Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008217.1 Hibiscus syriacus cultivar Beakdansim tig00110847_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: 2417150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 14
Found at i:1819230 original size:63 final size:63
Alignment explanation
Indices: 1819086--1819209 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 63
1819076 ACCTAAACCT
* * **
1819086 TAAACCCTAATATATAAACCCTAAACCCTAAACTCTAAACCTTAAATCATATCACAAAAACTC
1 TAAACTCTAATATATAAACCCTAAACCATAAACTAAAAACCTTAAATCATATCACAAAAACTC
*
1819149 TAAACTCTAATATATAAACCCTAAACCATAAACTAAAAACCTTAAATCATATCACATAAAC
1 TAAACTCTAATATATAAACCCTAAACCATAAACTAAAAACCTTAAATCATATCACAAAAAC
1819210 CTTAAATCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (63 bp):
TAAACTCTAATATATAAACCCTAAACCATAAACTAAAAACCTTAAATCATATCACAAAAACTC
Found at i:1819231 original size:84 final size:84
Alignment explanation
Indices: 1819143--1819320 Score: 259
Period size: 84 Copynumber: 2.1 Consensus size: 84
1819133 CATATCACAA
* *
1819143 AAACTCTAAACTCTAATATATAAACCCTAAACCATAAACTAAAAACCTTAAATCATATCACATAA
1 AAACTCTAAACCCTAATATATAAACACTAAACCATAAACTAAAAACCTTAAATCATATCACATAA
* * *
1819208 ACCTT-AAATCTTAAACTCT
66 A-CTTCAAACCATAAACCCT
* * * *
1819227 AAACTCTAACCCCTAATATATAAACACTAAACCCTAAACTATAAACCTTAAATCCTATCACATAA
1 AAACTCTAAACCCTAATATATAAACACTAAACCATAAACTAAAAACCTTAAATCATATCACATAA
1819292 ACTTCAAACCATAAACCCT
66 ACTTCAAACCATAAACCCT
1819311 AAACTCTAAA
1 AAACTCTAAA
1819321 TCTTAAATCA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 3 0.04
84 80 0.96
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.25
Consensus pattern (84 bp):
AAACTCTAAACCCTAATATATAAACACTAAACCATAAACTAAAAACCTTAAATCATATCACATAA
ACTTCAAACCATAAACCCT
Found at i:1819292 original size:42 final size:42
Alignment explanation
Indices: 1819162--1819356 Score: 153
Period size: 42 Copynumber: 4.5 Consensus size: 42
1819152 ACTCTAATAT
* * *
1819162 ATAAACCCTAAACCATAAACTAAAAACCTTAAATCATATCAC
1 ATAAACACTAAACCCTAAACTATAAACCTTAAATCATATCAC
* * * ** * *
1819204 ATAAAC-CTTAAATCTTAAACTCTAAA-CTCTAACCCCTAAT-AT
1 ATAAACAC-TAAACCCTAAACTATAAACCT-TAAATCAT-ATCAC
*
1819246 ATAAACACTAAACCCTAAACTATAAACCTTAAATCCTATCAC
1 ATAAACACTAAACCCTAAACTATAAACCTTAAATCATATCAC
* *
1819288 ATAAACTTCAAACCATAAACCCTAAACTCTAAATCTTAAATCATATCAC
1 ATAAA---C--A-C-TAAACCCTAAACTATAAACCTTAAATCATATCAC
*
1819337 ATAAACTCTAAACCCTAAAC
1 ATAAACACTAAACCCTAAAC
1819357 CTTATAACAT
Statistics
Matches: 122, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
41 5 0.04
42 71 0.58
43 6 0.05
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 36 0.30
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (42 bp):
ATAAACACTAAACCCTAAACTATAAACCTTAAATCATATCAC
Found at i:1819293 original size:28 final size:27
Alignment explanation
Indices: 1819261--1819368 Score: 77
Period size: 28 Copynumber: 4.1 Consensus size: 27
1819251 CACTAAACCC
*
1819261 TAAACTATAAACCTTAAATCCTATCACA
1 TAAACTCTAAACCTTAAA-CCTATCACA
*
1819289 TAAACT-TCAAACCATAAA-C---C-C-
1 TAAACTCT-AAACCTTAAACCTATCACA
* *
1819310 TAAACTCTAAATCTTAAATCATATCACA
1 TAAACTCTAAACCTTAAA-CCTATCACA
* *
1819338 TAAACTCTAAACCCTAAACCTTATAACA
1 TAAACTCTAAACCTTAAACC-TATCACA
1819366 TAA
1 TAA
1819369 TTAGAAGGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
21 14 0.23
22 2 0.03
23 1 0.02
26 2 0.03
27 3 0.05
28 40 0.65
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (27 bp):
TAAACTCTAAACCTTAAACCTATCACA
Found at i:1819307 original size:49 final size:49
Alignment explanation
Indices: 1819254--1819357 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 49
1819244 ATATAAACAC
*
1819254 TAAACCCTAAACTATAAACCTTAAATCCTATCACATAAACT-TCAAACCA
1 TAAACCCTAAACTATAAACCTTAAATCATATCACATAAACTCT-AAACCA
* * *
1819303 TAAACCCTAAACTCTAAATCTTAAATCATATCACATAAACTCTAAACCC
1 TAAACCCTAAACTATAAACCTTAAATCATATCACATAAACTCTAAACCA
1819352 TAAACC
1 TAAACC
1819358 TTATAACATA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 49 0.98
50 1 0.02
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (49 bp):
TAAACCCTAAACTATAAACCTTAAATCATATCACATAAACTCTAAACCA
Found at i:1819762 original size:14 final size:14
Alignment explanation
Indices: 1819745--1819785 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1819735 TTTATTAATC
1819745 AATAATGTATTTTT
1 AATAATGTATTTTT
1819759 AAT-A--TATTTTT
1 AATAATGTATTTTT
*
1819770 AATAATGTAATTTT
1 AATAATGTATTTTT
1819784 AA
1 AA
1819786 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.43
12 1 0.04
13 1 0.04
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:1823905 original size:13 final size:13
Alignment explanation
Indices: 1823887--1823912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1823877 TGCTCTCGGT
1823887 TCTTTTTTTGTTG
1 TCTTTTTTTGTTG
1823900 TCTTTTTTTGTTG
1 TCTTTTTTTGTTG
1823913 ATGATGGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (13 bp):
TCTTTTTTTGTTG
Found at i:1824555 original size:2 final size:2
Alignment explanation
Indices: 1824548--1824582 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1824538 TACTTAATGC
1824548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1824583 ATAATTACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1824877 original size:2 final size:2
Alignment explanation
Indices: 1824870--1824929 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
1824860 CAAATACATG
1824870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1824912 AT AT AT TT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1824930 TAAAACGTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1828420 original size:22 final size:22
Alignment explanation
Indices: 1828392--1828433 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1828382 TCGATACCCC
*
1828392 TACTATGGTATCGATACTTCTA
1 TACTATGATATCGATACTTCTA
1828414 TACTATGATATCGATACTTC
1 TACTATGATATCGATACTTC
1828434 CTTTAGTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (22 bp):
TACTATGATATCGATACTTCTA
Found at i:1832976 original size:24 final size:24
Alignment explanation
Indices: 1832942--1832988 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1832932 GAAACTCATC
* *
1832942 AATAGATAATATCATCATTTATTT
1 AATAGAGAATATCAACATTTATTT
1832966 AATAGAGAATATCAACATTTATT
1 AATAGAGAATATCAACATTTATT
1832989 CAATCAACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (24 bp):
AATAGAGAATATCAACATTTATTT
Found at i:1833084 original size:2 final size:2
Alignment explanation
Indices: 1833077--1833135 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
1833067 TAGGCACCTA
*
1833077 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1833118 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1833136 CAAAATAGTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1836054 original size:252 final size:253
Alignment explanation
Indices: 1835609--1836116 Score: 1009
Period size: 252 Copynumber: 2.0 Consensus size: 253
1835599 ATAAAATTGG
1835609 TTTTAATTTAGTGGCAAAACTAATATATTCTTAAATTTCATTACCTAAAATTATGTCATTTTATC
1 TTTTAATTTAGTGGCAAAACTAATATATTCTTAAATTTCATTACCTAAAATTATGTCATTTTATC
1835674 CATATCACTACAATGCCAAAAAAATCAATCTACATTATTGTACCGTTAAAATTTAACGGTTGAAT
66 CATATCACTACAATGCCAAAAAAATCAATCTACATTATTGTACCGTTAAAATTTAACGGTTGAAT
1835739 GATATATTTAAAGCTAAAATCAAAATCAATATTTTATAATTAAAATAATTGAAAGTTGAATAGTA
131 GATATATTTAAAGCTAAAATCAAAATCAATATTTTATAATTAAAATAATTGAAAGTTGAATAGTA
1835804 TATGTGTACAAGTTTGATATCTA-GTATCTGTTTTTTAAGTAAGATCTGTGTATGCTT
196 TATGTGTACAAGTTTGATATCTATGTATCTGTTTTTTAAGTAAGATCTGTGTATGCTT
1835861 TTTTAATTTAGTGGCAAAACTAATATATTCTTAAATTTCATTACCTAAAATTATGTCATTTTATC
1 TTTTAATTTAGTGGCAAAACTAATATATTCTTAAATTTCATTACCTAAAATTATGTCATTTTATC
1835926 CATATCACTACAATGCCAAAAAAATCAATCTACATTATTGTACCGTTAAAATTTAACGGTTGAAT
66 CATATCACTACAATGCCAAAAAAATCAATCTACATTATTGTACCGTTAAAATTTAACGGTTGAAT
1835991 GATATATTTAAAGCTAAAATCAAAATCAATATTTTATAATTAAAATAATTGAAAGTTGAATAGTA
131 GATATATTTAAAGCTAAAATCAAAATCAATATTTTATAATTAAAATAATTGAAAGTTGAATAGTA
1836056 TATGTGTACAAGTTTGATATCTATGTATCTGTTTTTTAAGTAAGATCTGTGTATGCTT
196 TATGTGTACAAGTTTGATATCTATGTATCTGTTTTTTAAGTAAGATCTGTGTATGCTT
1836114 TTT
1 TTT
1836117 AACCACCAAG
Statistics
Matches: 255, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
252 218 0.85
253 37 0.15
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (253 bp):
TTTTAATTTAGTGGCAAAACTAATATATTCTTAAATTTCATTACCTAAAATTATGTCATTTTATC
CATATCACTACAATGCCAAAAAAATCAATCTACATTATTGTACCGTTAAAATTTAACGGTTGAAT
GATATATTTAAAGCTAAAATCAAAATCAATATTTTATAATTAAAATAATTGAAAGTTGAATAGTA
TATGTGTACAAGTTTGATATCTATGTATCTGTTTTTTAAGTAAGATCTGTGTATGCTT
Found at i:1839761 original size:35 final size:35
Alignment explanation
Indices: 1839717--1839787 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
1839707 CTCTTTATCT
1839717 TTTATATTGCTTTTAGGTTGAGAAGTTCATGGCTC
1 TTTATATTGCTTTTAGGTTGAGAAGTTCATGGCTC
1839752 TTTATATTGCTTTTAGGTTGAGAAGTTCATGGCTC
1 TTTATATTGCTTTTAGGTTGAGAAGTTCATGGCTC
1839787 T
1 T
1839788 CTGGAATGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.20, C:0.11, G:0.23, T:0.46
Consensus pattern (35 bp):
TTTATATTGCTTTTAGGTTGAGAAGTTCATGGCTC
Found at i:1840901 original size:62 final size:62
Alignment explanation
Indices: 1840804--1840926 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
1840794 AAGGATGGAC
*
1840804 AAAAAAAAACATAATGTTGCTTCAGTTCAATCTGAATGCTTTTTTCGAGGGCCAAAACTATT
1 AAAAAAAAACATAATGTTGCTTCAGTTCAATCTGAATGCTTTTTCCGAGGGCCAAAACTATT
*
1840866 AAAAAAACACATAATGTTGCTTCAGTTCAATCTGAATGCTTTTTCCGAGGGCCAAAACTAT
1 AAAAAAAAACATAATGTTGCTTCAGTTCAATCTGAATGCTTTTTCCGAGGGCCAAAACTAT
1840927 GTACTTTATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (62 bp):
AAAAAAAAACATAATGTTGCTTCAGTTCAATCTGAATGCTTTTTCCGAGGGCCAAAACTATT
Found at i:1841573 original size:161 final size:161
Alignment explanation
Indices: 1841308--1841629 Score: 644
Period size: 161 Copynumber: 2.0 Consensus size: 161
1841298 CCACAGCAGA
1841308 GTTGCCCGAACTGGCATCTGTTCCCGCATCCTCCGCAGTTATTCCGATCACGGAGAACATTTCGA
1 GTTGCCCGAACTGGCATCTGTTCCCGCATCCTCCGCAGTTATTCCGATCACGGAGAACATTTCGA
1841373 CAATGCATCTTGCAGCAGTACAGTATGCCGGTCCCGCTGTTCACGGAAATGCCGTTGCATGTATC
66 CAATGCATCTTGCAGCAGTACAGTATGCCGGTCCCGCTGTTCACGGAAATGCCGTTGCATGTATC
1841438 TTGATAGGAGTTTAGTTCGCAATGTGCACCT
131 TTGATAGGAGTTTAGTTCGCAATGTGCACCT
1841469 GTTGCCCGAACTGGCATCTGTTCCCGCATCCTCCGCAGTTATTCCGATCACGGAGAACATTTCGA
1 GTTGCCCGAACTGGCATCTGTTCCCGCATCCTCCGCAGTTATTCCGATCACGGAGAACATTTCGA
1841534 CAATGCATCTTGCAGCAGTACAGTATGCCGGTCCCGCTGTTCACGGAAATGCCGTTGCATGTATC
66 CAATGCATCTTGCAGCAGTACAGTATGCCGGTCCCGCTGTTCACGGAAATGCCGTTGCATGTATC
1841599 TTGATAGGAGTTTAGTTCGCAATGTGCACCT
131 TTGATAGGAGTTTAGTTCGCAATGTGCACCT
1841630 TTCCTGATCT
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (161 bp):
GTTGCCCGAACTGGCATCTGTTCCCGCATCCTCCGCAGTTATTCCGATCACGGAGAACATTTCGA
CAATGCATCTTGCAGCAGTACAGTATGCCGGTCCCGCTGTTCACGGAAATGCCGTTGCATGTATC
TTGATAGGAGTTTAGTTCGCAATGTGCACCT
Found at i:1844629 original size:2 final size:2
Alignment explanation
Indices: 1844622--1844662 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1844612 TATCTACATG
1844622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1844663 TCAACAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1847453 original size:2 final size:2
Alignment explanation
Indices: 1847446--1847490 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
1847436 ATTTTACCTA
*
1847446 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1847487 AT AT
1 AT AT
1847491 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1847533 original size:3 final size:3
Alignment explanation
Indices: 1847525--1847685 Score: 64
Period size: 3 Copynumber: 55.7 Consensus size: 3
1847515 TCTTTGTTCC
1847525 TAT TAT TAT TA- TAT ATAT ATAT T-T TAT T-T TAT TAT T-T T-T TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
1847567 TAT TAT TAC TAT TAT TAT TACT T-T TCT TCT CATT TAT T-T TTT TGT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
* *
1847612 T-T TATT TAT CTCT T-T TAT T-T TAGT T-T TAGT T-T T-T TCT TAT TAT
1 TAT TA-T TAT -TAT TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT
1847655 TAT TAT TAT TCAT TAT T-T TAT TAT T-T TAT TA
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TA
1847686 ATTTCCTTTT
Statistics
Matches: 129, Mismatches: 8, Indels: 42
0.72 0.04 0.23
Matches are distributed among these distances:
2 30 0.23
3 76 0.59
4 23 0.18
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:1849252 original size:20 final size:20
Alignment explanation
Indices: 1849176--1849253 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
1849166 CGTTGCGATT
* *
1849176 TAAATCGCAACGCGATTACG
1 TAAATCGCAATGCGAATACG
* *
1849196 TAAATCGCAATGAGAATTAGG
1 TAAATCGCAATGCGAA-TACG
* *
1849217 AAAATCACAATGCGAATACG
1 TAAATCGCAATGCGAATACG
1849237 TAAATCGCAATGCGAAT
1 TAAATCGCAATGCGAAT
1849254 CTGAGTATCG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 31 0.66
21 16 0.34
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:1849842 original size:21 final size:21
Alignment explanation
Indices: 1849781--1849873 Score: 106
Period size: 20 Copynumber: 4.6 Consensus size: 21
1849771 TTCTAAACTT
*
1849781 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGACGAAAATG
1849801 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGACGAAAATG
**
1849821 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAACGACGA-AAATG
1849842 AAAATCGCAACG-CG-AAATG
1 AAAATCGCAACGACGAAAATG
*
1849861 AAAATTGCAACGA
1 AAAATCGCAACGA
1849874 GATAATCGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.25
20 30 0.48
21 17 0.27
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (21 bp):
AAAATCGCAACGACGAAAATG
Found at i:1849860 original size:40 final size:40
Alignment explanation
Indices: 1849781--1849875 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
1849771 TTCTAAACTT
1849781 AAAATCGCAAC-ATGAAAATGAAAATCGCAACACGAAAATG
1 AAAATCGCAACGA-GAAAATGAAAATCGCAACACGAAAATG
** *
1849821 ACTATCGCAACGAGAGAAATGAAAATCGCAACGCG-AAATG
1 AAAATCGCAACGAGA-AAATGAAAATCGCAACACGAAAATG
*
1849861 AAAATTGCAACGAGA
1 AAAATCGCAACGAGA
1849876 TAATCGTAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 28 0.60
41 19 0.40
ACGTcount: A:0.51, C:0.18, G:0.19, T:0.13
Consensus pattern (40 bp):
AAAATCGCAACGAGAAAATGAAAATCGCAACACGAAAATG
Found at i:1849939 original size:14 final size:14
Alignment explanation
Indices: 1849920--1849975 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
1849910 TTTCATTTCG
1849920 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1849934 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1849953 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1849967 CGTTGCGAT
1 CGTTGCGAT
1849976 AGTCATTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1849945 original size:33 final size:33
Alignment explanation
Indices: 1849903--1849996 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
1849893 CAAAATCGCA
1849903 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1849936 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
1849969 TTGCGATAGTCATTTTCGCGTTGCGATT
1 TTGCGATTTTCA-TTTCGCGTTGCGATT
1849997 TTCATTCTCT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 43 0.74
34 15 0.26
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1850001 original size:20 final size:19
Alignment explanation
Indices: 1849898--1850024 Score: 103
Period size: 20 Copynumber: 7.1 Consensus size: 19
1849888 GAAACCAAAA
*
1849898 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1849917 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1849931 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1849950 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1849964 TCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTTTCA-TT
1849984 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1850003 CTCTCGTTGTGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1850023 TC
1 TC
1850025 AACCAAAAGA
Statistics
Matches: 86, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 5 0.06
17 6 0.07
19 24 0.28
20 31 0.36
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1851856 original size:94 final size:94
Alignment explanation
Indices: 1851695--1852074 Score: 624
Period size: 94 Copynumber: 4.1 Consensus size: 94
1851685 TAGATTGCTT
*
1851695 AGTAAATTTATTCGGTTTGCTGCC-AATACTGCTAAA-TGTTTATTCTTTAACACTGTGAAGTTA
1 AGTAAATTTATTCGG-TTGCTGCCAAAT-CTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTA
1851758 GTATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
64 GTATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
1851789 AGTAAATTTATTCGGTTGCTGCCAAATCTTCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAAATCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1851854 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
1851883 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAAATCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
1851948 ATTTGTCTTTGTTTTGTCTTTTGATTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
1851977 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAAATCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1852042 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
1852070 AGTAA
1 AGTAA
1852075 TGCAATCCAT
Statistics
Matches: 274, Mismatches: 9, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
93 41 0.15
94 233 0.85
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAAATCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1852240 original size:19 final size:19
Alignment explanation
Indices: 1852218--1852282 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
1852208 GAAACTATAA
1852218 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1852237 T--C---GC-ATTTTGATT
1 TCGCGTTGCGATTTTCATT
*
1852250 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1852270 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1852283 CTCTCGTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
13 8 0.22
14 3 0.08
16 1 0.03
17 1 0.03
19 15 0.42
20 8 0.22
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.48
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1852303 original size:33 final size:33
Alignment explanation
Indices: 1852221--1852295 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
1852211 ACTATAATCG
* **
1852221 CGTTGCGATTTTCATTTCGCATTTTGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1852254 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1852287 CGTTGCGAT
1 CGTTGCGAT
1852296 AGTCATTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:1853223 original size:14 final size:14
Alignment explanation
Indices: 1853204--1853239 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1853194 ATTGTTTAAT
1853204 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1853218 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1853232 TGATTTGT
1 TGATTTGT
1853240 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1853391 original size:33 final size:33
Alignment explanation
Indices: 1853346--1853425 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
1853336 AAAAATGACT
* * *
1853346 ATCGCAATGCGAAATGAAAATCGCAACAAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
*
1853379 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
1853412 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1853426 CTAAATTCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:1853405 original size:19 final size:19
Alignment explanation
Indices: 1853346--1853406 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
1853336 AAAAATGACT
*
1853346 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1853365 ATCGCAA--C--AA-GAGA
1 ATCGCAACGCGAAATGAAA
1853379 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1853398 ATCGCAACG
1 ATCGCAACG
1853407 ACAAAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 19 0.54
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1853477 original size:33 final size:32
Alignment explanation
Indices: 1853435--1853556 Score: 171
Period size: 33 Copynumber: 3.9 Consensus size: 32
1853425 ACTAAATTCG
*
1853435 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
*
1853468 CGTTGCGATTTTCATTTCGCAATGCGA-T--T
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCT
1853497 C-TTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
1853529 CGTTGCGATTTTCGTTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1853557 AGTCATTTCC
Statistics
Matches: 80, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
28 24 0.30
29 3 0.04
32 3 0.04
33 50 0.62
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:1853522 original size:19 final size:18
Alignment explanation
Indices: 1853498--1853556 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
1853488 AATGCGATTC
1853498 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTC-TTTCGCA
*
1853517 TTGCGA--TTCTCTCG--
1 TTGCGATTTTCTTTCGCA
1853531 TTGCGATTTTCGTTTCGCA
1 TTGCGATTTTC-TTTCGCA
1853550 TTGCGAT
1 TTGCGAT
1853557 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (18 bp):
TTGCGATTTTCTTTCGCA
Found at i:1853532 original size:61 final size:61
Alignment explanation
Indices: 1853437--1853556 Score: 204
Period size: 61 Copynumber: 2.0 Consensus size: 61
1853427 TAAATTCGCG
*
1853437 TTGCGATTTTCATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCATTTCGCAATGCGATTC
1 TTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCAATGCGATTC
* * *
1853498 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCGTTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCAATGCGAT
1853557 AGTCATTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (61 bp):
TTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCAATGCGATTC
Found at i:1853622 original size:20 final size:20
Alignment explanation
Indices: 1853550--1853622 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
1853540 TCGTTTCGCA
*
1853550 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* * **
1853570 TTACGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
1853590 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
1853611 TTGCGATAGTCA
1 TTGCGATAGTCA
1853623 AATGAATGCC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.56
21 11 0.28
22 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:1856108 original size:13 final size:13
Alignment explanation
Indices: 1856090--1856116 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1856080 AAATCTGAGT
1856090 ATTGACCAAGATC
1 ATTGACCAAGATC
1856103 ATTGACCAAGATC
1 ATTGACCAAGATC
1856116 A
1 A
1856117 AATTTCGAAT
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:0.22, G:0.15, T:0.22
Consensus pattern (13 bp):
ATTGACCAAGATC
Found at i:1860646 original size:24 final size:24
Alignment explanation
Indices: 1860601--1860648 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1860591 AACGTTAAAG
* * *
1860601 ATCTAACTACAGTTAACCTTCAAT
1 ATCTAACGACAGTCAACATTCAAT
*
1860625 ATCTAACGATAGTCAACATTCAAT
1 ATCTAACGACAGTCAACATTCAAT
1860649 GATTAAGTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (24 bp):
ATCTAACGACAGTCAACATTCAAT
Found at i:1865527 original size:23 final size:23
Alignment explanation
Indices: 1865492--1865547 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
1865482 ATTTTTAATA
*
1865492 AAAAGATTATTTTTTTCATTAACT
1 AAAA-ATTATTTTTTTAATTAACT
**
1865516 AAAAATTATTTTTTTAATTATTT
1 AAAAATTATTTTTTTAATTAACT
1865539 AAAAATTAT
1 AAAAATTAT
1865548 ATACGTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
AAAAATTATTTTTTTAATTAACT
Found at i:1868802 original size:2 final size:2
Alignment explanation
Indices: 1868795--1868999 Score: 210
Period size: 2 Copynumber: 102.0 Consensus size: 2
1868785 TATACAAATT
1868795 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CT- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * *
1868836 CA TA CA TA TA CA TA TA TA CT- TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
*
1868877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
1868920 TA TA TA TA -A TG TA TA GTT TA TA TA TT TA TA CTA TA TA GT- TCA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA T-A
1868962 TA TA CT- TA TA CT- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1869000 AGTAGATTAG
Statistics
Matches: 172, Mismatches: 14, Indels: 34
0.78 0.06 0.15
Matches are distributed among these distances:
1 8 0.05
2 154 0.90
3 10 0.06
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1869045 original size:2 final size:2
Alignment explanation
Indices: 1869038--1869073 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1869028 CAAATGGACT
* *
1869038 TA TA TA TA TA TA TA TA TA TA TA TA CA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1869074 CTTAATTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:1869209 original size:9 final size:8
Alignment explanation
Indices: 1869191--1869266 Score: 57
Period size: 8 Copynumber: 9.2 Consensus size: 8
1869181 TGCCTATGCT
1869191 TATATCTTA
1 TATAT-TTA
1869200 TATACTTTA
1 TATA-TTTA
1869209 TATA-TTA
1 TATATTTA
*
1869216 TATATATA
1 TATATTTA
*
1869224 CTA-ATTAA
1 -TATATTTA
*
1869232 TATATATA
1 TATATTTA
*
1869240 TATATATA
1 TATATTTA
*
1869248 TATATATA
1 TATATTTA
1869256 TATATATTA
1 TATAT-TTA
1869265 TA
1 TA
1869267 CATAAGTAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
7 9 0.16
8 29 0.52
9 17 0.30
10 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATTTA
Found at i:1869212 original size:2 final size:2
Alignment explanation
Indices: 1869207--1869266 Score: 76
Period size: 2 Copynumber: 32.0 Consensus size: 2
1869197 TTATATACTT
1869207 TA TA TA T- TA TA TA TA TA CTA -A T- TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
1869246 TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
1869267 CATAAGTAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
1 5 0.10
2 45 0.87
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1869541 original size:16 final size:15
Alignment explanation
Indices: 1869520--1869707 Score: 57
Period size: 14 Copynumber: 12.8 Consensus size: 15
1869510 ATTTATTTCA
1869520 ATATATACATATACTT
1 ATATAT-CATATACTT
*
1869536 ATATATTATATACTT
1 ATATATCATATACTT
*
1869551 -TATACTTATATA-TAT
1 ATATA-TCATATACT-T
* *
1869566 ATAGTTTTATATACTT
1 ATA-TATCATATACTT
1869582 ATATAT-ATATACACACTT
1 ATATATCATAT----ACTT
* * * *
1869600 ATGTA-CACACA-TC
1 ATATATCATATACTT
*
1869613 ATACAT-ATATACTT
1 ATATATCATATACTT
*
1869627 ATGTAT-ATAT--TT
1 ATATATCATATACTT
*
1869639 GTATAT-ATATACTT
1 ATATATCATATACTT
1869653 -TATAGCTCATATACTT
1 ATATA--TCATATACTT
1869669 ATATAT-ATATA-TAT
1 ATATATCATATACT-T
1869683 ATATAT-ATATA-TAT
1 ATATATCATATACT-T
1869697 ATATAT-ATATA
1 ATATATCATATA
1869708 TACACACACA
Statistics
Matches: 137, Mismatches: 16, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
12 10 0.07
13 12 0.09
14 52 0.38
15 20 0.15
16 27 0.20
17 6 0.04
18 10 0.07
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATATCATATACTT
Found at i:1869554 original size:22 final size:21
Alignment explanation
Indices: 1869520--1869593 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 21
1869510 ATTTATTTCA
*
1869520 ATATATAC-ATATACTTATAT
1 ATATATACTTTATACTTATAT
1869540 ATTATATACTTTATACTTATAT
1 A-TATATACTTTATACTTATAT
*
1869562 ATATATAGTTTTATATACTTATAT
1 ATATATA--CTT-TATACTTATAT
1869586 ATATATAC
1 ATATATAC
1869594 ACACTTATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.02
21 13 0.28
22 12 0.26
23 2 0.04
24 18 0.39
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (21 bp):
ATATATACTTTATACTTATAT
Found at i:1869592 original size:24 final size:24
Alignment explanation
Indices: 1869521--1869586 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 24
1869511 TTTATTTCAA
*
1869521 TATATACATATACTTATATA-TTA
1 TATATATATATACTTATATACTTA
1869544 TATACT-T-TATACTTATATA--TA
1 TATA-TATATATACTTATATACTTA
*
1869565 TATAGTTTTATATACTTATATA
1 TATA--TATATATACTTATATA
1869587 TATATACACA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 6 0.16
22 13 0.35
23 5 0.14
24 13 0.35
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.52
Consensus pattern (24 bp):
TATATATATATACTTATATACTTA
Found at i:1869675 original size:2 final size:2
Alignment explanation
Indices: 1869668--1869709 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1869658 CTCATATACT
1869668 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1869710 CACACACACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1869837 original size:48 final size:48
Alignment explanation
Indices: 1869785--1869882 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
1869775 TACATACATC
1869785 ATGCATAAATACATATAGATATATATCATTGATCAATGATAAGTATGT
1 ATGCATAAATACATATAGATATATATCATTGATCAATGATAAGTATGT
*
1869833 ATGCATAAATACATATAGATATATATCATTGATCAATGATAAGTGTGT
1 ATGCATAAATACATATAGATATATATCATTGATCAATGATAAGTATGT
1869881 AT
1 AT
1869883 ATATATATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (48 bp):
ATGCATAAATACATATAGATATATATCATTGATCAATGATAAGTATGT
Found at i:1870556 original size:46 final size:46
Alignment explanation
Indices: 1870500--1870965 Score: 799
Period size: 46 Copynumber: 10.2 Consensus size: 46
1870490 TCCATTTATA
* * *
1870500 CATTTAAATTATGGCATCCATTCATGCCCTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
1870546 CATTTTAATTATGGCATCCTTTCATACCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
1870592 CATTTCAATTATGGCATCCTTTCATGTCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* * *
1870638 CATTTTAATTATGTCACCCTTTCATGCCTTAATGTATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1870684 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1870730 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1870776 CATTTTAATTATGGC-TCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
1870821 CATTTTAATTATGGTATCCTTTCATGCTTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
1870867 CAATTTAATTATGGCATCCTTTCATGCATTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
1870913 CATTTTAATTATGGCGTCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1870959 CATTTTA
1 CATTTTA
1870966 CATACTCTAA
Statistics
Matches: 396, Mismatches: 23, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
45 44 0.11
46 352 0.89
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.44
Consensus pattern (46 bp):
CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
Found at i:1871450 original size:20 final size:20
Alignment explanation
Indices: 1871425--1871481 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
1871415 TGATGTTTCC
*
1871425 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCCTACCA
*
1871445 TGGTATCGATACTACCCTACTA
1 TGGTATCGATAC--CCCTACCA
*
1871467 TGGTACCGATACCCC
1 TGGTATCGATACCCC
1871482 CTTACGGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 15 0.47
22 17 0.53
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.28
Consensus pattern (20 bp):
TGGTATCGATACCCCTACCA
Found at i:1871515 original size:95 final size:95
Alignment explanation
Indices: 1871370--1871555 Score: 295
Period size: 95 Copynumber: 2.0 Consensus size: 95
1871360 ACTTCTATAT
* *
1871370 TATGGTACCGATACCCCCTTCTGGTATCGATACCAAGTTTAACTTTGATGTTTCCTGGTATCGAT
1 TATGGTACCGATACCCCCTTCTGGTATCGATACCAAGTTTAACTTCGATGTTGCCTGGTATCGAT
1871435 ACCCTTACCATGGTATCGATACTACCCTAC
66 ACCCTTACCATGGTATCGATACTACCCTAC
* *
1871465 TATGGTACCGATACCCCCTTAC-GGTATCGATACCGATTTTAGA-TTCGATGTTGCCTGGTATCG
1 TATGGTACCGATACCCCCTT-CTGGTATCGATACCAAGTTTA-ACTTCGATGTTGCCTGGTATCG
*
1871528 ATACCCTTACTATGGTATCGATACTACC
64 ATACCCTTACCATGGTATCGATACTACC
1871556 TCGATACTAC
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
95 82 0.98
96 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (95 bp):
TATGGTACCGATACCCCCTTCTGGTATCGATACCAAGTTTAACTTCGATGTTGCCTGGTATCGAT
ACCCTTACCATGGTATCGATACTACCCTAC
Found at i:1877588 original size:26 final size:26
Alignment explanation
Indices: 1877559--1877807 Score: 197
Period size: 26 Copynumber: 10.5 Consensus size: 26
1877549 TGCCCTAATG
1877559 CATCCTTTCATGCATTTTAATTATGA
1 CATCCTTTCATGCATTTTAATTATGA
1877585 CATCCTTTCATGCATTTTAATTATGA
1 CATCCTTTCATGCATTTTAATTATGA
* *
1877611 CATCATTTCATGC--CTT-A--ATG-
1 CATCCTTTCATGCATTTTAATTATGA
*
1877631 CATTCTTTCATGCATTTTAATTATGA
1 CATCCTTTCATGCATTTTAATTATGA
* *
1877657 CATACTTTCATG--TCTT-A--ATG-
1 CATCCTTTCATGCATTTTAATTATGA
1877677 CATCCTTTCATGCATTTTAATTATGA
1 CATCCTTTCATGCATTTTAATTATGA
*
1877703 CATCCTTTCATGC--CTT-A--ATG-
1 CATCCTTTCATGCATTTTAATTATGA
* *
1877723 CAACATTTCATGCATTTTAATTATGGA
1 CATCCTTTCATGCATTTTAATTAT-GA
*
1877750 -ATCCTTTCATGC--CTT-A--AT-A
1 CATCCTTTCATGCATTTTAATTATGA
* *
1877769 CATCATTTCATGCATTTTAATTATGG
1 CATCCTTTCATGCATTTTAATTATGA
* *
1877795 TATCTTTTCATGC
1 CATCCTTTCATGC
1877808 CTTAAGGCAT
Statistics
Matches: 176, Mismatches: 21, Indels: 52
0.71 0.08 0.21
Matches are distributed among these distances:
19 1 0.01
20 44 0.25
21 11 0.06
22 9 0.05
23 8 0.05
24 9 0.05
25 10 0.06
26 84 0.48
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (26 bp):
CATCCTTTCATGCATTTTAATTATGA
Found at i:1877639 original size:46 final size:46
Alignment explanation
Indices: 1877585--1877827 Score: 339
Period size: 46 Copynumber: 5.3 Consensus size: 46
1877575 TTAATTATGA
*
1877585 CATCCTTTCATGCATTTTAATTATGACATCATTTCATGCCTTAATG
1 CATCATTTCATGCATTTTAATTATGACATCATTTCATGCCTTAATG
*
1877631 CATTC-TTTCATGCATTTTAATTATGACAT-ACTTTCATGTCTTAATG
1 CA-TCATTTCATGCATTTTAATTATGACATCA-TTTCATGCCTTAATG
* *
1877677 CATCCTTTCATGCATTTTAATTATGACATCCTTTCATGCCTTAATG
1 CATCATTTCATGCATTTTAATTATGACATCATTTCATGCCTTAATG
* * *
1877723 CAACATTTCATGCATTTTAATTATGGA-ATCCTTTCATGCCTTAATA
1 CATCATTTCATGCATTTTAATTAT-GACATCATTTCATGCCTTAATG
** * *
1877769 CATCATTTCATGCATTTTAATTATGGTATCTTTTCATGCCTTAAGG
1 CATCATTTCATGCATTTTAATTATGACATCATTTCATGCCTTAATG
1877815 CATCATTTCATGC
1 CATCATTTCATGC
1877828 CTTAGTGCAT
Statistics
Matches: 180, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
45 4 0.02
46 172 0.96
47 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (46 bp):
CATCATTTCATGCATTTTAATTATGACATCATTTCATGCCTTAATG
Found at i:1877641 original size:20 final size:20
Alignment explanation
Indices: 1877616--1877735 Score: 62
Period size: 20 Copynumber: 5.4 Consensus size: 20
1877606 TATGACATCA
*
1877616 TTTCATGCCTTAATGCATTC
1 TTTCATGCCTTAATGCATAC
*
1877636 TTTCATGCATTTTAATTATGACATAC
1 TTTCATGC--CTT-A--ATG-CATAC
* *
1877662 TTTCATGTCTTAATGCATCC
1 TTTCATGCCTTAATGCATAC
* *
1877682 TTTCATGCATTTTAATTATGACATCC
1 TTTCATGC--CTT-A--ATG-CATAC
1877708 TTTCATGCCTTAATGCA-AC
1 TTTCATGCCTTAATGCATAC
1877727 ATTTCATGC
1 -TTTCATGC
1877736 ATTTTAATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
19 1 0.01
20 29 0.37
21 6 0.08
22 4 0.05
23 4 0.05
24 4 0.05
25 6 0.08
26 24 0.31
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (20 bp):
TTTCATGCCTTAATGCATAC
Found at i:1877779 original size:20 final size:20
Alignment explanation
Indices: 1877754--1877884 Score: 73
Period size: 20 Copynumber: 6.0 Consensus size: 20
1877744 TATGGAATCC
1877754 TTTCATGCCTTAATACATCA
1 TTTCATGCCTTAATACATCA
* * *
1877774 TTTCATGCATTTTAATTATGGTATCT
1 TTTCATGC--CTTAA-TA---CATCA
**
1877800 TTTCATGCCTTAAGGCATCA
1 TTTCATGCCTTAATACATCA
* *
1877820 TTTCATGCCTTAGTGCATCA
1 TTTCATGCCTTAATACATCA
* *
1877840 TTTCATGCATTTTAATTATGGCATCT
1 TTTCATGC--CTTAA-TA---CATCA
1877866 TTTCATGCCTTAATACATC
1 TTTCATGCCTTAATACATC
1877885 CTTCCATGCA
Statistics
Matches: 84, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
20 41 0.49
22 7 0.08
23 5 0.06
24 8 0.10
26 23 0.27
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (20 bp):
TTTCATGCCTTAATACATCA
Found at i:1877870 original size:92 final size:92
Alignment explanation
Indices: 1877556--1877873 Score: 280
Period size: 92 Copynumber: 3.4 Consensus size: 92
1877546 TCATGCCCTA
* *
1877556 ATGCATCCTTTCATGCATTTTAATTATGACATCCTTTCATGCATTTTAATTATGACATCATTTCA
1 ATGCATCATTTCATGC-TCTTAA-TATG-CATCCTTTCATGCATTTTAATTATGACATCATTTCA
* *
1877621 TGCCTTAATGCATTC-TTTCATGCATTTTAATT
63 TGCCTTAAGGCA-TCATTTCATGCA-CTTAA-T
*
1877653 ATGACAT-ACTTTCATG-TCTT-A-ATGCATCCTTTCATGCATTTTAATTATGACATCCTTTCAT
1 ATG-CATCA-TTTCATGCTCTTAATATGCATCCTTTCATGCATTTTAATTATGACATCATTTCAT
* * *
1877714 GCCTTAATGCAACATTTCATGCATTTTAATT
64 GCCTTAAGGCATCATTTCATGCA-CTTAA-T
* * * ** *
1877745 ATGGAATCCTTTCATGC-CTTAATA--CATCATTTCATGCATTTTAATTATGGTATCTTTTCATG
1 AT-GCATCATTTCATGCTCTTAATATGCATCCTTTCATGCATTTTAATTATGACATCATTTCATG
1877807 CCTTAAGGCATCATTTCATGC-CTT-A-
65 CCTTAAGGCATCATTTCATGCACTTAAT
* * *
1877832 GTGCATCATTTCATGCATTTTAATTATGGCATCTTTTCATGC
1 ATGCATCATTTCATGC-TCTTAA-TAT-GCATCCTTTCATGC
1877874 CTTAATACAT
Statistics
Matches: 189, Mismatches: 18, Indels: 33
0.79 0.08 0.14
Matches are distributed among these distances:
86 12 0.06
87 1 0.01
88 4 0.02
89 3 0.02
90 2 0.01
91 1 0.01
92 143 0.76
93 5 0.03
94 1 0.01
95 1 0.01
96 3 0.02
97 3 0.02
98 10 0.05
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.44
Consensus pattern (92 bp):
ATGCATCATTTCATGCTCTTAATATGCATCCTTTCATGCATTTTAATTATGACATCATTTCATGC
CTTAAGGCATCATTTCATGCACTTAAT
Found at i:1877870 original size:138 final size:138
Alignment explanation
Indices: 1877537--1877873 Score: 370
Period size: 138 Copynumber: 2.4 Consensus size: 138
1877527 TTTAAATTAT
* * *
1877537 GGCATCCA-TTCATGCCCTAATGCATCCTTTCATGCATTTTAATTATGACATCCTTTCATGCATT
1 GGCAT-CATTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCATTTCATGCATT
*
1877601 TTAATTATGACATCATTTCATGCCTTAATGCATTCTTTCATGCATTTTAATTATGACATACTTTC
65 TTAATTATGACATCATTTCATGCCTTAATACATTCTTTCATGCATTTTAATTATGACATACTTTC
*
1877666 ATGTCTTAA
130 ATGCCTTAA
* * * * *
1877675 TGCATCCTTTCATGCATTTTAATTATGACATCCTTTCATGC--CTT-A--AT-GCAACATTTCAT
1 GGCATCATTTCATGC--CTT-A--ATG-CATCCTTTCATGCATTTTAATTATGGCATCATTTCAT
* **
1877734 GCATTTTAATTATGGA-ATCCTTTCATGCCTTAATACA-TCATTTCATGCATTTTAATTATGGTA
60 GCATTTTAATTAT-GACATCATTTCATGCCTTAATACATTC-TTTCATGCATTTTAATTATGACA
1877797 T-CTTTTCATGCCTTAA
123 TAC-TTTCATGCCTTAA
* * *
1877813 GGCATCATTTCATGCCTTAGTGCATCATTTCATGCATTTTAATTATGGCATCTTTTCATGC
1 GGCATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCATTTCATGC
1877874 CTTAATACAT
Statistics
Matches: 162, Mismatches: 21, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
132 12 0.07
133 2 0.01
134 2 0.01
135 2 0.01
136 2 0.01
137 6 0.04
138 111 0.69
139 4 0.02
140 1 0.01
141 2 0.01
142 2 0.01
143 3 0.02
144 13 0.08
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.43
Consensus pattern (138 bp):
GGCATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATCATTTCATGCATTT
TAATTATGACATCATTTCATGCCTTAATACATTCTTTCATGCATTTTAATTATGACATACTTTCA
TGCCTTAA
Found at i:1877893 original size:66 final size:66
Alignment explanation
Indices: 1877539--1877893 Score: 226
Period size: 66 Copynumber: 5.2 Consensus size: 66
1877529 TAAATTATGG
* * * * * * *
1877539 CATCCATTCATGCCCTAATGCATCCTTTCATGCATTTTAATTATGACATCCTTTCATGCATTTTA
1 CATCCTTTCATGCCTTAATACATCATTTCATGCATTTTAATTATGGCATCTTTTCATGC--CTT-
1877604 ATTATGA
63 A--A-GA
* * * *
1877611 CATCATTTCATGCCTTAATGCATTC-TTTCATGCATTTTAATTATGACATAC-TTTCATGTCTTA
1 CATCCTTTCATGCCTTAATACA-TCATTTCATGCATTTTAATTATGGCAT-CTTTTCATGCCTTA
1877674 ATG-
64 A-GA
* * * * *
1877677 CATCCTTTCATGCATTTTAATTATGACATCCTTTCATGC--CTT-A--AT-GCAACATTTCATGC
1 CATCCTTTCATGC--CTT-A--AT-ACATCATTTCATGCATTTTAATTATGGCATCTTTTCATGC
*
1877736 ATTTTAATTATGGA
60 --CTT-A--A--GA
*
1877750 -ATCCTTTCATGCCTTAATACATCATTTCATGCATTTTAATTATGGTATCTTTTCATGCCTTAAG
1 CATCCTTTCATGCCTTAATACATCATTTCATGCATTTTAATTATGGCATCTTTTCATGCCTTAAG
*
1877814 G
66 A
* * * *
1877815 CATCATTTCATGCCTTAGTGCATCATTTCATGCATTTTAATTATGGCATCTTTTCATGCCTTAAT
1 CATCCTTTCATGCCTTAATACATCATTTCATGCATTTTAATTATGGCATCTTTTCATGCCTTAAG
1877880 A
66 A
*
1877881 CATCCTTCCATGC
1 CATCCTTTCATGC
1877894 ATTTTACATA
Statistics
Matches: 229, Mismatches: 30, Indels: 54
0.73 0.10 0.17
Matches are distributed among these distances:
65 2 0.01
66 104 0.45
67 8 0.03
68 6 0.03
69 7 0.03
70 8 0.03
71 7 0.03
72 84 0.37
73 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (66 bp):
CATCCTTTCATGCCTTAATACATCATTTCATGCATTTTAATTATGGCATCTTTTCATGCCTTAAG
A
Found at i:1879037 original size:20 final size:20
Alignment explanation
Indices: 1878993--1879031 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1878983 GAGGGTTCAT
1878993 AGGTCCTTCGGGACATACAG
1 AGGTCCTTCGGGACATACAG
1879013 AGGTCCTTCGGGACATACA
1 AGGTCCTTCGGGACATACA
1879032 TTGGTCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.21
Consensus pattern (20 bp):
AGGTCCTTCGGGACATACAG
Found at i:1882446 original size:20 final size:20
Alignment explanation
Indices: 1882421--1882512 Score: 184
Period size: 20 Copynumber: 4.6 Consensus size: 20
1882411 GTTAAAGGGA
1882421 TGTACCGATACACTATAGAG
1 TGTACCGATACACTATAGAG
1882441 TGTACCGATACACTATAGAG
1 TGTACCGATACACTATAGAG
1882461 TGTACCGATACACTATAGAG
1 TGTACCGATACACTATAGAG
1882481 TGTACCGATACACTATAGAG
1 TGTACCGATACACTATAGAG
1882501 TGTACCGATACA
1 TGTACCGATACA
1882513 TACCTTAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (20 bp):
TGTACCGATACACTATAGAG
Found at i:1883257 original size:20 final size:20
Alignment explanation
Indices: 1883232--1883284 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1883222 GGGTTCATAA
1883232 GTCCTTCGGGACATACAGAG
1 GTCCTTCGGGACATACAGAG
*
1883252 GTCCTTCGGGACATACATAG
1 GTCCTTCGGGACATACAGAG
*
1883272 GTCATTCGGGACA
1 GTCCTTCGGGACA
1883285 AATTTCACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (20 bp):
GTCCTTCGGGACATACAGAG
Found at i:1884298 original size:94 final size:95
Alignment explanation
Indices: 1884150--1884337 Score: 281
Period size: 94 Copynumber: 2.0 Consensus size: 95
1884140 GATACTTCTA
* * *
1884150 TACTATGGTACCGATACTCCCTTCCGGTATCGATACCAATTTTAACTTCGATGTTTCCTGGTAGC
1 TACTATGATACCGATACTCCCTTACGGTATCGATACCAATTTTAACTTCGATGTTGCCTGGTAGC
* * *
1884215 GATACCCTTATCGTGGTATTGATACTACCC
66 GATACCCTTACCATGGTATCGATACTACCC
* *
1884245 TACTATGATACCGATAC-CCCTTACGGTATCGATACCGATTTTAGA-TTCGATGTTGCCTGGTAT
1 TACTATGATACCGATACTCCCTTACGGTATCGATACCAATTTTA-ACTTCGATGTTGCCTGGTAG
1884308 CGATACCCTTACCATGGTATCGATACTACC
65 CGATACCCTTACCATGGTATCGATACTACC
1884338 TCGTAGGTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
94 67 0.80
95 17 0.20
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (95 bp):
TACTATGATACCGATACTCCCTTACGGTATCGATACCAATTTTAACTTCGATGTTGCCTGGTAGC
GATACCCTTACCATGGTATCGATACTACCC
Found at i:1885379 original size:2 final size:2
Alignment explanation
Indices: 1885368--1885400 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1885358 TATTTCAAAA
1885368 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1885401 AGTATAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1888719 original size:20 final size:20
Alignment explanation
Indices: 1888694--1888731 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1888684 ATACCAGGTA
*
1888694 AAAATGATAAAATCGGTATC
1 AAAATGATAAAACCGGTATC
1888714 AAAATGATAAAACCGGTA
1 AAAATGATAAAACCGGTA
1888732 AAACGTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.21
Consensus pattern (20 bp):
AAAATGATAAAACCGGTATC
Found at i:1888889 original size:20 final size:19
Alignment explanation
Indices: 1888866--1888912 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1888856 CGATATAGCA
1888866 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
1888886 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
1888906 GGTAAAA
1 GGTAAAA
1888913 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1888909 original size:178 final size:178
Alignment explanation
Indices: 1888483--1888945 Score: 607
Period size: 175 Copynumber: 2.6 Consensus size: 178
1888473 GATCCAAATT
* * * *
1888483 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATAAT
1 AAAAATGTATCGAT-CAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCA-AAATGAT
* * * * *
1888547 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTAC-TTAATAAGGATCGACACTTCG
64 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATAAGGATCGACACTTCG
* *
1888611 TGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTT
129 TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
* * * *
1888661 AAAAATGTATCGATCCAAATGATATACCAGGT-AAAA-ATGATAAAATCGGTATCAAAATGATAA
1 AAAAATGTATCGATCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAA
* *
1888724 AACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTTATATAAGGATCGACACTTTGT
66 AACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTA-ATAAGGATCGACACTTCGT
* ** *
1888789 GAA-TT-AAAGAGAA-TAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
130 GAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTT-A
* *
1888836 AAAAATATATCGATCAACAACGATATAGCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCAA-AACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
1888901 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
1888946 CGTAAGTACG
Statistics
Matches: 250, Mismatches: 28, Indels: 14
0.86 0.10 0.05
Matches are distributed among these distances:
174 27 0.11
175 81 0.32
176 22 0.09
177 40 0.16
178 80 0.32
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (178 bp):
AAAAATGTATCGATCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAA
AACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATAAGGATCGACACTTCGTG
AATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTA
Found at i:1888914 original size:17 final size:19
Alignment explanation
Indices: 1888875--1888917 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1888865 AGGTAAAAAT
1888875 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
1888895 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
1888912 ATGATA
1 ATGATA
1888918 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:1891145 original size:21 final size:21
Alignment explanation
Indices: 1891121--1891164 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1891111 AAGACAATCA
1891121 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1891142 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1891163 AG
1 AG
1891165 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1891240 original size:33 final size:33
Alignment explanation
Indices: 1891198--1891260 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
1891188 AAATAGATGG
*
1891198 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1891231 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGG
1891261 GATATTAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1893047 original size:19 final size:19
Alignment explanation
Indices: 1893023--1893071 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1893013 AATGTAGGGT
1893023 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1893042 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1893061 TATTTTTGTAT
1 TAATTTTGTAT
1893072 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1894031 original size:199 final size:199
Alignment explanation
Indices: 1893188--1894352 Score: 1891
Period size: 199 Copynumber: 5.9 Consensus size: 199
1893178 CAATATGGCC
*
1893188 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
1893253 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
1893318 GAATATGTCTAAATAATGA-GTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGA
130 GAATATGTCTAAATAAT-ATGTCGACACTTTTTAAATTAGTGTCGATATTTTTGGTCCAGAATGA
1893382 ATGGAA
194 ATGGAA
* *
1893388 AACAGGGTGCAACCATAAAGTGTCGATCTATATATAAAAAGTGGCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
1893453 CCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * * *
1893518 GAATATGTCTAAATAATGTGTCG--ACTTTTTTAGTTTGTGTCGATA-TTTTGGTCCAGAATGAA
130 GAATATGTCTAAATAATATGTCGACACTTTTTAAATTAGTGTCGATATTTTTGGTCCAGAATGAA
1893580 TGGAA
195 TGGAA
* *
1893585 AACAGGGTGCAACCATAAAGTGTCGATTCATATATAAAAAGTGGCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
1893650 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
**
1893715 -A-ATGTCTAAAT-A-ATGTCGACACTTTTTTAGTTTA-TGTCGATATTTTTGGTCCAGAATGAA
131 AATATGTCTAAATAATATGTCGACAC-TTTTTAAATTAGTGTCGATATTTTTGGTCCAGAATGAA
1893775 TGGAA
195 TGGAA
*
1893780 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1893845 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
** ** *
1893910 AATATGTCTAAATAATATGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCTAGAATGAAT
131 AATATGTCTAAATAATATGTCGACACTTTTTAAATTAGTGTCGATATTTTTGGTCCAGAATGAAT
1893975 GGAA
196 GGAA
*
1893979 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAATGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
1894044 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* ** **
1894109 AATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATATGTCGACACTTTTTAAATTAGTGTCGATATTTTTGGTCCAGAATGAAT
1894174 GGAA
196 GGAA
* * *
1894178 AACAGTGTACAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1894243 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* * * *
1894308 AATATGTCTAAATAATGTATCGACACTTTTT-AGTTTGTGTCGATA
131 AATATGTCTAAATAATATGTCGACACTTTTTAAATTAGTGTCGATA
1894353 CTAATTTAAA
Statistics
Matches: 912, Mismatches: 43, Indels: 22
0.93 0.04 0.02
Matches are distributed among these distances:
192 5 0.01
193 1 0.00
194 20 0.02
195 156 0.17
196 68 0.07
197 91 0.10
198 38 0.04
199 387 0.42
200 146 0.16
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (199 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATATGTCGACACTTTTTAAATTAGTGTCGATATTTTTGGTCCAGAATGAAT
GGAA
Found at i:1895835 original size:18 final size:18
Alignment explanation
Indices: 1895814--1895928 Score: 101
Period size: 18 Copynumber: 6.6 Consensus size: 18
1895804 CAAGCGGTCA
*
1895814 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
* *
1895832 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGACG
* *
1895850 ATGATGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
1895868 ATGAAGATG--G-TGACG
1 ATGAAGATGAAGATGACG
* * *
1895883 ATGATGACGATGATGACG
1 ATGAAGATGAAGATGACG
* * *
1895901 ATGATGATGATGATGATG
1 ATGAAGATGAAGATGACG
*
1895919 ATGATGATGA
1 ATGAAGATGA
1895929 TCCAAACAAG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
15 12 0.15
16 1 0.01
17 1 0.01
18 68 0.83
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.23
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:1895836 original size:12 final size:12
Alignment explanation
Indices: 1895814--1895928 Score: 92
Period size: 12 Copynumber: 9.8 Consensus size: 12
1895804 CAAGCGGTCA
*
1895814 ATGAAGATGAAG
1 ATGACGATGAAG
*
1895826 CTGACGATGAAG
1 ATGACGATGAAG
*
1895838 ATGACGATGATG
1 ATGACGATGAAG
*
1895850 ATGATGATGAAG
1 ATGACGATGAAG
*
1895862 CTGACGATGAAG
1 ATGACGATGAAG
*
1895874 ATG--G-TGACG
1 ATGACGATGAAG
* * *
1895883 ATGATGACGATG
1 ATGACGATGAAG
*
1895895 ATGACGATGATG
1 ATGACGATGAAG
* *
1895907 ATGATGATGATG
1 ATGACGATGAAG
*
1895919 ATGATGATGA
1 ATGACGATGA
1895929 TCCAAACAAG
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
9 7 0.08
10 1 0.01
11 1 0.01
12 76 0.89
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.23
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1895851 original size:3 final size:3
Alignment explanation
Indices: 1895831--1895929 Score: 108
Period size: 3 Copynumber: 33.0 Consensus size: 3
1895821 TGAAGCTGAC
* * * * * * *
1895831 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAA GCT GAC GAT GAA GAT GGT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * *
1895879 GAC GAT GAT GAC GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1895927 GAT
1 GAT
1895930 CCAAACAAGT
Statistics
Matches: 76, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:1897138 original size:16 final size:16
Alignment explanation
Indices: 1897117--1897150 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1897107 TATCCACAAC
*
1897117 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
1897133 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
1897149 AA
1 AA
1897151 TGTAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Found at i:1897532 original size:23 final size:23
Alignment explanation
Indices: 1897506--1897578 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1897496 ATAGGTAAAA
*
1897506 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1897529 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1897552 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1897575 ATAT
1 ATAT
1897579 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1897967 original size:23 final size:23
Alignment explanation
Indices: 1897936--1898008 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1897926 ATAGGTAAAA
*
1897936 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
1897959 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1897982 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1898005 ATAT
1 ATAT
1898009 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1898023 original size:46 final size:45
Alignment explanation
Indices: 1897936--1898033 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
1897926 ATAGGTAAAA
* *
1897936 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATAGATATCCTTT
* * *
1897982 ATATAATGTAATAGGTAGTGGTTATAT-TGTAAAGTATATATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TAGATATCCTTT
*
1898028 TTATAA
1 ATATAA
1898034 AAGTGTCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATAGATATCCTTT
Found at i:1898400 original size:23 final size:23
Alignment explanation
Indices: 1898369--1898441 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1898359 ATAGGTAAAA
*
1898369 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1898392 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1898415 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1898438 ATAT
1 ATAT
1898442 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1898474 original size:433 final size:431
Alignment explanation
Indices: 1897300--1899215 Score: 3612
Period size: 430 Copynumber: 4.5 Consensus size: 431
1897290 CTTTGGTTAA
* *
1897300 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
1897364 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TTAAAAAAAATTG
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTG
*
1897428 AAACATAAATTACATAACTTTAAAAGAAGTATAGATCCTTTTTATAAAAAGTATGGACACTTTC-
130 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
1897492 A-ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
195 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
1897556 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
260 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
1897621 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
*
1897686 TATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
390 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
1897728 TATTATTAAATT-AAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
1897792 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAATAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
1897857 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
*
1897922 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
*
1897987 ATGTAATAGGTAGTGGTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTT
261 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
1898052 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
1898117 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
*
1898158 TATTATTAAATTAAAAATTCTAACTATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
1898223 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATGGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
1898288 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTTTATAAAAAGTATGGACACTTTC
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCC--TTTTTATAAAAAGTATGGACACTTTC
1898353 AATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
194 AATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
*
1898418 TAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTACAAAAGTGTCTATACTTTT
259 TAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTT
*
1898483 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTGATTTAGTAA
324 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
*
1898548 TTATAGGCGTCTAATGATTTATTTTTTATGTTACGATATATAT
389 TTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
1898591 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
1898656 TGCAAATGAAATTATTAAATTAATATTGTAGGTTGAAAACATGAAACACTA-TT-AAAAAAATTG
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTG
1898719 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
130 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
1898784 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
195 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATAT
1898849 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
260 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
1898914 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
*
1898979 TATAGGCGTCTAATGATTTAATTTTTACGTTACGATATATAT
390 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
1899021 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1899086 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
1899151 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
1899216 CATATTATAA
Statistics
Matches: 1455, Mismatches: 24, Indels: 15
0.97 0.02 0.01
Matches are distributed among these distances:
427 2 0.00
428 184 0.13
429 3 0.00
430 618 0.42
431 227 0.16
432 47 0.03
433 372 0.26
434 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (431 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATAT
Found at i:1898830 original size:23 final size:23
Alignment explanation
Indices: 1898799--1898871 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1898789 ATAGGTAAAA
*
1898799 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1898822 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1898845 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1898868 ATAT
1 ATAT
1898872 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1898974 original size:863 final size:860
Alignment explanation
Indices: 1897300--1899215 Score: 3617
Period size: 863 Copynumber: 2.2 Consensus size: 860
1897290 CTTTGGTTAA
* *
1897300 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
1897364 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TTAAAAAAAATTG
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTG
*
1897428 AAACATAAATTACATAACTTTAAAAGAAGTATAGATCCTTTTTATAAAAAGTATGGACACTTTC-
130 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
1897492 AATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
195 AATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
*
1897557 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
260 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTACAAAAGTGTCTATACTTTTTT
1897622 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
325 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
*
1897687 ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATATTATTATTAAATTAAAATTCTAAAT
390 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAATTCTAAAT
1897752 ATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATA
455 ATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATA
1897817 TTGTAGGTGGAAAACATGAAACATACTTAAAATAAATTGAAACATAAATTACATAACTTTAAAAG
520 TTGTAGGTGGAAAACATGAAACATACTTAAAATAAATTGAAACATAAATTACATAACTTTAAAAG
1897882 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
585 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAA
1897947 TAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGT
650 TAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGT
1898012 AAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGG
715 AAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGG
*
1898077 TTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT
780 TTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAATTTTT
1898142 ACGTTACGATATATAT
845 ACGTTACGATATATAT
*
1898158 TATTATTAAATTAAAAATTCTAACTATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
1898223 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATGGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
1898288 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTTTATAAAAAGTATGGACACTTTC
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCC--TTTTTATAAAAAGTATGGACACTTTC
1898353 AATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
194 AA-ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATA
1898418 TAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTACAAAAGTGTCTATACTTTT
258 TAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTACAAAAGTGTCTATACTTTT
*
1898483 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTGATTTAGTAA
323 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
*
1898548 TTATAGGCGTCTAATGATTTATTTTTTATGTTACGATATATATTATTATTAAATTAAAAATTCTA
388 TTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATT-AAAATTCTA
1898613 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
452 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
*
1898678 ATATTGTAGGTTGAAAACATGAAACACTA-TTAAAA-AAATTGAAACATAAATTACATAACTTTA
517 ATATTGTAGGTGGAAAACATGAAACA-TACTTAAAATAAATTGAAACATAAATTACATAACTTTA
1898741 AAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
581 AAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGAT
*
1898806 GTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATA
646 GTAATAGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTGGTTATA
*
1898871 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTT
711 TTGTAAAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTT
1898936 AAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAAT
776 AAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAAT
1899001 TTTTACGTTACGATATATAT
841 TTTTACGTTACGATATATAT
1899021 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1899086 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
1899151 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
1899216 CATATTATAA
Statistics
Matches: 1034, Mismatches: 16, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
858 13 0.01
859 146 0.14
861 54 0.05
862 1 0.00
863 713 0.69
864 105 0.10
865 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (860 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
ATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAA
TGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTACAAAAGTGTCTATACTTTTTTC
ACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTA
TAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAATTCTAAATA
TTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATAT
TGTAGGTGGAAAACATGAAACATACTTAAAATAAATTGAAACATAAATTACATAACTTTAAAAGA
AGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAAT
AGGTAGCGCTTATATAATGTAATAGATATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTA
AAGTATATATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGT
TATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAATTTTTA
CGTTACGATATATAT
Found at i:1901863 original size:25 final size:25
Alignment explanation
Indices: 1901835--1901899 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
1901825 TTATCATTAA
1901835 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
1901860 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
1901885 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1901900 TCTTTTGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1902217 original size:23 final size:23
Alignment explanation
Indices: 1902186--1902258 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1902176 ATAGGTAAAA
*
1902186 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1902209 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1902232 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1902255 ATAT
1 ATAT
1902259 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1903028 original size:8 final size:9
Alignment explanation
Indices: 1903015--1903074 Score: 50
Period size: 10 Copynumber: 6.3 Consensus size: 9
1903005 GAAATATACA
1903015 TATATATTTT
1 TATATA-TTT
1903025 TATATATTTT
1 TATATA-TTT
* *
1903035 TACATATTA
1 TATATATTT
*
1903044 TATATATTA
1 TATATATTT
1903053 TATATATGTAT
1 TATATAT-T-T
1903064 TAT-TATTT
1 TATATATTT
1903072 TAT
1 TAT
1903075 TAACCAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
8 4 0.09
9 18 0.41
10 19 0.43
11 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TATATATTT
Found at i:1903028 original size:10 final size:10
Alignment explanation
Indices: 1903015--1903072 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 10
1903005 GAAATATACA
1903015 TATATATTTT
1 TATATATTTT
1903025 TATATATTTT
1 TATATATTTT
* *
1903035 TACATA-TTA
1 TATATATTTT
*
1903044 TATATA-TTA
1 TATATATTTT
*
1903053 TATATATGTAT
1 TATATAT-TTT
1903064 TAT-TATTTT
1 TATATATTTT
1903073 ATTAACCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 18 0.45
10 18 0.45
11 4 0.10
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (10 bp):
TATATATTTT
Found at i:1904484 original size:32 final size:29
Alignment explanation
Indices: 1904425--1904494 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 29
1904415 TTCTTTTTCC
* *
1904425 TTTATTATTATATTATTATTTTTTATATG
1 TTTATTATTATATTATTATTTTATATATA
*
1904454 TTTTTTATTACTATTATTATATGTTATATATA
1 TTTATTATTA-TATTATTAT-T-TTATATATA
1904486 TTTATTATT
1 TTTATTATT
1904495 TTGTAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.26
30 9 0.26
31 1 0.03
32 15 0.44
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTATTATTATATTATTATTTTATATATA
Found at i:1915050 original size:15 final size:15
Alignment explanation
Indices: 1915030--1915064 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
1915020 CTAAGTTGAA
1915030 AAAAAGAGAAAAA-AG
1 AAAAAGA-AAAAAGAG
1915045 AAAAAGAAAAAAGAG
1 AAAAAGAAAAAAGAG
1915060 AAAAA
1 AAAAA
1915065 CGTTTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAGAG
Found at i:1915767 original size:14 final size:14
Alignment explanation
Indices: 1915748--1915774 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1915738 GATCAAAACT
1915748 TCAAGATTCCAGAA
1 TCAAGATTCCAGAA
1915762 TCAAGATTCCAGA
1 TCAAGATTCCAGA
1915775 CATGCAACCG
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:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (14 bp):
TCAAGATTCCAGAA
Found at i:1916795 original size:22 final size:22
Alignment explanation
Indices: 1916743--1916796 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
1916733 GGACCATTCT
*
1916743 AACTTCACAAATAGATTGACCC
1 AACTTCACGAATAGATTGACCC
1916765 AACTTCACGAATAGATTGACCC
1 AACTTCACGAATAGATTGACCC
1916787 AACTTCACGA
1 AACTTCACGA
1916797 TGAATGAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (22 bp):
AACTTCACGAATAGATTGACCC
Found at i:1917237 original size:21 final size:19
Alignment explanation
Indices: 1917196--1917233 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1917186 TGAAATATAC
*
1917196 ATATATATTTTTATATATT
1 ATATATATTATTATATATT
1917215 ATATATATGTATTAT-TATT
1 ATATATAT-TATTATATATT
1917234 TTATTAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
ATATATATTATTATATATT
Found at i:1918574 original size:22 final size:21
Alignment explanation
Indices: 1918546--1918625 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 21
1918536 TGTGTTTTTC
1918546 TATTATTTTTTCTATTTTCATT
1 TATTATTTTTT-TATTTTCATT
* *
1918568 TATTATTATTATTA-TATCATAT
1 TATTATT-TTTTTATTTTCAT-T
*
1918590 TATTTTTATTTTTATTTT-ATT
1 TATTATT-TTTTTATTTTCATT
*
1918611 TACTATTTTTTTATT
1 TATTATTTTTTTATT
1918626 CTTTTTCCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
20 8 0.17
21 11 0.23
22 24 0.50
23 5 0.10
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTATTTTTTTATTTTCATT
Found at i:1918575 original size:3 final size:3
Alignment explanation
Indices: 1918567--1918697 Score: 53
Period size: 3 Copynumber: 44.7 Consensus size: 3
1918557 CTATTTTCAT
* * *
1918567 TTA TTA TTA TTA TTA -TA TCA -TA TTA TTT TTA TTT TTA TT- TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * * *
1918613 CTA TT- TTT TTA TTC TTT TTC CT- TTA TTA TTA TTA TTA TT- TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * *
1918656 TGTT TTT TTA TTA CTA TTA TTA -TA TGTA -TA TTA TTTA TTA TT
1 T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TT
1918698 CTGTAAATTT
Statistics
Matches: 97, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
2 13 0.13
3 73 0.75
4 11 0.11
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1918621 original size:20 final size:21
Alignment explanation
Indices: 1918598--1918668 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 21
1918588 ATTATTTTTA
1918598 TTTTTATT-TTATTTACTATT
1 TTTTTATTATTATTTACTATT
* *
1918618 TTTTTATTCTT-TTTCCT-TT
1 TTTTTATTATTATTTACTATT
* *
1918637 ATTATTATTATTATTTA-TATG
1 -TTTTTATTATTATTTACTATT
1918658 TTTTT-TTATTA
1 TTTTTATTATTA
1918669 CTATTATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 8 0.20
20 27 0.66
21 6 0.15
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (21 bp):
TTTTTATTATTATTTACTATT
Found at i:1918782 original size:2 final size:2
Alignment explanation
Indices: 1918775--1918857 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
1918765 ATTTATGCAT
1918775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1918817 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
1918858 CTTATATTTG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1921024 original size:30 final size:30
Alignment explanation
Indices: 1920988--1921047 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
1920978 AACCATCCAC
1920988 ACATTATCGCCATCATAGCTCGACAGGTTT
1 ACATTATCGCCATCATAGCTCGACAGGTTT
1921018 ACATTATCGCCATCATAGCTCGACAGGTTT
1 ACATTATCGCCATCATAGCTCGACAGGTTT
1921048 CTGGCAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (30 bp):
ACATTATCGCCATCATAGCTCGACAGGTTT
Found at i:1925959 original size:30 final size:30
Alignment explanation
Indices: 1925910--1925966 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 30
1925900 AGAATAAAAT
1925910 AAAATAAAATAAATAAATAATTATAAAAAGGA
1 AAAATAAAATAAATAAATAA--ATAAAAAGGA
*
1925942 AAAATAATA-AAAT-AATAAATAAAAA
1 AAAATAAAATAAATAAATAAATAAAAA
1925967 TAATGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 7 0.29
30 5 0.21
31 4 0.17
32 8 0.33
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (30 bp):
AAAATAAAATAAATAAATAAATAAAAAGGA
Found at i:1927802 original size:9 final size:9
Alignment explanation
Indices: 1927788--1927820 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
1927778 ACAATGAACA
1927788 TTTTTTCTT
1 TTTTTTCTT
1927797 TTTTTTCTTT
1 TTTTTTC-TT
1927807 TTTTTTCTT
1 TTTTTTCTT
1927816 TTTTT
1 TTTTT
1927821 CGAAACAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:1927808 original size:10 final size:10
Alignment explanation
Indices: 1927788--1927820 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
1927778 ACAATGAACA
1927788 TTTTTTC-TT
1 TTTTTTCTTT
1927797 TTTTTTCTTT
1 TTTTTTCTTT
1927807 TTTTTTCTTT
1 TTTTTTCTTT
1927817 TTTT
1 TTTT
1927821 CGAAACAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1927842 original size:50 final size:49
Alignment explanation
Indices: 1927745--1927854 Score: 116
Period size: 50 Copynumber: 2.2 Consensus size: 49
1927735 AAACGATCGA
* *
1927745 TTTTTCTTCTTCTTTTTTCTTTCACTTTTCGAAACAATGAACATTTTTTC-
1 TTTTTTTTCTTCTTTTTTCTTT--CTTTTCGAAACAAAGAACATTTTTTCG
* *
1927795 TTTTTTTTCTTTTTTTTTCTTT-TTTTCGAAACAGTGAAGAACTTTTTTTCG
1 TTTTTTTTCTTCTTTTTTCTTTCTTTTCGAAACA---AAGAACATTTTTTCG
*
1927846 ATTTTTTTC
1 TTTTTTTTC
1927855 GAAACAATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
47 11 0.22
50 32 0.63
51 8 0.16
ACGTcount: A:0.16, C:0.15, G:0.06, T:0.62
Consensus pattern (49 bp):
TTTTTTTTCTTCTTTTTTCTTTCTTTTCGAAACAAAGAACATTTTTTCG
Found at i:1929218 original size:6 final size:6
Alignment explanation
Indices: 1929196--1929240 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
1929186 AAAATCAAAG
* * *
1929196 AAAAAT AAATCAT AAAAAT AAAATT GAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
1929241 TAATGGGTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:1946364 original size:15 final size:17
Alignment explanation
Indices: 1946344--1946376 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1946334 AATGACATAC
1946344 TTTAA-TAAAAT-ATAA
1 TTTAATTAAAATAATAA
1946359 TTTAATTAAAATAATAA
1 TTTAATTAAAATAATAA
1946376 T
1 T
1946377 AATAGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAATTAAAATAATAA
Found at i:1946587 original size:11 final size:10
Alignment explanation
Indices: 1946561--1946704 Score: 77
Period size: 10 Copynumber: 14.3 Consensus size: 10
1946551 CTAGATATTC
1946561 TAATAATTTT
1 TAATAATTTT
1946571 TAATAATTTT
1 TAATAATTTT
1946581 TATATAA-TTT
1 TA-ATAATTTT
*
1946591 TAAAAATGTTT
1 TAATAAT-TTT
**
1946602 TTTTACATTTT
1 TAATA-ATTTT
*
1946613 TAAAATATTTCCT
1 TAATA-ATTT--T
* * *
1946626 TAATAGTGTA
1 TAATAATTTT
* *
1946636 GAATAATTAT
1 TAATAATTTT
1946646 TAAT-ATTTT
1 TAATAATTTT
1946655 T-ATAATTTT
1 TAATAATTTT
1946664 TAA-AATATTT
1 TAATAAT-TTT
*
1946674 T-TTAATATTT
1 TAATAAT-TTT
1946684 T-ATAATTTT
1 TAATAATTTT
1946693 TAA-AATTTT
1 TAATAATTTT
1946702 TAA
1 TAA
1946705 ATATTAAATA
Statistics
Matches: 102, Mismatches: 21, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
8 2 0.02
9 30 0.29
10 43 0.42
11 18 0.18
12 4 0.04
13 5 0.05
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (10 bp):
TAATAATTTT
Found at i:1946664 original size:9 final size:9
Alignment explanation
Indices: 1946650--1946703 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
1946640 AATTATTAAT
1946650 ATTTTTATA
1 ATTTTTATA
*
1946659 ATTTTTAAA
1 ATTTTTATA
*
1946668 ATATTTTTTA
1 AT-TTTTATA
1946678 ATATTTTATA
1 AT-TTTTATA
*
1946688 ATTTTTAAA
1 ATTTTTATA
1946697 ATTTTTA
1 ATTTTTA
1946704 AATATTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
9 23 0.59
10 16 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:1946690 original size:29 final size:29
Alignment explanation
Indices: 1946645--1946702 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
1946635 AGAATAATTA
1946645 TTAATATTTTTATAATTTTTAAAATATTTT
1 TTAATATTTTTATAATTTTTAAAAT-TTTT
1946675 TTAATA-TTTTATAATTTTTAAAATTTTT
1 TTAATATTTTTATAATTTTTAAAATTTTT
1946703 AAATATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 4 0.14
29 18 0.64
30 6 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
TTAATATTTTTATAATTTTTAAAATTTTT
Found at i:1946704 original size:9 final size:9
Alignment explanation
Indices: 1946640--1946842 Score: 61
Period size: 9 Copynumber: 21.2 Consensus size: 9
1946630 AGTGTAGAAT
*
1946640 AATTATTAA
1 AATTTTTAA
* *
1946649 TATTTTTAT
1 AATTTTTAA
1946658 AATTTTTAA
1 AATTTTTAA
**
1946667 AATATTTTTT
1 AAT-TTTTAA
*
1946677 AATATTTTAT
1 AAT-TTTTAA
1946687 AATTTTTAA
1 AATTTTTAA
1946696 AATTTTTAA
1 AATTTTTAA
1946705 ATATTAAATATTAA
1 A-ATT---T-TTAA
*
1946719 ATATTTCT-A
1 A-ATTTTTAA
**
1946728 TTTTTTTAAA
1 AATTTTT-AA
***
1946738 AAAAATTAA
1 AATTTTTAA
1946747 AA-TTTTAA
1 AATTTTTAA
*
1946755 AA-TTTTGA
1 AATTTTTAA
* *
1946763 TACTTTTAA
1 AATTTTTAA
**
1946772 AATTTAAAA
1 AATTTTTAA
1946781 ATATTTTTCTAA
1 A-A-TTTT-TAA
*
1946793 AAATTTTAA
1 AATTTTTAA
1946802 TAATTTTTAA
1 -AATTTTTAA
*
1946812 AATATCTTAA
1 AAT-TTTTAA
* *
1946822 GATTTTGAA
1 AATTTTTAA
1946831 ATATTTTTAA
1 A-ATTTTTAA
1946841 AA
1 AA
1946843 ATAAAATTTA
Statistics
Matches: 142, Mismatches: 37, Indels: 30
0.68 0.18 0.14
Matches are distributed among these distances:
8 16 0.11
9 58 0.41
10 50 0.35
11 5 0.04
12 3 0.02
13 1 0.01
14 9 0.06
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (9 bp):
AATTTTTAA
Found at i:1946821 original size:20 final size:20
Alignment explanation
Indices: 1946780--1946821 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1946770 AAAATTTAAA
* *
1946780 AATATTTTTCTAAAAATTTT
1 AATAATTTTCTAAAAATCTT
1946800 AATAATTTT-TAAAATATCTT
1 AATAATTTTCTAAAA-ATCTT
1946820 AA
1 AA
1946822 GATTTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
AATAATTTTCTAAAAATCTT
Found at i:1947484 original size:19 final size:19
Alignment explanation
Indices: 1947433--1947489 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
1947423 AAAGAAATAA
1947433 ATTTTTTATTAAAATTT--T
1 ATTTTTTATT-AAATTTAAT
1947451 ATTTTCAATTA-TAAATTTAAT
1 ATTTT---TTATTAAATTTAAT
1947472 ATTTTTTATTAAATTTAA
1 ATTTTTTATTAAATTTAA
1947490 AAGAAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
18 8 0.24
19 15 0.45
20 1 0.03
21 9 0.27
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTTATTAAATTTAAT
Found at i:1947813 original size:16 final size:16
Alignment explanation
Indices: 1947794--1947860 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 16
1947784 GTTAAATTCA
*
1947794 GTTCAGGTTGCTCTCG
1 GTTCAGGTTGCTTTCG
* ** *
1947810 GTTCGGGTTAATTTCA
1 GTTCAGGTTGCTTTCG
*
1947826 GTTCGGGTTGCTTTCG
1 GTTCAGGTTGCTTTCG
**
1947842 GTTCAGGTTAATTTCG
1 GTTCAGGTTGCTTTCG
1947858 GTT
1 GTT
1947861 TTGATTGATT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.10, C:0.16, G:0.30, T:0.43
Consensus pattern (16 bp):
GTTCAGGTTGCTTTCG
Found at i:1947853 original size:32 final size:32
Alignment explanation
Indices: 1947763--1947856 Score: 136
Period size: 32 Copynumber: 2.9 Consensus size: 32
1947753 TTTCAATATT
*
1947763 TTCGGGTTGCTTTCGGGTT-GGGTTAAATTCAG
1 TTCGGGTTGCTTTC-GGTTCGGGTTAATTTCAG
* *
1947795 TTCAGGTTGCTCTCGGTTCGGGTTAATTTCAG
1 TTCGGGTTGCTTTCGGTTCGGGTTAATTTCAG
*
1947827 TTCGGGTTGCTTTCGGTTCAGGTTAATTTC
1 TTCGGGTTGCTTTCGGTTCGGGTTAATTTC
1947857 GGTTTTGATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 4 0.07
32 51 0.93
ACGTcount: A:0.12, C:0.16, G:0.30, T:0.43
Consensus pattern (32 bp):
TTCGGGTTGCTTTCGGTTCGGGTTAATTTCAG
Found at i:1947873 original size:32 final size:32
Alignment explanation
Indices: 1947783--1947873 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 32
1947773 TTTCGGGTTG
* * * *
1947783 GGTTAAATTCAGTTCAGG-TTGCTCTCGGTTCG
1 GGTTAATTTCAGTTC-GGATTGATTTCGGTTCA
* *
1947815 GGTTAATTTCAGTTCGGGTTGCTTTCGGTTCA
1 GGTTAATTTCAGTTCGGATTGATTTCGGTTCA
* **
1947847 GGTTAATTTCGGTTTTGATTGATTTCG
1 GGTTAATTTCAGTTCGGATTGATTTCG
1947874 ATTTCGCTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
31 2 0.04
32 48 0.96
ACGTcount: A:0.14, C:0.14, G:0.27, T:0.44
Consensus pattern (32 bp):
GGTTAATTTCAGTTCGGATTGATTTCGGTTCA
Found at i:1951617 original size:27 final size:27
Alignment explanation
Indices: 1951579--1951635 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
1951569 CCATTGGCCT
*
1951579 GAACTAAACACGAACCCGATCTGTCCC
1 GAACTAAACACGAACCCGATCTATCCC
1951606 GAACTAAACACGAACCCGATCTATCCC
1 GAACTAAACACGAACCCGATCTATCCC
1951633 GAA
1 GAA
1951636 TCGAACCGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.35, G:0.14, T:0.14
Consensus pattern (27 bp):
GAACTAAACACGAACCCGATCTATCCC
Found at i:1951861 original size:2 final size:2
Alignment explanation
Indices: 1951854--1951881 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1951844 ATTAAGTTTA
1951854 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
1951882 CTAATTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1953275 original size:12 final size:12
Alignment explanation
Indices: 1953258--1953287 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1953248 TTAATTGCGA
*
1953258 AAATTAGAATTT
1 AAATTAAAATTT
1953270 AAATTAAAATTT
1 AAATTAAAATTT
1953282 AAATTA
1 AAATTA
1953288 TTCGATCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
AAATTAAAATTT
Found at i:1953590 original size:32 final size:32
Alignment explanation
Indices: 1953512--1953583 Score: 144
Period size: 32 Copynumber: 2.2 Consensus size: 32
1953502 AAATACCAAT
1953512 AAAATAAAGTAATAATAAAAGGTTATTTTGAA
1 AAAATAAAGTAATAATAAAAGGTTATTTTGAA
1953544 AAAATAAAGTAATAATAAAAGGTTATTTTGAA
1 AAAATAAAGTAATAATAAAAGGTTATTTTGAA
1953576 AAAATAAA
1 AAAATAAA
1953584 TAAATAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (32 bp):
AAAATAAAGTAATAATAAAAGGTTATTTTGAA
Found at i:1954918 original size:13 final size:13
Alignment explanation
Indices: 1954900--1954925 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1954890 GGTGAATAAT
1954900 AATAAATAAAAAC
1 AATAAATAAAAAC
1954913 AATAAATAAAAAC
1 AATAAATAAAAAC
1954926 TATATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAATAAAAAC
Found at i:1955015 original size:31 final size:30
Alignment explanation
Indices: 1954974--1955094 Score: 106
Period size: 32 Copynumber: 3.9 Consensus size: 30
1954964 CTATATACTA
1954974 TATATAAATTTTCAAAAATGTTTTTCAAAAAAC
1 TATAT-AATTTT-AAAAATGTTTTT-AAAAAAC
* *
1955007 TA-ATAATTTTTAAAAATGTTCTTTTAAAAAT
1 TATATAA-TTTTAAAAATGTT-TTTAAAAAAC
*
1955038 TATATAATTCTTAAAAATG-TTTTAAAAAAT
1 TATATAATT-TTAAAAATGTTTTTAAAAAAC
* *
1955068 TATAT-ATTATATATAA-GTTTTTAAAAA
1 TATATAATTTTA-AAAATGTTTTTAAAAA
1955095 TGCTCTAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
28 3 0.04
29 15 0.19
30 14 0.18
31 21 0.27
32 22 0.29
33 2 0.03
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (30 bp):
TATATAATTTTAAAAATGTTTTTAAAAAAC
Found at i:1955045 original size:32 final size:31
Alignment explanation
Indices: 1954974--1955073 Score: 123
Period size: 31 Copynumber: 3.2 Consensus size: 31
1954964 CTATATACTA
* *
1954974 TATATAAATTTTCAAAAATGTTTTTCAAAAAAC
1 TATAT-AATTTTTAAAAATGTTTTT-AAAAAAT
*
1955007 TA-ATAATTTTTAAAAATGTTCTTTTAAAAAT
1 TATATAATTTTTAAAAATGTT-TTTAAAAAAT
*
1955038 TATATAATTCTTAAAAATG-TTTTAAAAAAT
1 TATATAATTTTTAAAAATGTTTTTAAAAAAT
1955068 TATATA
1 TATATA
1955074 TTATATATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.25
31 23 0.38
32 20 0.33
33 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (31 bp):
TATATAATTTTTAAAAATGTTTTTAAAAAAT
Found at i:1955074 original size:32 final size:31
Alignment explanation
Indices: 1954972--1955094 Score: 98
Period size: 30 Copynumber: 4.0 Consensus size: 31
1954962 AACTATATAC
1954972 TATATATAAATTTTCAAAAATGTTTTTCAAAAAA
1 TATATAT-AATTTT-AAAAATGTTTTT-AAAAAA
* *
1955006 CTA-ATA-ATTTTTAAAAATGTTCTTTTAAAAA
1 -TATATATAATTTTAAAAATGTT-TTTAAAAAA
1955037 T-TATATAATTCTTAAAAATG-TTTTAAAAAA
1 TATATATAATT-TTAAAAATGTTTTTAAAAAA
* *
1955067 T-TATAT-ATTATATATAA-GTTTTTAAAAA
1 TATATATAATTTTA-AAAATGTTTTTAAAAA
1955095 TGCTCTAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
28 3 0.04
29 15 0.20
30 18 0.24
31 18 0.24
32 17 0.22
34 3 0.04
35 2 0.03
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (31 bp):
TATATATAATTTTAAAAATGTTTTTAAAAAA
Found at i:1955105 original size:39 final size:39
Alignment explanation
Indices: 1955038--1955118 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
1955028 TTTTAAAAAT
* *
1955038 TATATAATTCTTAAAAATGTTTTAAAAAATTATATATTA
1 TATATAATTCTTAAAAATGCTCTAAAAAATTATATATTA
*
1955077 TATATAAGTTTTTAAAAATGCTCT-AAAAATTATATATTA
1 TATATAA-TTCTTAAAAATGCTCTAAAAAATTATATATTA
1955116 TAT
1 TAT
1955119 GTTTTCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 25 0.66
40 13 0.34
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (39 bp):
TATATAATTCTTAAAAATGCTCTAAAAAATTATATATTA
Found at i:1955111 original size:37 final size:37
Alignment explanation
Indices: 1955034--1955213 Score: 140
Period size: 37 Copynumber: 4.8 Consensus size: 37
1955024 GTTCTTTTAA
* *
1955034 AAATTATATAATTCTTAAAAATGTTTTAAAAAATTATAT
1 AAATTATA-AGTTTTTAAAAATGTTTTAAAAAA-TATAT
* * *
1955073 ATTATATATAAGTTTTTAAAAATGCTCT-AAAAAT-TAT
1 A-AAT-TATAAGTTTTTAAAAATGTTTTAAAAAATATAT
* * * *
1955110 ATATTATATG-TTTTCAAAATGTTTTTCAAAAAT-TAT
1 AAATTATAAGTTTTTAAAAATG-TTTTAAAAAATATAT
*
1955146 AAATTATATA-TTTTTAAAAATGTTTT-GAAAATATAT
1 AAATTATA-AGTTTTTAAAAATGTTTTAAAAAATATAT
*
1955182 ATAATCTAT-AGTTTTTAAAAGTGTTTTAAAAA
1 A-AAT-TATAAGTTTTTAAAAATGTTTTAAAAA
1955214 CCATATATTA
Statistics
Matches: 115, Mismatches: 15, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
34 10 0.09
35 12 0.10
36 28 0.24
37 32 0.28
38 7 0.06
39 6 0.05
40 16 0.14
41 4 0.03
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (37 bp):
AAATTATAAGTTTTTAAAAATGTTTTAAAAAATATAT
Done.