTTATTACTTAATAATTTATTTT
1 AATAATTTATTACTTAATAATTTATTTT
2123047 AA
1 AA
2123049 ATTTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
AATAATTTATTACTTAATAATTTATTTT
Found at i:2124184 original size:300 final size:297
Alignment explanation
Indices: 2123624--2124220 Score: 1110
Period size: 300 Copynumber: 2.0 Consensus size: 297
2123614 CTGCTAGATC
2123624 AGTATTGCAATGTTTTGCATTTTACTCCTTTTCTTCTTCTAGGATTATTTTCTATGAAACTCATT
1 AGTATTGCAATGTTTTGCATTTTACTCCTTTTCTTCTTCTAGGATTATTTTCTATGAAACTCATT
2123689 CAAAATCAATGAAATTAAACAAAAAAACTATCATTTTGGATTCGGGGAAATTAAATTTGAGGATT
66 CAAAATCAATGAAATTAAACAAAAAAACTATCATTTTGGATTCGGGGAAATTAAATTTGAGGATT
2123754 TGATGTATTTGTTCGAATATTCGATAATCATCATTTCGAGAAGACAAATAACATACTTCAAAACT
131 TGATGTATTTGTTCGAATATTCGATAATCATCATTTCGAGAAGACAAATAACATACTTCAAAACT
*
2123819 AGCCTCACCGGACGATCATAGTAAGATCAAAGTATTACCTGTCAAACTTTTAAAACGATTTTTTC
196 AGCCTCACCGGACGATCATAGTAAGATCAAAGTATTACATGTCAAACTTTTAAAACGATTTTTTC
2123884 GTTAATTTTGTGAAAACCCAATCCTAGAAGTAAAAAA
261 GTTAATTTTGTGAAAACCCAATCCTAGAAGTAAAAAA
2123921 AGTATTGCAATGTTTTGCATTTTACTCCTTTTCTTCTTCTAGGATTATTTTCTATGAAACTCATT
1 AGTATTGCAATGTTTTGCATTTTACTCCTTTTCTTCTTCTAGGATTATTTTCTATGAAACTCATT
2123986 CAAAATCAATGAAATTAAACAAAAAAACTATCATTTTTAGGATTCGGGGAAATTAAATTTGAGGG
66 CAAAATCAATGAAATTAAACAAAAAAACTATCA-TTTT-GGATTCGGGGAAATTAAATTTGA-GG
2124051 ATTTGATGTATTTGTTCGAATATTCGATAATCATCATTTCGAGAAGACAAATAACATACTTCAAA
128 ATTTGATGTATTTGTTCGAATATTCGATAATCATCATTTCGAGAAGACAAATAACATACTTCAAA
2124116 ACTAGCCTCACCGGACGATCATAGTAAGAGATCAAAGTATTAGCATGTC-AACTTTT-AAACGA-
193 ACTAGCCTCACCGGACGATCATAGT-A-AGATCAAAGTATTA-CATGTCAAACTTTTAAAACGAT
2124178 TTTTTCGTTAATTTTGTGAAAACCCAATCCTAGAAGTAAAAAA
255 TTTTTCGTTAATTTTGTGAAAACCCAATCCTAGAAGTAAAAAA
2124221 GAAGAGTGAA
Statistics
Matches: 293, Mismatches: 1, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
297 98 0.33
298 4 0.01
299 23 0.08
300 135 0.46
301 7 0.02
302 21 0.07
303 5 0.02
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (297 bp):
AGTATTGCAATGTTTTGCATTTTACTCCTTTTCTTCTTCTAGGATTATTTTCTATGAAACTCATT
CAAAATCAATGAAATTAAACAAAAAAACTATCATTTTGGATTCGGGGAAATTAAATTTGAGGATT
TGATGTATTTGTTCGAATATTCGATAATCATCATTTCGAGAAGACAAATAACATACTTCAAAACT
AGCCTCACCGGACGATCATAGTAAGATCAAAGTATTACATGTCAAACTTTTAAAACGATTTTTTC
GTTAATTTTGTGAAAACCCAATCCTAGAAGTAAAAAA
Found at i:2126042 original size:16 final size:17
Alignment explanation
Indices: 2126010--2126043 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2126000 AGTTATATAT
2126010 TATAATTATAAAAAATA
1 TATAATTATAAAAAATA
*
2126027 TATAATT-TAAAGAATA
1 TATAATTATAAAAAATA
2126043 T
1 T
2126044 TATACAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TATAATTATAAAAAATA
Found at i:2126047 original size:17 final size:18
Alignment explanation
Indices: 2126006--2126047 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
2125996 TATAAGTTAT
2126006 ATATTATAATTATAAAAA
1 ATATTATAATTATAAAAA
*
2126024 ATA-TATAATT-TAAAGA
1 ATATTATAATTATAAAAA
2126040 ATATTATA
1 ATATTATA
2126048 CAATTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 11 0.50
18 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATTATAATTATAAAAA
Done.