Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_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: 4069050
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 20
Found at i:1906163 original size:24 final size:24
Alignment explanation
Indices: 1906136--1906190 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1906126 TTTTTATGAT
* * *
1906136 TAAAATAAATA-TTTCATAGTAATA
1 TAAAATAAACATTTTAATA-TAAGA
1906160 TAAAATAAACATTTTAATATAAGA
1 TAAAATAAACATTTTAATATAAGA
1906184 TAAAATA
1 TAAAATA
1906191 TGTCCAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (24 bp):
TAAAATAAACATTTTAATATAAGA
Found at i:1907428 original size:2 final size:2
Alignment explanation
Indices: 1907421--1907461 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1907411 TGATTCCCAT
1907421 TA TA TA 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 TA TA TA T
1907462 TTGTTTTTAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1913516 original size:24 final size:24
Alignment explanation
Indices: 1913489--1913543 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1913479 TTTTTATGAT
* *
1913489 TAAAATAAATATTTC-ATAGTAATA
1 TAAAATAAACATTTCAAT-GTAAGA
*
1913513 TAAAATAAACATTTTAATGTAAGA
1 TAAAATAAACATTTCAATGTAAGA
1913537 TAAAATA
1 TAAAATA
1913544 TGTCCAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (24 bp):
TAAAATAAACATTTCAATGTAAGA
Found at i:1915478 original size:2 final size:2
Alignment explanation
Indices: 1915473--1915502 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1915463 TTTTGTTTTA
1915473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1915503 TTAAAATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1919015 original size:11 final size:11
Alignment explanation
Indices: 1918963--1919029 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
1918953 AAAACGTGTA
1918963 TTTATTTTTAT
1 TTTATTTTTAT
* **
1918974 GTTATTCAT-T
1 TTTATTTTTAT
1918984 TTTATTATTTAAT
1 TTTATT-TTT-AT
**
1918997 AATATTTTTAT
1 TTTATTTTTAT
1919008 TTTATTTTTAT
1 TTTATTTTTAT
*
1919019 CTTATTTTTAT
1 TTTATTTTTAT
1919030 CGTCTCATAT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
10 6 0.14
11 28 0.67
12 3 0.07
13 5 0.12
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:1921016 original size:15 final size:15
Alignment explanation
Indices: 1920996--1921042 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
1920986 CAAATTTTTA
1920996 AAAAATATATAAACT
1 AAAAATATATAAACT
1921011 AAAAATA-ATTAAA-T
1 AAAAATATA-TAAACT
* *
1921025 TATAATATATAAACT
1 AAAAATATATAAACT
1921040 AAA
1 AAA
1921043 TCTATAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAATATATAAACT
Found at i:1922340 original size:17 final size:18
Alignment explanation
Indices: 1922303--1922346 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1922293 TTTCTGAGGA
1922303 AATTGGAATCTGTGAAGG
1 AATTGGAATCTGTGAAGG
* *
1922321 AATTGTAATCTGT-TAGG
1 AATTGGAATCTGTGAAGG
1922338 AATTGGAAT
1 AATTGGAAT
1922347 TTGAATCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (18 bp):
AATTGGAATCTGTGAAGG
Found at i:1922627 original size:20 final size:20
Alignment explanation
Indices: 1922602--1922655 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1922592 GTCTGGCAAT
*
1922602 GAACCGGTTGAAAACCGGTA
1 GAACCGGTTGAAAACCGGCA
*
1922622 GAACCGGCTGAAAACCGGCA
1 GAACCGGTTGAAAACCGGCA
*
1922642 AAACCGGTTTGAAA
1 GAACCGG-TTGAAA
1922656 CGTCGGTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.37, C:0.22, G:0.28, T:0.13
Consensus pattern (20 bp):
GAACCGGTTGAAAACCGGCA
Found at i:1923930 original size:20 final size:20
Alignment explanation
Indices: 1923905--1923946 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1923895 CAATGAAGAT
1923905 AAATAAACGAAATAAAAATA
1 AAATAAACGAAATAAAAATA
*
1923925 AAATAAAGGAAATAAAAATA
1 AAATAAACGAAATAAAAATA
1923945 AA
1 AA
1923947 TGAAAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.14
Consensus pattern (20 bp):
AAATAAACGAAATAAAAATA
Found at i:1923952 original size:10 final size:10
Alignment explanation
Indices: 1923914--1924063 Score: 57
Period size: 10 Copynumber: 14.8 Consensus size: 10
1923904 TAAATAAACG
1923914 AAATAAAAAT
1 AAATAAAAAT
**
1923924 AAA-ATAAAGG
1 AAATA-AAAAT
1923934 AAATAAAAAT
1 AAATAAAAAT
1923944 AAATGAAAAA-
1 AAAT-AAAAAT
*
1923954 AGGAAAAAAAGAT
1 A--AATAAAA-AT
*
1923967 AAA-GAAAAT
1 AAATAAAAAT
*
1923976 ACATAAAAAT
1 AAATAAAAAT
*
1923986 AAAATAAAGAT
1 -AAATAAAAAT
1923997 AAA-AACTAAAT
1 AAATAA--AAAT
*
1924008 AAA-ATAAAT
1 AAATAAAAAT
1924017 AACATAAAAA-
1 AA-ATAAAAAT
1924027 ACAA-AAGAAAT
1 A-AATAA-AAAT
1924038 -AA-AAAAAT
1 AAATAAAAAT
* *
1924046 GAAGAAAAAT
1 AAATAAAAAT
1924056 AAATAAAA
1 AAATAAAA
1924064 TAACCAAAAT
Statistics
Matches: 107, Mismatches: 15, Indels: 36
0.68 0.09 0.23
Matches are distributed among these distances:
8 4 0.04
9 21 0.20
10 46 0.43
11 32 0.30
12 3 0.03
13 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:1923974 original size:20 final size:19
Alignment explanation
Indices: 1923886--1923994 Score: 69
Period size: 19 Copynumber: 5.4 Consensus size: 19
1923876 GCATGTTAGA
* * *
1923886 AAAAAAAGGCAATGAAGAT
1 AAAAAAAGGAAATAAAAAT
* *
1923905 AAATAAACGAAATAAAAAT
1 AAAAAAAGGAAATAAAAAT
1923924 AAAATAAAGGAAATAAAAAT
1 AAAA-AAAGGAAATAAAAAT
1923944 AAATGAAAAAAGGAAA-AAAAGAT
1 --A--AAAAAAGGAAATAAAA-AT
* *
1923967 AAAGAAAA-TACATAAAAAT
1 AAA-AAAAGGAAATAAAAAT
1923986 AAAATAAAG
1 AAAA-AAAG
1923995 ATAAAAACTA
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
18 1 0.01
19 29 0.41
20 22 0.31
21 1 0.01
22 5 0.07
23 10 0.14
24 3 0.04
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.13
Consensus pattern (19 bp):
AAAAAAAGGAAATAAAAAT
Found at i:1923991 original size:5 final size:5
Alignment explanation
Indices: 1923981--1924124 Score: 52
Period size: 5 Copynumber: 28.2 Consensus size: 5
1923971 AAAATACATA
*
1923981 AAAAT AAAAT AAAGAT AAAA- ACTAAAT AAAAT -AAAT AACAT AAAA-
1 AAAAT AAAAT AAA-AT AAAAT A--AAAT AAAAT AAAAT AAAAT AAAAT
* * **
1924026 AACAAA AGAAAT -AAA- AAAAT GAAGA- AAAAT -AAAT AAAAT -AACC
1 AA-AAT A-AAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
** * *
1924069 AAAAT AAAGAT AACGAGC AAAAT AAAAT AAAAAT AAGAAT AAAAG AAAAG
1 AAAAT AAA-AT AA--AAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT
1924119 AAAAT A
1 AAAAT A
1924125 CTAATAATTG
Statistics
Matches: 105, Mismatches: 15, Indels: 38
0.66 0.09 0.24
Matches are distributed among these distances:
4 22 0.21
5 50 0.48
6 28 0.27
7 4 0.04
8 1 0.01
ACGTcount: A:0.74, C:0.05, G:0.07, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:1924017 original size:9 final size:8
Alignment explanation
Indices: 1923958--1924076 Score: 69
Period size: 9 Copynumber: 13.4 Consensus size: 8
1923948 GAAAAAAGGA
1923958 AAAAAAGAT
1 AAAAAA-AT
1923967 AAAGAAAAT
1 AAA-AAAAT
1923976 ACATAAAAAT
1 A-A-AAAAAT
*
1923986 AAAATAAAG
1 AAAA-AAAT
*
1923995 ATAAAAACT
1 A-AAAAAAT
1924004 AAATAAAAT
1 AAA-AAAAT
*
1924013 AAATAACAT
1 AAA-AAAAT
1924022 AAAAAACA-
1 AAAAAA-AT
*
1924030 AAAGAAAT
1 AAAAAAAT
1924038 AAAAAAAT
1 AAAAAAAT
1924046 GAAGAAAAAT
1 -AA-AAAAAT
1924056 AAATAAAAT
1 AAA-AAAAT
*
1924065 AACCAAAAT
1 AA-AAAAAT
1924074 AAA
1 AAA
1924077 GATAACGAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
7 1 0.01
8 19 0.22
9 48 0.55
10 19 0.22
11 1 0.01
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (8 bp):
AAAAAAAT
Found at i:1924967 original size:26 final size:26
Alignment explanation
Indices: 1924931--1924994 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
1924921 AAAAGATTGT
1924931 AACCAAACTAACATAGGTTGGTCGTG
1 AACCAAACTAACATAGGTTGGTCGTG
1924957 AACCAAACTAACATAGGTTGGTCGTG
1 AACCAAACTAACATAGGTTGGTCGTG
*
1924983 AACCAACCTAAC
1 AACCAAACTAAC
1924995 CAATAAAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (26 bp):
AACCAAACTAACATAGGTTGGTCGTG
Found at i:1931460 original size:105 final size:107
Alignment explanation
Indices: 1931246--1931523 Score: 337
Period size: 105 Copynumber: 2.6 Consensus size: 107
1931236 GCATTGGATT
* * * * *
1931246 GAACAAGTTTTTCTCATTATGAACGTCTTCTTCCTCGTTGGATGAGTTCATCTTATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAAC-T-TTCTTCCT-TTTGGACGAGTTCTTCTCATTATGAACTC
* *
1931311 TTCATTGGAAATACTGATCCACTTTCTTCTGTGATGGACTTGAAAG
63 TTCA-TGGAAATACTGATCCACCTTCTTCTGTGATGAACTTGAAAG
*
1931357 GAACAAGTTCTTCTCATTATGAACTTTC-TCCTTTTGGACGAATTCTTCTCATTATGAACTCTTC
1 GAACAAGTTCTTCTCATTATGAACTTTCTTCCTTTTGGACGAGTTCTTCTCATTATGAACTCTTC
** * * * *
1931421 -TGGAAATGTTGGTTCACCTTCTTCTGTGGTGAATTTGAAAG
66 ATGGAAATACTGATCCACCTTCTTCTGTGATGAACTTGAAAG
* * * *
1931462 GAACAAGTTCTTATTATTATGAACTTTCTTCC-TTAGGACGAGTTCTTCTCATTATGATCTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTTCCTTTTGGACGAGTTCTTCTCATTATGAACTCT
1931524 CCATTAGAAA
Statistics
Matches: 147, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
105 86 0.59
106 3 0.02
107 27 0.18
108 4 0.03
109 3 0.02
110 1 0.01
111 23 0.16
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (107 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTTCCTTTTGGACGAGTTCTTCTCATTATGAACTCTTC
ATGGAAATACTGATCCACCTTCTTCTGTGATGAACTTGAAAG
Found at i:1931745 original size:136 final size:135
Alignment explanation
Indices: 1931501--1931808 Score: 517
Period size: 136 Copynumber: 2.3 Consensus size: 135
1931491 TCCTTAGGAC
* * *
1931501 GAGTTCTTCTCATTATGATCTCTCCATTAGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTC
* * * *
1931566 GAAATGCCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTGTTCTCCCTCTG
66 AAAATGCCGTGAATCGAGTGATAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTCCAT-TG
1931631 TTGGAT
130 TTGGAT
1931637 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTC
* *
1931702 AAAATGCCGTGAATCGAGTGATAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTTCATTTT
66 AAAATGCCGTGAATCGAGTGATAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTCCATTGT
1931767 TGGAT
131 TGGAT
*
1931772 GAGTTCTTCTCATTCTGAACTCTCCATTGGAAATGTT
1 GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTT
1931809 GAAAACATTC
Statistics
Matches: 162, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
135 43 0.27
136 119 0.73
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (135 bp):
GAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTC
AAAATGCCGTGAATCGAGTGATAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTCCATTGT
TGGAT
Found at i:1931896 original size:41 final size:42
Alignment explanation
Indices: 1931835--1931916 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 42
1931825 AAGGTCATAT
* * *
1931835 CATCTTGCTGGAAAGGCTTACAGATGACACG-AGGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACACGAAGGATTTAAG
* *
1931876 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAA
1 CATCATGCTCGAAAGACTTACAGATGACACGAAGGATTTAA
1931917 AAATCAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 26 0.74
42 9 0.26
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGACACGAAGGATTTAAG
Found at i:1932086 original size:89 final size:90
Alignment explanation
Indices: 1931898--1932147 Score: 394
Period size: 89 Copynumber: 2.8 Consensus size: 90
1931888 AAGACTTACT
* *
1931898 GATGACCCGAAGGATTTAAAAATCAAGAAACCCCTGAAGGCTTAGTTTCTAAAATCTCATTTGAA
1 GATGACCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
1931963 AACATCCTGCACTGAAGGTCTTATA
66 AACATCCTGCACTGAAGGTCTTATA
* *
1931988 GATGTCCCGAAGGACTTAAAAATCAAGAAACCCCCAAAGGCTTAGTTT-TAAAATCTCATTTGAA
1 GATGACCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
* *
1932052 AACATCTTGCACTGAAGGTCTTATG
66 AACATCCTGCACTGAAGGTCTTATA
* * * * *
1932077 GATGGCCCGAAGGACTTACATATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATATCATTTAAA
1 GATGACCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
1932142 AACATC
66 AACATC
1932148 AAGAAACTTA
Statistics
Matches: 147, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
89 83 0.56
90 64 0.44
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (90 bp):
GATGACCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAA
AACATCCTGCACTGAAGGTCTTATA
Found at i:1932178 original size:52 final size:52
Alignment explanation
Indices: 1932117--1932238 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 52
1932107 CCCCCGAAGG
1932117 CTTAGTTTCTAAAATATCATTT-AAAAACATCAAGAAACTTATGAAAATAAGA
1 CTTAGTTTCTAAAA-ATCATTTGAAAAACATCAAGAAACTTATGAAAATAAGA
* ** * *
1932169 CTTAGTTTCTTTGAAAACTCATTTGAAAGTCATCAAGAAACTTCTGAAAATTAGA
1 CTTAGTTTC--T-AAAAATCATTTGAAAAACATCAAGAAACTTATGAAAATAAGA
*
1932224 CTTAGCTTCTAAAAA
1 CTTAGTTTCTAAAAA
1932239 CACATTAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
52 13 0.22
53 1 0.02
54 7 0.12
55 38 0.64
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (52 bp):
CTTAGTTTCTAAAAATCATTTGAAAAACATCAAGAAACTTATGAAAATAAGA
Found at i:1933500 original size:125 final size:125
Alignment explanation
Indices: 1933278--1933535 Score: 437
Period size: 125 Copynumber: 2.1 Consensus size: 125
1933268 CTTCTCTAAA
* *
1933278 GCCCCAACACTATCTTATACTAGTACGGGCCTTCAAAATGCCCCAACACCTCAAATTGTAAGGCT
1 GCCCCAATACTATCTTATACTAGTACGGGCCTTCAAAATGCACCAACACCTCAAATTGTAAGGCT
1933343 CATTCTCAATGCCTTCTTGGTATGAATCTTGTCATCTCAACACGATGATG-GTTCAGTCAT
66 CATTCTCAATGCCTTCTTGGTATGAATCTTGTCATCTCAACACGAT-ATGTGTTCAGTCAT
* * * *
1933403 GCCCCAATATTATCTTATACTGGTACGTGCCTTCAAAATGTACCAACACCTCAAATTGTAAGGCT
1 GCCCCAATACTATCTTATACTAGTACGGGCCTTCAAAATGCACCAACACCTCAAATTGTAAGGCT
*
1933468 CATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACACGATATGTGTTCAGTCAT
66 CATTCTCAATGCCTTCTTGGTATGAATCTTGTCATCTCAACACGATATGTGTTCAGTCAT
1933528 GCCCCAAT
1 GCCCCAAT
1933536 GTATATATTC
Statistics
Matches: 125, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
124 3 0.02
125 122 0.98
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (125 bp):
GCCCCAATACTATCTTATACTAGTACGGGCCTTCAAAATGCACCAACACCTCAAATTGTAAGGCT
CATTCTCAATGCCTTCTTGGTATGAATCTTGTCATCTCAACACGATATGTGTTCAGTCAT
Found at i:1942754 original size:3 final size:3
Alignment explanation
Indices: 1942746--1942770 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1942736 ATGTAATTTG
1942746 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
1942771 TACTATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1944224 original size:41 final size:42
Alignment explanation
Indices: 1944075--1944368 Score: 259
Period size: 43 Copynumber: 6.9 Consensus size: 42
1944065 ATTATCGACA
* * * * *
1944075 TTTGTATCCAAAAACGACGCTATAAATTTGACCTTTTGCGACG
1 TTTGT-TCCAAAAATGCCGCTATAGATCTGACCTTTTGCGGCG
* * * *
1944118 TTTGTATCTAAAAATGCCGCTATAGGTCTGACCTTTTGTGGTG
1 TTTGT-TCCAAAAATGCCGCTATAGATCTGACCTTTTGCGGCG
* ** *
1944161 TTTATTCCAAAAATGCTACTATAGATCTGACCTTTTACGGCG
1 TTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTTGCGGCG
* * * ** *
1944203 TTT-TTCCAAAAACGCCGCTATAGATATAACCTTTTATGGCA
1 TTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTTGCGGCG
** *
1944244 TTT-TTGGAAAAACGCCGCTATAGATCTCGACCTTTTGCGGCG
1 TTTGTTCCAAAAATGCCGCTATAGATCT-GACCTTTTGCGGCG
* * * * *
1944286 TTTGTTCTAAAAATGCCGATTTAGATATCGACCTATTGCGGCG
1 TTTGTTCCAAAAATGCCGCTATAGATCT-GACCTTTTGCGGCG
** *
1944329 TTTGTATAAAAAAATGCCACTATAGATCTGACCTTTTGCG
1 TTTGT-TCCAAAAATGCCGCTATAGATCTGACCTTTTGCG
1944369 ACATTTTTTG
Statistics
Matches: 203, Mismatches: 45, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
41 55 0.27
42 46 0.23
43 85 0.42
44 17 0.08
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (42 bp):
TTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTTGCGGCG
Found at i:1946303 original size:3 final size:3
Alignment explanation
Indices: 1946295--1946337 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1946285 GATGGCTTTA
1946295 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1946338 CTTTTAGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1952722 original size:24 final size:24
Alignment explanation
Indices: 1952706--1952753 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1952696 TGAATTTATA
1952706 AATAAATGTTCATTTGAGAAGAAT
1 AATAAATGTTCATTTGAGAAGAAT
1952730 AATAAATGTTCATTTGAGAAGAAT
1 AATAAATGTTCATTTGAGAAGAAT
1952754 CTTGTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (24 bp):
AATAAATGTTCATTTGAGAAGAAT
Found at i:1954536 original size:86 final size:86
Alignment explanation
Indices: 1954439--1954618 Score: 360
Period size: 86 Copynumber: 2.1 Consensus size: 86
1954429 AACAAATATA
1954439 AAAAAAATCTCAAAAGGAATTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAGTTTA
1 AAAAAAATCTCAAAAGGAATTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAGTTTA
1954504 AAGATACATAAAATAAATTTT
66 AAGATACATAAAATAAATTTT
1954525 AAAAAAATCTCAAAAGGAATTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAGTTTA
1 AAAAAAATCTCAAAAGGAATTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAGTTTA
1954590 AAGATACATAAAATAAATTTT
66 AAGATACATAAAATAAATTTT
1954611 AAAAAAAT
1 AAAAAAAT
1954619 AACTCTAACC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 94 1.00
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.31
Consensus pattern (86 bp):
AAAAAAATCTCAAAAGGAATTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAGTTTA
AAGATACATAAAATAAATTTT
Found at i:1954594 original size:42 final size:42
Alignment explanation
Indices: 1954458--1954594 Score: 109
Period size: 42 Copynumber: 3.2 Consensus size: 42
1954448 TCAAAAGGAA
1954458 TTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAG
1 TTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAG
* * * *** ** * * *
1954500 TTTAAAGATACATAAAA-T--AAATTTTAAAAAAATCTCAAAAGGAA
1 TTTAAAGATTCA-AAAAGTCCTAA--CTAGTTATTTGTTAAAA--AG
1954544 TTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAG
1 TTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAG
1954586 TTTAAAGAT
1 TTTAAAGAT
1954595 ACATAAAATA
Statistics
Matches: 65, Mismatches: 22, Indels: 16
0.63 0.21 0.16
Matches are distributed among these distances:
40 2 0.03
42 31 0.48
43 8 0.12
44 22 0.34
46 2 0.03
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (42 bp):
TTTAAAGATTCAAAAAGTCCTAACTAGTTATTTGTTAAAAAG
Found at i:1954712 original size:3 final size:3
Alignment explanation
Indices: 1954704--1954770 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
1954694 AGTCTGAAAA
1954704 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1954752 TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT T
1954771 ACTCAACCTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:1955698 original size:19 final size:19
Alignment explanation
Indices: 1955634--1955708 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
1955624 ATTTCTATGT
1955634 TCGCGTTGCGAATTTGGAAA
1 TCGCGTTGCGAATTT-GAAA
* ** **
1955654 -CTGTGTTGCGAAATAGGAGT
1 TC-GCGTTGCG-AATTTGAAA
1955674 TCGCGTTGCGAATTTGAAA
1 TCGCGTTGCGAATTTGAAA
*
1955693 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1955709 TTGGTTATTT
Statistics
Matches: 41, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
19 21 0.51
20 16 0.39
21 4 0.10
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.33
Consensus pattern (19 bp):
TCGCGTTGCGAATTTGAAA
Found at i:1961215 original size:22 final size:22
Alignment explanation
Indices: 1961183--1961258 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
1961173 TAATCAGGAA
*
1961183 AGTATCGATACTGTAGCACTAG
1 AGTATCAATACTGTAGCACTAG
* *
1961205 AGTATCAATACCCG-AGCACCAG
1 AGTATCAATA-CTGTAGCACTAG
* *
1961227 AGTATCGATACTCT-GC-CTAG
1 AGTATCAATACTGTAGCACTAG
1961247 AGTATCAATACT
1 AGTATCAATACT
1961259 ACTCTACCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 14 0.32
21 3 0.07
22 25 0.57
23 2 0.05
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (22 bp):
AGTATCAATACTGTAGCACTAG
Found at i:1961334 original size:20 final size:20
Alignment explanation
Indices: 1961311--1961360 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1961301 TAACATATAG
* * *
1961311 GTATCGATACCAAAGGTTTA
1 GTATTGATACCAAAGGGTCA
*
1961331 GTATTGATACTAAAGGGTCA
1 GTATTGATACCAAAGGGTCA
1961351 GTATTGATAC
1 GTATTGATAC
1961361 ATATGGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (20 bp):
GTATTGATACCAAAGGGTCA
Found at i:1981291 original size:21 final size:21
Alignment explanation
Indices: 1981249--1981287 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1981239 TATCAAGGTC
1981249 TTTGTTGAAGCCATGAAATCT
1 TTTGTTGAAGCCATGAAATCT
1981270 TTTGTTGAAGCCAT-AAAT
1 TTTGTTGAAGCCATGAAAT
1981288 TCTTGTAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (21 bp):
TTTGTTGAAGCCATGAAATCT
Found at i:1981299 original size:21 final size:21
Alignment explanation
Indices: 1981247--1981301 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
1981237 TGTATCAAGG
1981247 TCTTT-GTTGAAGCCATGAAA
1 TCTTTAGTTGAAGCCATGAAA
*
1981267 TCTTTTGTTGAAGCCAT-AAA
1 TCTTTAGTTGAAGCCATGAAA
1981287 TTCTTGTAG-TGAAGC
1 -TCTT-TAGTTGAAGC
1981302 TTCAAGGGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 8 0.26
21 21 0.68
22 2 0.06
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (21 bp):
TCTTTAGTTGAAGCCATGAAA
Found at i:1987890 original size:32 final size:32
Alignment explanation
Indices: 1987842--1987916 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
1987832 GATTTCTATT
*
1987842 GAGTCGCATTTGGATAATGC-CTAGTCGAGTCA
1 GAGTCGTATTTGGATAATGCTC-AGTCGAGTCA
* *
1987874 GGGTCGTATTTGGATAATGCTCAGTTGAGTCA
1 GAGTCGTATTTGGATAATGCTCAGTCGAGTCA
*
1987906 GAGTCATATTT
1 GAGTCGTATTT
1987917 AGATCATACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 36 0.97
33 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (32 bp):
GAGTCGTATTTGGATAATGCTCAGTCGAGTCA
Found at i:1991232 original size:15 final size:15
Alignment explanation
Indices: 1991209--1991244 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1991199 TTGAGGTATC
1991209 GGTACCTCTTGAATA
1 GGTACCTCTTGAATA
*
1991224 GGTATCTCTTGAATA
1 GGTACCTCTTGAATA
1991239 GGTACC
1 GGTACC
1991245 GATACCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (15 bp):
GGTACCTCTTGAATA
Found at i:1997330 original size:22 final size:22
Alignment explanation
Indices: 1997289--1997339 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1997279 CTGAGTGGCA
* *
1997289 TATGAGATTTGTCCCTAAGGACC
1 TATGA-ATATGTCCCGAAGGACC
*
1997312 TGTGAATATGTCCCGAAGGACC
1 TATGAATATGTCCCGAAGGACC
1997334 TATGAA
1 TATGAA
1997340 ACCTTCGACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (22 bp):
TATGAATATGTCCCGAAGGACC
Found at i:1999654 original size:60 final size:60
Alignment explanation
Indices: 1999565--1999702 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
1999555 TAAAGTAGAT
* * *
1999565 AAATGGTCCCCTGACTATAAGATAATGCTTTATTGAGTCTCT-TGACTATTCAAAGTTATA
1 AAATGGTCCCCTGACTATAAGATAATGCTTTATTGAGTCCCTCT-ACTATTAAAAGTTACA
* * *
1999625 AAATGGTCCCCTGATTAT-AGCA-AGCTGCTTTGTTGAGTCCCTCTACTATTAAAAGTTACA
1 AAATGGTCCCCTGACTATAAG-ATA-ATGCTTTATTGAGTCCCTCTACTATTAAAAGTTACA
* *
1999685 AAATGATCACCTGACTAT
1 AAATGGTCCCCTGACTAT
1999703 TCATTATGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
59 3 0.05
60 62 0.94
61 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (60 bp):
AAATGGTCCCCTGACTATAAGATAATGCTTTATTGAGTCCCTCTACTATTAAAAGTTACA
Found at i:2002245 original size:28 final size:28
Alignment explanation
Indices: 2002193--2002253 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
2002183 TAAATTGAAT
* *
2002193 AGGGCTTGTCTTTATTGTATCTAATAT-A
1 AGGGCTTGTCTTCATTGTAACTAAT-TGA
2002221 AGGGCTTGTCTTCATT-TAACATAATTGA
1 AGGGCTTGTCTTCATTGTAAC-TAATTGA
2002249 AGGGC
1 AGGGC
2002254 AGGTAGCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (28 bp):
AGGGCTTGTCTTCATTGTAACTAATTGA
Found at i:2002519 original size:3 final size:3
Alignment explanation
Indices: 2002511--2002552 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
2002501 GGATGAAGAC
*
2002511 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2002553 TTTCTAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:2002775 original size:14 final size:14
Alignment explanation
Indices: 2002756--2002782 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2002746 AAGGTTAAGG
2002756 AATATTTGGGGCTC
1 AATATTTGGGGCTC
2002770 AATATTTGGGGCT
1 AATATTTGGGGCT
2002783 AAAGAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.37
Consensus pattern (14 bp):
AATATTTGGGGCTC
Found at i:2005714 original size:48 final size:48
Alignment explanation
Indices: 2005643--2005739 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
2005633 CATGAAAAGG
*
2005643 GACTCAAACCTAAGTCTCTCAGGTGTGCTGCTTCTCATTTTGCCACCA
1 GACTCAAACCAAAGTCTCTCAGGTGTGCTGCTTCTCATTTTGCCACCA
2005691 GACTCAAACCAAAGTCTCTCAGGTGTGCTGCTTCTCATTTTGCCACCA
1 GACTCAAACCAAAGTCTCTCAGGTGTGCTGCTTCTCATTTTGCCACCA
2005739 G
1 G
2005740 GCTAGACTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.30
Consensus pattern (48 bp):
GACTCAAACCAAAGTCTCTCAGGTGTGCTGCTTCTCATTTTGCCACCA
Found at i:2007424 original size:41 final size:41
Alignment explanation
Indices: 2007367--2007450 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
2007357 CATGGTGGAC
* * *
2007367 TCATATCATTACACATGCATCTTTGGTGACTCAATAATTAA
1 TCATATAATCACACATGCATCCTTGGTGACTCAATAATTAA
2007408 TCATATAATCACACATGCATCCTTGGTGACTCAATAATTAA
1 TCATATAATCACACATGCATCCTTGGTGACTCAATAATTAA
2007449 TC
1 TC
2007451 TTATTGAGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (41 bp):
TCATATAATCACACATGCATCCTTGGTGACTCAATAATTAA
Found at i:2009113 original size:16 final size:17
Alignment explanation
Indices: 2009073--2009114 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
2009063 ATAAAATTAC
*
2009073 ATGAATTTAGGTATTTG
1 ATGAATTTAGGAATTTG
*
2009090 A-GATTTTAGGAATTT-
1 ATGAATTTAGGAATTTG
2009105 ATGAATTTAG
1 ATGAATTTAG
2009115 AAGTTTGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (17 bp):
ATGAATTTAGGAATTTG
Found at i:2015143 original size:30 final size:30
Alignment explanation
Indices: 2015109--2015175 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 30
2015099 AGTTACAGAT
2015109 GCGGCTGCTGTTATTGTTGGCTAGTAAATA
1 GCGGCTGCTGTTATTGTTGGCTAGTAAATA
2015139 GC-G--GCTGTTATTGTTGGCTAGTAAATA
1 GCGGCTGCTGTTATTGTTGGCTAGTAAATA
2015166 GCGGCTGCTG
1 GCGGCTGCTG
2015176 AGGCTGCTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 26 0.76
28 1 0.03
29 1 0.03
30 6 0.18
ACGTcount: A:0.18, C:0.15, G:0.33, T:0.34
Consensus pattern (30 bp):
GCGGCTGCTGTTATTGTTGGCTAGTAAATA
Found at i:2015150 original size:27 final size:27
Alignment explanation
Indices: 2015115--2015172 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
2015105 AGATGCGGCT
2015115 GCTGTTATTGTTGGCTAGTAAATAGCG
1 GCTGTTATTGTTGGCTAGTAAATAGCG
2015142 GCTGTTATTGTTGGCTAGTAAATAGCG
1 GCTGTTATTGTTGGCTAGTAAATAGCG
2015169 GCTG
1 GCTG
2015173 CTGAGGCTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.36
Consensus pattern (27 bp):
GCTGTTATTGTTGGCTAGTAAATAGCG
Found at i:2016842 original size:15 final size:15
Alignment explanation
Indices: 2016822--2016851 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2016812 TGATTGGTTA
2016822 ACAATATTTATATGG
1 ACAATATTTATATGG
2016837 ACAATATTTATATGG
1 ACAATATTTATATGG
2016852 TTTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (15 bp):
ACAATATTTATATGG
Found at i:2022676 original size:22 final size:22
Alignment explanation
Indices: 2022648--2022690 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2022638 AGTAGGTATT
2022648 TTGAGTGGGATTT-AGTGGTGGA
1 TTGAGTGGG-TTTGAGTGGTGGA
2022670 TTGAGTGGGTTTGAGTGGTGG
1 TTGAGTGGGTTTGAGTGGTGG
2022691 TGGTTTGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.37
Consensus pattern (22 bp):
TTGAGTGGGTTTGAGTGGTGGA
Found at i:2022715 original size:25 final size:25
Alignment explanation
Indices: 2022660--2022715 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
2022650 GAGTGGGATT
2022660 TAGTGGTGGATTGAGTGGGTTTGAG
1 TAGTGGTGGATTGAGTGGGTTTGAG
* *
2022685 TGGTGGTGGTTTGAGTGGG-TTGTAG
1 TAGTGGTGGATTGAGTGGGTTTG-AG
2022710 TAGTGG
1 TAGTGG
2022716 ATAGTGGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.12, C:0.00, G:0.50, T:0.38
Consensus pattern (25 bp):
TAGTGGTGGATTGAGTGGGTTTGAG
Found at i:2023017 original size:22 final size:22
Alignment explanation
Indices: 2022991--2023064 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
2022981 GTCGTTTAAG
*
2022991 GATGATAACACGGTTCCTACGT
1 GATGATGACACGGTTCCTACGT
* * *
2023013 GATGAGGACGACTGGTTATCTAAAG-
1 GATGATGAC-AC-GGTT-CCT-ACGT
2023038 GATGATGACACGGTTCCTACGT
1 GATGATGACACGGTTCCTACGT
2023060 GATGA
1 GATGA
2023065 GGATGGAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
21 2 0.05
22 14 0.35
23 6 0.15
24 6 0.15
25 10 0.25
26 2 0.05
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (22 bp):
GATGATGACACGGTTCCTACGT
Found at i:2023292 original size:131 final size:131
Alignment explanation
Indices: 2023041--2023309 Score: 333
Period size: 131 Copynumber: 2.1 Consensus size: 131
2023031 TCTAAAGGAT
* * * * *
2023041 GATGACACGGTTCCTACGTGATGAGGATGGAATACCATCTTTAGGAATGATAACATGGTTCTTAC
1 GATGACACAGTTCCTACGTGATGAGAATGGAATACCATCATTAGGAATGATAACAGGGTTCCTAC
* *** * * * * * *
2023106 GTGATGAGGACGGTTGATTATCTAAGGTTGACACGACTCCTACGTGATGAGGAGATTTGGTCGGT
66 GTGATGAGAACGACGGATTATCTAAGATTGACACGACTCCGACATGATAAAGAGATATGGTCGGT
2023171 G
131 G
* * *
2023172 GATGACACAGTTCCTACGTGATGAGAATGGCATGCCATCATTAGGGATGATAACAGGGTTCCTAC
1 GATGACACAGTTCCTACGTGATGAGAATGGAATACCATCATTAGGAATGATAACAGGGTTCCTAC
* *
2023237 GTGATGAGAACGACGGGTTATCTAAGATTGACAC-AGCTCCGACATGATAAAGAGATATGGTTGG
66 GTGATGAGAACGACGGATTATCTAAGATTGACACGA-CTCCGACATGATAAAGAGATATGGTCGG
2023301 TG
130 TG
*
2023303 AATGACA
1 GATGACA
2023310 ATGTTTGTTT
Statistics
Matches: 116, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
130 1 0.01
131 115 0.99
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (131 bp):
GATGACACAGTTCCTACGTGATGAGAATGGAATACCATCATTAGGAATGATAACAGGGTTCCTAC
GTGATGAGAACGACGGATTATCTAAGATTGACACGACTCCGACATGATAAAGAGATATGGTCGGT
G
Found at i:2023489 original size:61 final size:61
Alignment explanation
Indices: 2023402--2024130 Score: 953
Period size: 61 Copynumber: 11.7 Consensus size: 61
2023392 TGAAGTTGAT
*
2023402 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTTACCAAATTGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGG
* *
2023463 CTTTGAGTTAGATATCCTTCGCTGTGAAGTTGAAATCCAATCTTGT-TCTTCACCAAATTGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGT-TTCACCAAATTGG
* * *
2023524 CTTTGAGTTAGATATCCTTCGCTGTGAAGTTGAAATCCAATCTTGT-TCTTCACCAAATCGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGT-TTCACCAAATTGG
2023585 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTTTCACCAAATTGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATC-T-TGT--GTTTCACCAAATTGG
* * * * *
2023650 TTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCTAATCTTTTTAAGTTTCACCAAATCGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATC-TTGT--GTTTCACCAAATTGG
* *
2023714 CTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATCGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGG
* * ** * ** *
2023775 CTTTGAGTTGGATATCCTTCGCTGTGAAGTTGAAATCCAA-GTACTGCTTCACGGAATTGA
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGG
* * * *
2023835 CTTTAAGTTGGATATCATTCGTTGTAAAGTTGAAATACAATCTTGTGTTGTATTGCTTCACCAAA
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATC-T-TG-TG---T--TTCACCAAA
2023900 TTGG
58 TTGG
* *
2023904 CTTTGAGTTGGATATCTTTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGG
* * * *
2023965 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAGTATTTTGCTTCACCAAATTGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGG
* * **
2024026 TTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCC-ATGTACTGTTTCACCAAATTGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGG
*
2024086 CTTTGAGTTGGATATTCTTCGTTGTGAAGTTGAAATCCAATCTTG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTG
2024131 AAAACTTTAA
Statistics
Matches: 595, Mismatches: 57, Indels: 32
0.87 0.08 0.05
Matches are distributed among these distances:
60 101 0.17
61 319 0.54
62 2 0.00
63 6 0.01
64 60 0.10
65 53 0.09
66 3 0.01
67 2 0.00
68 1 0.00
69 48 0.08
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (61 bp):
CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGG
Found at i:2023752 original size:190 final size:184
Alignment explanation
Indices: 2023402--2024130 Score: 950
Period size: 190 Copynumber: 3.9 Consensus size: 184
2023392 TGAAGTTGAT
* *
2023402 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATC-TTGTGTTTTACCAAATTGGCTT
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTTGTGCTTCACCAAATTGGCTT
* * *
2023466 TGAGTTAGATATCCTTCGCTGTGAAGTTGAAATCCAATCTTGTT-CTTCACCAAATTGGCTTTGA
66 TGAGTTGGATATCCTTCGTTGTGAAGTTGAAAT-CAATCTTTTTGCTTCACCAAATTGGCTTTGA
* *
2023530 GTTAGATATCCTTCGCTGTGAAGTTGAAATCCAATCTTGTTCTTCACCAAATCGG
130 GTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTTCTTCACCAAATCGG
*
2023585 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAAGTTTCACCAAATTGG
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTT-TGT--GCTTCACCAAATTGG
* * * *
2023650 TTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCTAATCTTTTTAAGTTTCACCAAATCGGC
63 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATC-AATCTTTTT--GCTTCACCAAATTGGC
*
2023715 TTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTGT-TTCACCAAATCGG
125 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGT-TCTTCACCAAATCGG
* * ** ** *
2023775 CTTTGAGTTGGATATCCTTCGCTGTGAAGTTGAAATCCAA--GTACTGCTTCACGGAATTGACTT
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTTGTGCTTCACCAAATTGGCTT
* * *
2023838 TAAGTTGGATATCATTCGTTGTAAAGTTGAAATACAATCTTGTGTTGTATTGCTTCACCAAATTG
66 TGAGTTGGATATCCTTCGTTGTGAAGTTGAAAT-CAATC-----TT-T-TTGCTTCACCAAATTG
* * *
2023903 GCTTTGAGTTGGATATCTTTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGG
123 GCTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTTCTTCACCAAATCGG
* * *
2023965 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAGTATTT-TGCTTCACCAAATTGGTTT
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTTGTGCTTCACCAAATTGGCTT
* * ** *
2024029 TGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAT-GTACTGTTTCACCAAATTGGCTTTGAG
66 TGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCAATCTTTTTGCTTCACCAAATTGGCTTTGAG
*
2024093 TTGGATATTCTTCGTTGTGAAGTTGAAATCCAATCTTG
131 TTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTG
2024131 AAAACTTTAA
Statistics
Matches: 478, Mismatches: 48, Indels: 41
0.84 0.08 0.07
Matches are distributed among these distances:
182 58 0.12
183 42 0.09
184 2 0.00
185 49 0.10
186 2 0.00
187 55 0.12
188 1 0.00
190 219 0.46
191 47 0.10
192 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (184 bp):
CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTTGTGCTTCACCAAATTGGCTT
TGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCAATCTTTTTGCTTCACCAAATTGGCTTTGAG
TTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTTCTTCACCAAATCGG
Found at i:2023958 original size:251 final size:248
Alignment explanation
Indices: 2023402--2024130 Score: 1045
Period size: 251 Copynumber: 2.9 Consensus size: 248
2023392 TGAAGTTGAT
*
2023402 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTTACCAAATTGGCTTT
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGGCTTT
* *
2023467 GAGTTAGATATCCTTCGCTGTGAAGTTGAAATCCAATCTTGT-TCTTCACCAAATTGGCTTTGAG
66 GAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGT-TTCACCAAATTGGCTTTGAG
* *
2023531 TTAGATATCCTTCGCTGTGAAGTTGAAATCCAA-T-CTTGTTCTTCACCAAATCGGCTTTGAGTT
130 TTGGATATCCTTCGCTGTGAAGTTGAAATCCAAGTAC-TG--CTTCACCAAATTGGCTTTGAGTT
*
2023594 GGATATCCTTCGTTGTGAAGTTGAAATCCAATC-T-TGTGTAAGTTTCACCAAATTGG
192 GGATAT-CTTCGTTGTGAAGTTGAAATCCAATCTTGTGTGTAAGCTTCACCAAATTGG
* * * * *
2023650 TTTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCTAATCTTTTTAAGTTTCACCAAATCGGC
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATC-TTGT--GTTTCACCAAATTGGC
* *
2023715 TTTGAGTTGGATATCCTTCATTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATCGGCTTTG
63 TTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGGCTTTG
** * *
2023780 AGTTGGATATCCTTCGCTGTGAAGTTGAAATCCAAGTACTGCTTCACGGAATTGACTTTAAGTTG
128 AGTTGGATATCCTTCGCTGTGAAGTTGAAATCCAAGTACTGCTTCACCAAATTGGCTTTGAGTTG
* * *
2023845 GATATCATTCGTTGTAAAGTTGAAATACAATCTTGTGTTGTATTGCTTCACCAAATTGG
193 GATATC-TTCGTTGTGAAGTTGAAATCCAATCTTGTG-TGTA-AGCTTCACCAAATTGG
* *
2023904 CTTTGAGTTGGATATCTTTCGTTGTGAAGTTGAAATCCAATCTTGTGCTTCACCAAATTGGCTTT
1 CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGGCTTT
* * * * *
2023969 GAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAGTATTTTGCTTCACCAAATTGGTTTTGAGT
66 GAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGGCTTTGAGT
* * *
2024034 TGGATATCCTTCGTTGTGAAGTTGAAATCCATGTACTGTTTCACCAAATTGGCTTTGAGTTGGAT
131 TGGATATCCTTCGCTGTGAAGTTGAAATCCAAGTACTGCTTCACCAAATTGGCTTTGAGTTGGAT
2024099 ATTCTTCGTTGTGAAGTTGAAATCCAATCTTG
196 A-TCTTCGTTGTGAAGTTGAAATCCAATCTTG
2024131 AAAACTTTAA
Statistics
Matches: 426, Mismatches: 43, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
248 39 0.09
249 4 0.01
250 47 0.11
251 268 0.63
252 8 0.02
253 8 0.02
254 52 0.12
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (248 bp):
CTTTGAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGGCTTT
GAGTTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTTTCACCAAATTGGCTTTGAGT
TGGATATCCTTCGCTGTGAAGTTGAAATCCAAGTACTGCTTCACCAAATTGGCTTTGAGTTGGAT
ATCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTGTAAGCTTCACCAAATTGG
Found at i:2024621 original size:32 final size:32
Alignment explanation
Indices: 2024524--2024623 Score: 130
Period size: 32 Copynumber: 3.1 Consensus size: 32
2024514 CCCAAAGATT
* * *
2024524 CCCCAATATTCGATGTTGAATCTCAAAAAAGG
1 CCCCAACATTTGATGTTGAATCTCAAAAAATG
*
2024556 CCCTAACATTTGATGTTGAATCTCAAAAAATG
1 CCCCAACATTTGATGTTGAATCTCAAAAAATG
* *
2024588 CCCCAACATTTGATGTTAAATCTTC-AAAGATG
1 CCCCAACATTTGATGTTGAATC-TCAAAAAATG
2024620 CCCC
1 CCCC
2024624 CATTGTTCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 58 0.97
33 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (32 bp):
CCCCAACATTTGATGTTGAATCTCAAAAAATG
Found at i:2027359 original size:19 final size:19
Alignment explanation
Indices: 2027316--2027365 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
2027306 TTTTTTTTAA
* *
2027316 TTTTTTATTTTCTCTTTGC
1 TTTTTTCTTTTTTCTTTGC
2027335 TTTTTTCTTTTTTCTTT-C
1 TTTTTTCTTTTTTCTTTGC
2027353 TTTTTTTCTTTTT
1 -TTTTTTCTTTTT
2027366 ATTCTAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTCTTTTTTCTTTGC
Found at i:2030349 original size:29 final size:28
Alignment explanation
Indices: 2030311--2030404 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
2030301 TTTATGGATT
2030311 AAATAGAAAAACAAGAATTTAAAGGACTA
1 AAATA-AAAAACAAGAATTTAAAGGACTA
* ** ** *
2030340 AAATATAAAATTAGAAACCTAAATGACTA
1 AAATAAAAAACAAG-AATTTAAAGGACTA
2030369 AAATAACAAAGACAA-ACATTTAAAGGACTA
1 AAATAA-AAA-ACAAGA-ATTTAAAGGACTA
2030399 AAATAA
1 AAATAA
2030405 TAATTATAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
28 6 0.12
29 22 0.45
30 19 0.39
31 2 0.04
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.19
Consensus pattern (28 bp):
AAATAAAAAACAAGAATTTAAAGGACTA
Found at i:2041007 original size:115 final size:116
Alignment explanation
Indices: 2040789--2041026 Score: 329
Period size: 115 Copynumber: 2.0 Consensus size: 116
2040779 TCCGATCTAA
* * *
2040789 TTCATGGTGAAAATGGCAGAGTTTTTCTTCACCAAATTACCATCTGGCTAACCTATAGGAAAGTC
1 TTCATGATGAAAATGGCAGACTTTATCTTCACCAAATT--CATCTGGCTAACCTATAGGAAAGTC
* * *
2040854 AATGAGCTAAAGTATAATCCTCCGCTCTCTCTCGATTAATAGAAA-TCTGTACT
64 AATGAGCTAAACTATAAACCTCCGCTCTCTCTAGATTAATAGAAACT-TGTACT
* *
2040907 TTCATGATGAAAATGGCAGACTTTATCTTCAGCTAATT-ATCTGGCTAACCTATAAGGAAAGTCA
1 TTCATGATGAAAATGGCAGACTTTATCTTCACCAAATTCATCTGGCTAACCTAT-AGGAAAGTCA
* *
2040971 CTGAGCTAAACTATAAACCT-CGCTCTCTTTAGATTAATAGAAACTTGTACT
65 ATGAGCTAAACTATAAACCTCCGCTCTCTCTAGATTAATAGAAACTTGTACT
2041022 TTCAT
1 TTCAT
2041027 AGCTTAGGAC
Statistics
Matches: 108, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
115 47 0.44
116 28 0.26
118 33 0.31
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (116 bp):
TTCATGATGAAAATGGCAGACTTTATCTTCACCAAATTCATCTGGCTAACCTATAGGAAAGTCAA
TGAGCTAAACTATAAACCTCCGCTCTCTCTAGATTAATAGAAACTTGTACT
Found at i:2041724 original size:19 final size:19
Alignment explanation
Indices: 2041700--2041742 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
2041690 AAAATTGTTT
*
2041700 TTCTTAAAAAATAACAATA
1 TTCTTAAAAAATAACAACA
2041719 TTCTTAAAAAATAACAACA
1 TTCTTAAAAAATAACAACA
2041738 TTCTT
1 TTCTT
2041743 CAACCGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (19 bp):
TTCTTAAAAAATAACAACA
Found at i:2043081 original size:18 final size:18
Alignment explanation
Indices: 2043060--2043104 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
2043050 TAAGATTCCG
2043060 AATTAAAAT-TTGAAATTA
1 AATTAAAATATTG-AATTA
*
2043078 AATTTAAATATTGAATTA
1 AATTAAAATATTGAATTA
2043096 AACTTAAAA
1 AA-TTAAAA
2043105 AATTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
AATTAAAATATTGAATTA
Found at i:2043122 original size:27 final size:28
Alignment explanation
Indices: 2043077--2043132 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
2043067 ATTTGAAATT
**
2043077 AAATTTAAATATTGAATT-AAACTTAAA
1 AAATTTAAATATCCAATTAAAACTTAAA
*
2043104 AAATTTAAATATCCTATTAAAACTTAAA
1 AAATTTAAATATCCAATTAAAACTTAAA
2043132 A
1 A
2043133 TTAAGTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (28 bp):
AAATTTAAATATCCAATTAAAACTTAAA
Found at i:2045234 original size:55 final size:54
Alignment explanation
Indices: 2045174--2045329 Score: 159
Period size: 54 Copynumber: 2.9 Consensus size: 54
2045164 ACCAATACAG
* ** * * * *
2045174 AAATTCATATACTTTTTAGGAATTTCTTAGGTTTGCCCATATAGTTCCCATACGA
1 AAATTCATACACTTAGTAGGAATTTCTTA-CTTTGCACACATAGTGCCCATACGA
* * * *
2045229 AAATTCACACACTTAGTATGAATTTCTTACTTTGCACACATAGTGCCTATACGG
1 AAATTCATACACTTAGTAGGAATTTCTTACTTTGCACACATAGTGCCCATACGA
* * * *
2045283 AAATTCATACACATAATATGAATTTCTTAGTTTGGCACACATAGTGC
1 AAATTCATACACTTAGTAGGAATTTCTTACTTT-GCACACATAGTGC
2045330 TAATACATGC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 48 0.56
55 37 0.44
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (54 bp):
AAATTCATACACTTAGTAGGAATTTCTTACTTTGCACACATAGTGCCCATACGA
Found at i:2045287 original size:54 final size:54
Alignment explanation
Indices: 2045193--2045329 Score: 175
Period size: 54 Copynumber: 2.5 Consensus size: 54
2045183 TACTTTTTAG
* * * * *
2045193 GAATTTCTTAGGTTTGCCCATATAGTTCCCATACGAAAATTCACACACTTAGTAT
1 GAATTTCTTA-GTTTGCACACATAGTGCCCATACGAAAATTCACACACATAATAT
* * * *
2045248 GAATTTCTTACTTTGCACACATAGTGCCTATACGGAAATTCATACACATAATAT
1 GAATTTCTTAGTTTGCACACATAGTGCCCATACGAAAATTCACACACATAATAT
2045302 GAATTTCTTAGTTTGGCACACATAGTGC
1 GAATTTCTTAGTTT-GCACACATAGTGC
2045330 TAATACATGC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 48 0.68
55 23 0.32
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (54 bp):
GAATTTCTTAGTTTGCACACATAGTGCCCATACGAAAATTCACACACATAATAT
Found at i:2046797 original size:11 final size:11
Alignment explanation
Indices: 2046783--2046807 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2046773 AAAAAAAAAC
2046783 AAAAAAAGCCA
1 AAAAAAAGCCA
2046794 AAAAAAAGCCA
1 AAAAAAAGCCA
2046805 AAA
1 AAA
2046808 TTTCAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.16, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGCCA
Found at i:2056077 original size:55 final size:54
Alignment explanation
Indices: 2056011--2056389 Score: 488
Period size: 55 Copynumber: 6.9 Consensus size: 54
2056001 CATAATACCA
* ** * * * *
2056011 ATACGAAAATTCATATACTTTTTAGGAATTTCTTAAGTTTGCCCATATAGTTCCC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTT-AGTTTGCACACATAGTGCCC
* * * * *
2056066 ATATGGAAATTCACACACATAGTATGAATTTCTTACTTTTGCACACATAGTGCCC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTA-GTTTGCACACATAGTGCCC
* *
2056121 ATACGGAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACACATAGTGCCC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTTGCACACATAGTGCCC
* *
2056176 ATACGAAAATTCATACACTTAGTATGAATTTATTAGTTTTTCACACATAGTGCCC
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTTGCACACATAGTGCCC
* * *
2056231 ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTGCGCACACCTAGTGCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTT-TGCACACATAGTGCCC
* * *
2056286 ATACGAAAATTCATACACTTTGTATGAATTTCTTAGTTTTGTACACATAGTGCCT
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTTGCACACATAGTGCCC
*
2056341 ATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACATA
1 ATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTTGCACACATA
2056390 ATGTCATTCG
Statistics
Matches: 287, Mismatches: 33, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
54 3 0.01
55 282 0.98
56 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (54 bp):
ATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTGCACACATAGTGCCC
Found at i:2056764 original size:19 final size:19
Alignment explanation
Indices: 2056740--2056780 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2056730 GTATCGATAC
* * *
2056740 TACTCTACTATGGTATTGA
1 TACTCTAATACGGTATCGA
2056759 TACTCTAATACGGTATCGA
1 TACTCTAATACGGTATCGA
2056778 TAC
1 TAC
2056781 CATTTTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (19 bp):
TACTCTAATACGGTATCGA
Found at i:2059191 original size:16 final size:16
Alignment explanation
Indices: 2059160--2059208 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
2059150 AATAAGATAT
*
2059160 AATAAATGTATATGTG
1 AATAAATGTCTATGTG
2059176 AA-AAATGATCTATGTG
1 AATAAATG-TCTATGTG
2059192 AATAAATGTCTATGTG
1 AATAAATGTCTATGTG
2059208 A
1 A
2059209 TAAGTTATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 5 0.17
16 20 0.67
17 5 0.17
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.35
Consensus pattern (16 bp):
AATAAATGTCTATGTG
Found at i:2064563 original size:31 final size:31
Alignment explanation
Indices: 2064520--2064584 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
2064510 TTTATTCTCC
*
2064520 TCTCTTTTATATAATTGGGAGGTAAATTATA
1 TCTCTTTCATATAATTGGGAGGTAAATTATA
2064551 TCTCTTTCATATAATTGGGAGGTAAATTATA
1 TCTCTTTCATATAATTGGGAGGTAAATTATA
2064582 TCT
1 TCT
2064585 GCTGACAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (31 bp):
TCTCTTTCATATAATTGGGAGGTAAATTATA
Found at i:2065125 original size:33 final size:33
Alignment explanation
Indices: 2065073--2065155 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
2065063 AAAAGTAATT
2065073 TAAACTTTGAGTTA-T--TAAAATATTAATAAAA
1 TAAA-TTTGAGTTATTAATAAAATATTAATAAAA
2065104 TAAATTTGAGTTATTAATAAAATATTAATAAAA
1 TAAATTTGAGTTATTAATAAAATATTAATAAAA
2065137 TAAATTTGAGTTATTAATA
1 TAAATTTGAGTTATTAATA
2065156 GATGTCATGT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
30 9 0.18
31 5 0.10
33 35 0.71
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (33 bp):
TAAATTTGAGTTATTAATAAAATATTAATAAAA
Found at i:2066690 original size:15 final size:15
Alignment explanation
Indices: 2066663--2066712 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
2066653 ATAAGATATA
2066663 ATAAATGTCTATGTG
1 ATAAATGTCTATGTG
2066678 A-AAATGATCTATGTG
1 ATAAATG-TCTATGTG
2066693 AATAAATGTCTATGTG
1 -ATAAATGTCTATGTG
2066709 ATAA
1 ATAA
2066713 GTTATGGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.16
15 13 0.41
16 9 0.28
17 5 0.16
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (15 bp):
ATAAATGTCTATGTG
Found at i:2066706 original size:16 final size:16
Alignment explanation
Indices: 2066662--2066709 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
2066652 AATAAGATAT
2066662 AATAAATGTCTATGTG
1 AATAAATGTCTATGTG
2066678 -A-AAATGATCTATGTG
1 AATAAATG-TCTATGTG
2066693 AATAAATGTCTATGTG
1 AATAAATGTCTATGTG
2066709 A
1 A
2066710 TAAGTTATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.17
15 9 0.31
16 10 0.34
17 5 0.17
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (16 bp):
AATAAATGTCTATGTG
Found at i:2066872 original size:22 final size:22
Alignment explanation
Indices: 2066805--2066902 Score: 119
Period size: 22 Copynumber: 4.5 Consensus size: 22
2066795 GGTTCTACAC
* *
2066805 GGTCATTCGGGACATTTCTACGT
1 GGTCCTTCGGGACA-TTCTATGT
*
2066828 GGTCCTTCGGGATA-TCTATGT
1 GGTCCTTCGGGACATTCTATGT
*
2066849 GGTCCTTCGGGACATTCTAAGT
1 GGTCCTTCGGGACATTCTATGT
*
2066871 GGTCTTTCGGGACATTCTATGT
1 GGTCCTTCGGGACATTCTATGT
2066893 GG-CACTTCGG
1 GGTC-CTTCGG
2066903 TGTAATTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
21 20 0.31
22 33 0.51
23 12 0.18
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.35
Consensus pattern (22 bp):
GGTCCTTCGGGACATTCTATGT
Found at i:2069958 original size:3 final size:3
Alignment explanation
Indices: 2069950--2070023 Score: 107
Period size: 3 Copynumber: 25.0 Consensus size: 3
2069940 TTGGGATTAT
* *
2069950 ATA ATA AT- ATA TATA ATA ATA ATA ATG GTA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2069994 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2070024 TGATGAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
2 4 0.06
3 57 0.89
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:2070259 original size:45 final size:45
Alignment explanation
Indices: 2070194--2070539 Score: 494
Period size: 45 Copynumber: 7.7 Consensus size: 45
2070184 GAGGTCTTAT
* * * * * *
2070194 CATCTTGCACTGTAGGTCTTACAGATGACCTGGAGGCTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
2070239 CATCATGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGATAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
2070284 CATCATGCACTGAAGGGCTTAGAGATGACCCGAAGGCTTTGATAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* * *
2070329 CATTATGCACTGAAGGACTTACAAATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
2070374 CATCATGCACTGAAGGGTTTACAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
2070419 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAGAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
2070464 CATCCTGCACTGAAGGGCTTACAGGTGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
2070509 CATCATGCACTAAAGGACTTACAGATGACCC
1 CATCATGCACTGAAGGGCTTACAGATGACCC
2070540 ATTTTAAAAT
Statistics
Matches: 273, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 273 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:2076595 original size:43 final size:43
Alignment explanation
Indices: 2076515--2076600 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
2076505 CCGTGCATCA
* * * *
2076515 AACAAAACTTTTACATGTAGGGATAGCTTTTAGTCCTAACTTC
1 AACAAAACTTTTACATATAGGGATAACTTTCACTCCTAACTTC
*
2076558 AACAAAAC-TTTACATATAGGGAATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTTACATATAGGG-ATAACTTTCACTCCTAACTTC
2076601 TCTAAAGCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 12 0.32
43 25 0.68
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (43 bp):
AACAAAACTTTTACATATAGGGATAACTTTCACTCCTAACTTC
Found at i:2078540 original size:2 final size:2
Alignment explanation
Indices: 2078533--2078559 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2078523 ATAAAGAAGA
2078533 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 A
2078560 ATAGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2079104 original size:2 final size:2
Alignment explanation
Indices: 2079097--2079131 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2079087 GTTTAAGAAA
*
2079097 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2079132 AATAAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2079539 original size:18 final size:20
Alignment explanation
Indices: 2079513--2079553 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
2079503 GATATTAAAA
2079513 ATAAATAAACAT-TAT-TAT
1 ATAAATAAACATATATATAT
* *
2079531 ATAATTAAATATATATATAT
1 ATAAATAAACATATATATAT
2079551 ATA
1 ATA
2079554 TATATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAATAAACATATATATAT
Found at i:2079633 original size:11 final size:11
Alignment explanation
Indices: 2079570--2079634 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
2079560 TTTATATGAC
*
2079570 TAAAATAATAC
1 TAAAATAATAA
2079581 TAAAATAATAA
1 TAAAATAATAA
* *
2079592 TGAAAGTGATAA
1 T-AAAATAATAA
**
2079604 TTTAA-AAT-A
1 TAAAATAATAA
2079613 TAAAAGTAATAA
1 TAAAA-TAATAA
2079625 TAAAATAATA
1 TAAAATAATA
2079635 TTGCAAATAT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
9 4 0.10
10 2 0.05
11 20 0.49
12 15 0.37
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:2079738 original size:29 final size:30
Alignment explanation
Indices: 2079677--2079758 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
2079667 TCATTTTCAT
* * *
2079677 AAAT-ATAAAATATATAAAACTTATGGTTA
1 AAATGATAAAATATATAAAAATTAAGGATA
*
2079706 AAATGA-AAAATATATAAAAATTAAGGATC
1 AAATGATAAAATATATAAAAATTAAGGATA
* *
2079735 AAATTATAAAATATA-AATAATTAA
1 AAATGATAAAATATATAAAAATTAA
2079759 TGTACATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 36 0.80
30 9 0.20
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.30
Consensus pattern (30 bp):
AAATGATAAAATATATAAAAATTAAGGATA
Found at i:2081019 original size:3 final size:3
Alignment explanation
Indices: 2081013--2081096 Score: 116
Period size: 3 Copynumber: 28.0 Consensus size: 3
2081003 AATAATTTAT
* *
2081013 ATA ATA ATA ATA ATG GTA ATA TATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
2081059 ATA ATA ATA ATA ATA ATA ATG GTA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2081097 TGATGAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
2 2 0.03
3 66 0.93
4 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:2083429 original size:31 final size:31
Alignment explanation
Indices: 2083393--2083451 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2083383 AACTTAAAAG
* * *
2083393 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAAAACTGAAATTTAAATAATTTT
2083424 AGTTTTACAAAACTGAAATTTAAATAAT
1 AGTTTTACAAAACTGAAATTTAAATAAT
2083452 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (31 bp):
AGTTTTACAAAACTGAAATTTAAATAATTTT
Found at i:2083583 original size:22 final size:22
Alignment explanation
Indices: 2083511--2083583 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
2083501 TATTATTTAA
* *
2083511 AATAAATAAATACATTCAACTAC-
1 AATAAATAAAT-CAATCCA-TACT
2083534 AAT-AATAAATCAATCCATA-T
1 AATAAATAAATCAATCCATACT
**
2083554 TTTAAAATAAATCAATCCATACT
1 AAT-AAATAAATCAATCCATACT
2083577 AATAAAT
1 AATAAAT
2083584 TATTTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 3 0.08
21 5 0.12
22 27 0.68
23 5 0.12
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAATAAATCAATCCATACT
Found at i:2083606 original size:54 final size:54
Alignment explanation
Indices: 2083537--2083965 Score: 573
Period size: 54 Copynumber: 8.1 Consensus size: 54
2083527 CAACTACAAT
2083537 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
2083591 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
2083645 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
2083699 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAATATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * ** * ** *
2083753 AATGAATCAATTCATATTTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** *
2083805 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
2083855 AATAAATCAATCCATATTTTAAAATAAATC-A---A-ACTAATAAATTATTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAA
*
2083905 AATAAATCAATCCATATTTTAAAATATATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
2083959 AATAAAT
1 AATAAAT
2083966 TATTTTAAAA
Statistics
Matches: 335, Mismatches: 21, Indels: 38
0.85 0.05 0.10
Matches are distributed among these distances:
43 5 0.01
44 3 0.01
45 1 0.00
47 1 0.00
48 19 0.06
49 2 0.01
50 34 0.10
51 2 0.01
52 5 0.01
53 12 0.04
54 236 0.70
55 15 0.04
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:2083612 original size:22 final size:22
Alignment explanation
Indices: 2083586--2083628 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2083576 TAATAAATTA
2083586 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2083608 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2083629 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2083637 original size:22 final size:22
Alignment explanation
Indices: 2083588--2083636 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2083578 ATAAATTATT
**
2083588 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2083610 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2083633 TAAA
1 TAAA
2083637 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2083666 original size:22 final size:22
Alignment explanation
Indices: 2083640--2083682 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2083630 TAATAAATTA
2083640 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2083662 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2083683 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2083691 original size:22 final size:22
Alignment explanation
Indices: 2083642--2083690 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2083632 ATAAATTATT
**
2083642 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2083664 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2083687 TAAA
1 TAAA
2083691 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2083720 original size:22 final size:22
Alignment explanation
Indices: 2083694--2083736 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2083684 TAATAAATTA
2083694 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2083716 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2083737 CTAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2083730 original size:130 final size:129
Alignment explanation
Indices: 2083586--2084032 Score: 535
Period size: 130 Copynumber: 3.5 Consensus size: 129
2083576 TAATAAATTA
2083586 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-TTTAAAATAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT--ATACTAATAAATTATTTTAAAATAA
2083650 ATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
64 ATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
2083715 T
129 T
** * * * * **
2083716 TTTAAAATAAATCAATCCATACTAATAAAAT-ATTTAAAATGAATCAATTCA-TATTTTAAAATA
1 TTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATAT-ACT-AATAAATTATTTTAAAATA
2083779 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
63 AATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
*
2083844 ACAAC
128 ---AT
**
2083849 TACAATAATAAATCAATCCATATTTTAAAATAAATC-A-A-ACTAATAAATTATTTTAAAATAAA
1 TTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATATACTAATAAATTATTTTAAAATAAA
*
2083911 TCAATCCATATTTTAAAATATATCAATCCATACTAATAAATTATTTAAAAT--A--AAT---TAT
65 TCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* * * * * * * *
2083969 TTTAAAATAAATTAATCCATATTTTATAATAATTTATTTTA-AAATAAATTATTTTATAATAAAT
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATACTAATAAATTATTTTAAAATAAAT
2084033 TATTTTATAA
Statistics
Matches: 274, Mismatches: 30, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
119 26 0.09
120 4 0.01
121 21 0.08
122 1 0.00
123 1 0.00
126 3 0.01
128 3 0.01
129 8 0.03
130 169 0.62
131 7 0.03
132 1 0.00
133 12 0.04
134 18 0.07
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (129 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATACTAATAAATTATTTTAAAATAAAT
CAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:2083775 original size:22 final size:22
Alignment explanation
Indices: 2083748--2083812 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
2083738 TAATAAAATA
* *
2083748 TTTAAAATGAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
2083770 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2083792 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2083813 CTAATAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2083821 original size:22 final size:22
Alignment explanation
Indices: 2083750--2083820 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
2083740 ATAAAATATT
* * **
2083750 TAAAATGAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
**
2083772 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2083794 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2083817 TAAA
1 TAAA
2083821 TTATTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 39 0.89
23 5 0.11
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2083880 original size:22 final size:22
Alignment explanation
Indices: 2083855--2083942 Score: 95
Period size: 22 Copynumber: 3.7 Consensus size: 22
2083845 CAACTACAAT
2083855 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
**
2083877 AATAAATCAAACTAATAAATTATTTTAA
1 AATAAAT----C-AATCCA-TATTTTAA
2083905 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
*
2083927 AATATATCAATCCATA
1 AATAAATCAATCCATA
2083943 CTAATAAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
22 30 0.55
23 4 0.07
24 1 0.02
26 1 0.02
27 4 0.07
28 15 0.27
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:2083951 original size:22 final size:22
Alignment explanation
Indices: 2083826--2083950 Score: 70
Period size: 22 Copynumber: 5.2 Consensus size: 22
2083816 ATAAATTATT
*
2083826 TAAAATAAATCAATCCATACAA
1 TAAAATAAATCAATCCATATAA
**
2083848 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
* * *
2083874 TAAAATAAATCAAACTAATAAATTATTT
1 TAAAATAAATCAATC-CAT--A-TA--A
**
2083902 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
2083924 TAAAATATATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2083947 TAAA
1 TAAA
2083951 TTATTTAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
22 30 0.38
23 10 0.12
24 1 0.01
25 5 0.06
26 17 0.21
27 2 0.03
28 15 0.19
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2083973 original size:69 final size:67
Alignment explanation
Indices: 2083890--2084047 Score: 201
Period size: 69 Copynumber: 2.3 Consensus size: 67
2083880 AAATCAAACT
*
2083890 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATATATCAATCCATACTAATAAATTA-
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATA-ATCAAT-CATA-AAATAAATTAT
2083954 TTTAA
63 TTTAA
* * ** **
2083959 AATAAATTATTTTAAAATAAATTAATCCATATTTTATAATAATTTATTTTAAAATAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATCATAAAATAAATTATTTT
*
2084024 AT
66 AA
*
2084026 AATAAATTATTTTATAATAAAT
1 AATAAATTATTTTAAAATAAAT
2084048 TATTTTAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 9 0.11
67 27 0.34
68 4 0.05
69 39 0.49
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATCATAAAATAAATTATTTT
AA
Found at i:2083974 original size:15 final size:15
Alignment explanation
Indices: 2083945--2084090 Score: 177
Period size: 15 Copynumber: 9.3 Consensus size: 15
2083935 AATCCATACT
2083945 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
2083959 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
2083974 AATAAATTAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
2083996 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
2084011 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
2084026 AATAAATTATTTTAT
1 AATAAATTATTTTAA
2084041 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
2084056 AATAAATTATTTTAT
1 AATAAATTATTTTAA
2084071 AATAAATTATTTTAA
1 AATAAATTATTTTAA
2084086 AATAA
1 AATAA
2084091 TAAATAACCT
Statistics
Matches: 116, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
14 9 0.08
15 90 0.78
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.09
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:2089718 original size:347 final size:347
Alignment explanation
Indices: 2089086--2091857 Score: 5012
Period size: 347 Copynumber: 8.0 Consensus size: 347
2089076 CGTAACATAA
* *
2089086 ATTCTTTATAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGATATTTG--AAAAAAA-
1 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
*
2089148 AAGCTAATAGCTTGACTCTAGGATATTAATACATCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
66 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
* * *
2089213 TGAGTTAGAAAGTAATCTCAAGATGGAATATAATTTGGTGTTAGAGCAGGAAGAAAGTGTTTGGC
131 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
*
2089278 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATATTTCT
196 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
* *
2089343 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACATATGGTTGATGAAAGCTGGTGTAT
261 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
2089408 GGATCAATCCCGTCTTAAGCAG
326 GGATCAATCCCGTCTTAAGCAG
2089430 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
1 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
* *
2089495 AAGCTAATAGCTTGACTCTAGTATATTAATACAGCTTTGGCCCATCGAGAATTGAGGCATCTTCT
66 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
2089560 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
131 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
* *
2089625 GAAATAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATATGAAATTCTATCATACTTCT
196 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
*
2089690 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCATTACAGATGGTCGATGAAAGCTGGTGTAT
261 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
*
2089755 GGATCAATCCCGTCTTAAGCAA
326 GGATCAATCCCGTCTTAAGCAG
2089777 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTG-AAAAAAAAC
1 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
2089841 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
66 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
* * *
2089906 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTATTAGAGTAGGAAGAAAGTATTTGGC
131 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
*
2089971 GAAAGAAATCATAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
196 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
* * * * *
2090036 GCTAAACATCGTCGACGCATGAAAACTATTATTTCGTTACATATGGTCGGTGAAAGCTGGTGTAT
261 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
2090101 GGATCAATCCCGTCTTAAGCAG
326 GGATCAATCCCGTCTTAAGCAG
* * * * * *
2090123 ATTCTTTACAGGAAATTCTTACTATTTAGGATATTGACACTTTTAGGGATATTTGAAACAAAAAC
1 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
*
2090188 AAGCTAATAGCTTGACTCTAGGATATTAATACAACTTTGGCCCATCGAGAGTTGAGGCATCTTCT
66 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
2090253 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
131 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
2090318 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
196 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
* *
2090383 ACTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGATGGTGTAT
261 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
*
2090448 GGATCAATCCCGTCTTAAGCAT
326 GGATCAATCCCGTCTTAAGCAG
*
2090470 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGATATTTGAAAAAAAAAC
1 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
2090535 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
66 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
2090600 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
131 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
* * *
2090665 GAAATAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATATGGAATTCTATCATACTTCT
196 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
2090730 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
261 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
*
2090795 GGATCAATCCCGTCTTAAGTAG
326 GGATCAATCCCGTCTTAAGCAG
*
2090817 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGTGACATTTGAAAAAAAAAC
1 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
* *
2090882 AAGCTAATAGCTTGACTCTAGGATATTAATACAACTTTGGCTCATCGAGAGTTGAGGCATCTTCT
66 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
*
2090947 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGATGTTAGAGCAGGAAGAAAGTCTTTGGC
131 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
2091012 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
196 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
* *
2091077 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTATAGATGGTCGGTGAAAGCTGGTGTAT
261 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
2091142 GGATCAATCCCGTCTTAAGCAG
326 GGATCAATCCCGTCTTAAGCAG
2091164 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
1 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
* *
2091229 AAGCTAATAGCTTGACTCTAGGATATTAATACAACTTTGTCCCATCGAGAGTTGAGGCATCTTCT
66 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
2091294 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
131 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
2091359 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
196 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
* * *
2091424 GTTAAACATCGTCGGCGCAGGAACACTATTATTTTGTTACAGATGGTCAATGAAAGCTGGTGTAT
261 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
*
2091489 GGATCAATCCCATCTTAAGCAG
326 GGATCAATCCCGTCTTAAGCAG
2091511 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
1 ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
*
2091576 AAGCTAATAGTTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
66 AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
* *
2091641 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAACTATTTGGC
131 TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
*
2091706 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAGTTCTATCATACTTCT
196 GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
*
2091771 GCTAAACATCGTCTGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
261 GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
2091836 GGATCAATCCCGTCTTAAGCAG
326 GGATCAATCCCGTCTTAAGCAG
2091858 GAGGTGATTA
Statistics
Matches: 2330, Mismatches: 94, Indels: 5
0.96 0.04 0.00
Matches are distributed among these distances:
344 53 0.02
346 333 0.14
347 1944 0.83
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (347 bp):
ATTCTTTACAGGAAATGCTTACTATTTGGGATCTTGACACTTTTGGGGACATTTGAAAAAAAAAC
AAGCTAATAGCTTGACTCTAGGATATTAATACAGCTTTGGCCCATCGAGAGTTGAGGCATCTTCT
TGAGTTAGAAAGTAATCTCAAGATGGAACATAATTCGGTGTTAGAGCAGGAAGAAAGTCTTTGGC
GAAAGAAATCTTAAAGTGATTGGATTATTGATGGGGACAGAAATACGAAATTCTATCATACTTCT
GCTAAACATCGTCGGCGCAGGAACACTATTATTTCGTTACAGATGGTCGATGAAAGCTGGTGTAT
GGATCAATCCCGTCTTAAGCAG
Found at i:2094101 original size:31 final size:31
Alignment explanation
Indices: 2094060--2094121 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
2094050 TTCCAAACAA
2094060 GCTGCCACCAAACTTCAACAATCTAGAATTG
1 GCTGCCACCAAACTTCAACAATCTAGAATTG
* *
2094091 GCTGCTACCAAACTTCAATAATCTAGAATTG
1 GCTGCCACCAAACTTCAACAATCTAGAATTG
2094122 TATAATGTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (31 bp):
GCTGCCACCAAACTTCAACAATCTAGAATTG
Found at i:2098629 original size:31 final size:31
Alignment explanation
Indices: 2098591--2098651 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
2098581 TTCCAAACAG
*
2098591 GCTGCCACCAATCTTCAACAATCTAGAATTA
1 GCTGCCACCAAACTTCAACAATCTAGAATTA
2098622 GCTGCCACCAAACTTCAACAATCTAGAATT
1 GCTGCCACCAAACTTCAACAATCTAGAATT
2098652 GTAGAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.30, G:0.10, T:0.25
Consensus pattern (31 bp):
GCTGCCACCAAACTTCAACAATCTAGAATTA
Found at i:2099496 original size:5 final size:5
Alignment explanation
Indices: 2099486--2099510 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2099476 TTACGTGGGA
2099486 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
2099511 AGTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:2101261 original size:20 final size:20
Alignment explanation
Indices: 2101224--2101262 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2101214 GTGTTTTATT
*
2101224 TAATAAAATTAACTTAATAG
1 TAATAAAATTAACCTAATAG
* *
2101244 TAATGAAATTATCCTAATA
1 TAATAAAATTAACCTAATA
2101263 TTCCACCCTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (20 bp):
TAATAAAATTAACCTAATAG
Found at i:2101606 original size:18 final size:18
Alignment explanation
Indices: 2101578--2101627 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
2101568 GGAAAGAAAA
*
2101578 AAAATCTCAAACTCGATT
1 AAAACCTCAAACTCGATT
*
2101596 AAAGCCTCAAACTCGATT
1 AAAACCTCAAACTCGATT
2101614 AAAACCTCAAACTC
1 AAAACCTCAAACTC
2101628 AAACTCGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (18 bp):
AAAACCTCAAACTCGATT
Found at i:2104964 original size:23 final size:23
Alignment explanation
Indices: 2104933--2104976 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2104923 AACTGAAATA
*
2104933 TTTGTACTAAACTATTTTATTAT
1 TTTGCACTAAACTATTTTATTAT
2104956 TTTGCACTAAACTATTTTATT
1 TTTGCACTAAACTATTTTATT
2104977 TTGAGTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTGCACTAAACTATTTTATTAT
Found at i:2107164 original size:65 final size:65
Alignment explanation
Indices: 2107075--2107231 Score: 217
Period size: 65 Copynumber: 2.4 Consensus size: 65
2107065 TACAATAGGG
* * * * *
2107075 GTGCATTGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAAGAGTGCATCGATGCATGG-TC
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCAAAGAGTGCATCGATGCATGGCT-
2107139 T
65 T
* ** *
2107140 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAATATTAAAGAGTGCGTCGATGCATGGCTT
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCAAAGAGTGCATCGATGCATGGCTT
2107205 GTGCATCGGTACACAAAATGCATTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
2107232 AATGGGTATG
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 81 0.99
66 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAGCAAAGAGTGCATCGATGCATGGCTT
Found at i:2111469 original size:17 final size:17
Alignment explanation
Indices: 2111447--2111487 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
2111437 AATTCATTGA
2111447 AACATTCAAATGCTAAT
1 AACATTCAAATGCTAAT
2111464 AACATTCAAATGCTAAT
1 AACATTCAAATGCTAAT
2111481 AACATTC
1 AACATTC
2111488 TAATTGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (17 bp):
AACATTCAAATGCTAAT
Found at i:2115770 original size:19 final size:19
Alignment explanation
Indices: 2115746--2115796 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
2115736 ATAAGACTTA
2115746 GTGCATCGGTACACTAGGG
1 GTGCATCGGTACACTAGGG
2115765 GTGCATCGGTACACTAGGG
1 GTGCATCGGTACACTAGGG
2115784 GTGCATCGGTACA
1 GTGCATCGGTACA
2115797 TTAATTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.22
Consensus pattern (19 bp):
GTGCATCGGTACACTAGGG
Found at i:2115853 original size:65 final size:65
Alignment explanation
Indices: 2115784--2115938 Score: 168
Period size: 65 Copynumber: 2.4 Consensus size: 65
2115774 TACACTAGGG
** * * * *
2115784 GTGCATCGGTACATTAATTATATTCGATGTTTAAAAAGATCCAGGAGTGCATCAATCCATGG-TC
1 GTGCATCGGTACACAAAATACATTCGATATTTAAAAAGATCCAAGAGTGCATCAATCCATGGCT-
2115848 T
65 T
* * * * * * *
2115849 GTGCATAGGTACACAAAATGCATTCGATATTTCAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACACAAAATACATTCGATATTTAAAAAGATCCAAGAGTGCATCAATCCATGGCTT
*
2115914 GTGCATCGGTACACAAAATGCATTC
1 GTGCATCGGTACACAAAATACATTC
2115939 AAAATGGGTA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
65 74 0.99
66 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATACATTCGATATTTAAAAAGATCCAAGAGTGCATCAATCCATGGCTT
Found at i:2124855 original size:68 final size:68
Alignment explanation
Indices: 2124775--2124910 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
2124765 GAAATGAATC
2124775 ATCAAAGTAACTTTAGGACCTCTGTTACCAGAAATCACTATCTCCCAAGAGAATTTTGAATTGGT
1 ATCAAAGTAACTTTAGGACCTCTGTTACCAGAAATCACTATCTCCCAAGAGAATTTTGAATTGGT
2124840 GTA
66 GTA
2124843 ATCAAAGTAACTTTAGGACCTCTGTTACCAGAAATCACTATCTCCCAAGAGAATTTTGAATTGGT
1 ATCAAAGTAACTTTAGGACCTCTGTTACCAGAAATCACTATCTCCCAAGAGAATTTTGAATTGGT
2124908 GTA
66 GTA
2124911 CTCAGTTCCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (68 bp):
ATCAAAGTAACTTTAGGACCTCTGTTACCAGAAATCACTATCTCCCAAGAGAATTTTGAATTGGT
GTA
Found at i:2137737 original size:29 final size:30
Alignment explanation
Indices: 2137704--2137765 Score: 117
Period size: 29 Copynumber: 2.1 Consensus size: 30
2137694 AATCATAAGT
2137704 TTTCTTAAAATCAGCTTTG-AAACACAACC
1 TTTCTTAAAATCAGCTTTGAAAACACAACC
2137733 TTTCTTAAAATCAGCTTTGAAAACACAACC
1 TTTCTTAAAATCAGCTTTGAAAACACAACC
2137763 TTT
1 TTT
2137766 GAGTCCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (30 bp):
TTTCTTAAAATCAGCTTTGAAAACACAACC
Found at i:2142804 original size:13 final size:13
Alignment explanation
Indices: 2142786--2142812 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2142776 AACAGTGTTG
2142786 AATGATTCAGTAC
1 AATGATTCAGTAC
2142799 AATGATTCAGTAC
1 AATGATTCAGTAC
2142812 A
1 A
2142813 GAAGTACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGATTCAGTAC
Found at i:2155260 original size:286 final size:286
Alignment explanation
Indices: 2154748--2155320 Score: 1031
Period size: 286 Copynumber: 2.0 Consensus size: 286
2154738 CAAAAATTCC
2154748 TTCCAAATAGAGTTGTTTTCATTAGCAAATTTCCAGACCTACTTTCCCAACAATGCTCGATTTGT
1 TTCCAAATAGAGTTGTTTTCATTAGCAAATTTCCAGACCTACTTTCCCAACAATGCTCGATTTGT
* * *
2154813 AAGTTTCAAGTCAACAACACCCAAGCCTCCACCACTCAACGGCTTGCAAACCTTATTTCAACTCA
66 AAGTTGCAAGTCAACAACACCCAAGCCTCCACCACTCAACAGCTTGCAAACCTTATTCCAACTCA
2154878 CCCAATGCATTTTCTTTTTCTCAACCCCTCTACCCCATAAGAAATTCGACATCAAAGAATTTAAC
131 CCCAATGCATTTTCTTTTTCTCAACCCCTCTACCCCATAAGAAATTCGACATCAAAGAATTTAAC
*
2154943 AGCTGACAAATAGAAGGCATCTTAAAAATCGATAAGTAGAAGATTGGTAAGGATGACAATACCGA
196 AGCTGACAAATAGAAGGCATCTTAAAAATCGATAAGTAGAAGATAGGTAAGGATGACAATACCGA
*
2155008 CTTAATAAGCACCAATCTACCAGCCA
261 CTTAATAAGCACCAATCAACCAGCCA
*
2155034 TTCCAAATGGAGTTGTTTTCATTAGCAAATTTCCAGAACC-ACTTTCCCAACAATGCTCGATTTG
1 TTCCAAATAGAGTTGTTTTCATTAGCAAATTTCCAG-ACCTACTTTCCCAACAATGCTCGATTTG
* *
2155098 TAAGTTGCAAGTCAACAACACCCACGCCTCCACCACTCAACAGCTTGCAAACCTTGTTCCAACTC
65 TAAGTTGCAAGTCAACAACACCCAAGCCTCCACCACTCAACAGCTTGCAAACCTTATTCCAACTC
2155163 ACCCAATGCATTTTCTTTTTCTCAACCCCTCTACCCCATAAGAAATTCGACATCAAAGAATTTAA
130 ACCCAATGCATTTTCTTTTTCTCAACCCCTCTACCCCATAAGAAATTCGACATCAAAGAATTTAA
* *
2155228 CCGCTGACAAATAGAAGGCATCTTAAAAATCGATAAGTAGAAGATAGTTAAGGATGACAATACCG
195 CAGCTGACAAATAGAAGGCATCTTAAAAATCGATAAGTAGAAGATAGGTAAGGATGACAATACCG
*
2155293 ACTTAATAAGCACCAATCAACCATCCA
260 ACTTAATAAGCACCAATCAACCAGCCA
2155320 T
1 T
2155321 AGATAAAGAA
Statistics
Matches: 275, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
286 272 0.99
287 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (286 bp):
TTCCAAATAGAGTTGTTTTCATTAGCAAATTTCCAGACCTACTTTCCCAACAATGCTCGATTTGT
AAGTTGCAAGTCAACAACACCCAAGCCTCCACCACTCAACAGCTTGCAAACCTTATTCCAACTCA
CCCAATGCATTTTCTTTTTCTCAACCCCTCTACCCCATAAGAAATTCGACATCAAAGAATTTAAC
AGCTGACAAATAGAAGGCATCTTAAAAATCGATAAGTAGAAGATAGGTAAGGATGACAATACCGA
CTTAATAAGCACCAATCAACCAGCCA
Found at i:2166216 original size:27 final size:27
Alignment explanation
Indices: 2166181--2166236 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2166171 CCGCCATCAC
2166181 CACTTTGAACTTGAAACTCCATAGCAT
1 CACTTTGAACTTGAAACTCCATAGCAT
*
2166208 CACTTTGAACTTGAAAGTCCATAGCAT
1 CACTTTGAACTTGAAACTCCATAGCAT
2166235 CA
1 CA
2166237 AGATCTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCATAGCAT
Found at i:2166820 original size:36 final size:35
Alignment explanation
Indices: 2166748--2166821 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
2166738 AACAATTTGG
*
2166748 AAATATTATATATTTCTTTAAAAATTAAATTCATA
1 AAATATTATATATTTCTTTAAAAATTAAAATCATA
*
2166783 AAAT-TTATATAATTTTTTTATAAAATTGAAAAT-ATA
1 AAATATTATAT-ATTTCTTTA-AAAATT-AAAATCATA
2166819 AAA
1 AAA
2166822 AGGTTTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 6 0.18
35 12 0.35
36 12 0.35
37 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (35 bp):
AAATATTATATATTTCTTTAAAAATTAAAATCATA
Found at i:2167321 original size:224 final size:229
Alignment explanation
Indices: 2166927--2167376 Score: 865
Period size: 224 Copynumber: 2.0 Consensus size: 229
2166917 GATAAATTTG
2166927 TAATTTAACCTTCGTAGAATTTTTATTATTAAATGACAGAATAAATATATTTTTGAAAAAAAAAT
1 TAATTTAACCTTCGTAGAATTTTTATTATTAAATGACAGAATAAATATATTTTTGAAAAAAAAAT
2166992 TAAGGGCATTTTAGTCCAAAACGCCGGTAATCCAACAATTCGTAAGGAAAGGAAGGTAATGACAT
66 TAAGGGCATTTTAGTCCAAAACGCCGGTAATCCAACAATTCGTAAGGAAAGGAAGGTAATGACAT
2167057 TCCCGGTAATATACCCCAAAAAATCTACTATTGGTAATCTTACATTACCGGGAATGGGATTCCCG
131 TCCCGGTAATATACCCCAAAAAATCTACTATTGGTAATCTTACATTACCGGGAATGGGATTCCCG
2167122 GGCTAACCAAACGGGGGAATATGGA-TACATCTC
196 GGCTAACCAAACGGGGGAATATGGATTACATCTC
2167155 TAATTTAACCTTCGTAGAATTTTTATTATTAAATGACAGAAT-AA-ATATTTTTG-AAAAAAAAT
1 TAATTTAACCTTCGTAGAATTTTTATTATTAAATGACAGAATAAATATATTTTTGAAAAAAAAAT
2167217 TAAGGGCATTTTAGTCC-AAACGCCGGTAATCCAACAATTCGTAAGGAAAGGAAGGTAATGACAT
66 TAAGGGCATTTTAGTCCAAAACGCCGGTAATCCAACAATTCGTAAGGAAAGGAAGGTAATGACAT
2167281 TCCCGGTAATATACCCCAAAAAATCTACTATTGGTAATCTTACATTACCGGGAATGGGATTCCCG
131 TCCCGGTAATATACCCCAAAAAATCTACTATTGGTAATCTTACATTACCGGGAATGGGATTCCCG
2167346 GGCTAACCAAACGGGGGAATATGGATTACAT
196 GGCTAACCAAACGGGGGAATATGGATTACAT
2167377 TCTCATGGGA
Statistics
Matches: 221, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
224 137 0.62
225 31 0.14
226 9 0.04
227 2 0.01
228 42 0.19
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (229 bp):
TAATTTAACCTTCGTAGAATTTTTATTATTAAATGACAGAATAAATATATTTTTGAAAAAAAAAT
TAAGGGCATTTTAGTCCAAAACGCCGGTAATCCAACAATTCGTAAGGAAAGGAAGGTAATGACAT
TCCCGGTAATATACCCCAAAAAATCTACTATTGGTAATCTTACATTACCGGGAATGGGATTCCCG
GGCTAACCAAACGGGGGAATATGGATTACATCTC
Found at i:2170931 original size:20 final size:21
Alignment explanation
Indices: 2170894--2170933 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2170884 AAATTAAGTT
2170894 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
2170915 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
2170934 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:2171188 original size:19 final size:19
Alignment explanation
Indices: 2171164--2171202 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2171154 TCGAATGCAT
2171164 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2171183 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2171202 T
1 T
2171203 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2171330 original size:64 final size:64
Alignment explanation
Indices: 2171150--2171312 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
2171140 GAATTAATTG
* * * *
2171150 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** **
2171215 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
2171279 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
2171313 TGGTGCACTG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:2173375 original size:24 final size:25
Alignment explanation
Indices: 2173334--2173381 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
2173324 TGATGATCTT
* *
2173334 AAAACTTCTTTGATAAAGTTGGAAC
1 AAAACTTCTTTGAAAAAGGTGGAAC
2173359 AAAACTT-TTTGAAAAAGGTGGAA
1 AAAACTTCTTTGAAAAAGGTGGAA
2173382 ATTCAAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (25 bp):
AAAACTTCTTTGAAAAAGGTGGAAC
Found at i:2177012 original size:20 final size:21
Alignment explanation
Indices: 2176983--2177038 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
2176973 TTTGCGCTTC
*
2176983 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
2177003 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
2177025 ATGCATCGATGCAT
1 ATGCATCGATGCAT
2177039 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:2178615 original size:21 final size:21
Alignment explanation
Indices: 2178573--2178616 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2178563 ACCCCGGGAG
*
2178573 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
2178594 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
2178615 CT
1 CT
2178617 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:2179421 original size:20 final size:21
Alignment explanation
Indices: 2179384--2179423 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2179374 AAATTAAGTG
2179384 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
2179405 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
2179424 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:2179678 original size:19 final size:19
Alignment explanation
Indices: 2179654--2179692 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2179644 TCGAATGCAT
2179654 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2179673 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2179692 T
1 T
2179693 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Done.