Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 71 of 186
Found at i:22762357 original size:49 final size:49
Alignment explanation
Indices: 22762299--22762396 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
22762289 TGAGTTGATT
22762299 CAAAGAGAATATGAAGCATAAGTTAAAGAAAAAAGATTAGTAATGGAAA
1 CAAAGAGAATATGAAGCATAAGTTAAAGAAAAAAGATTAGTAATGGAAA
*
22762348 CAAAGAGAATATGAAGCTTAAGTTAAAGAAAAAAGATTAGTAATGGAAA
1 CAAAGAGAATATGAAGCATAAGTTAAAGAAAAAAGATTAGTAATGGAAA
22762397 AAGGACGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.19
Consensus pattern (49 bp):
CAAAGAGAATATGAAGCATAAGTTAAAGAAAAAAGATTAGTAATGGAAA
Found at i:22769161 original size:4 final size:4
Alignment explanation
Indices: 22769152--22769327 Score: 352
Period size: 4 Copynumber: 44.0 Consensus size: 4
22769142 TATTAATATT
22769152 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
22769200 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
22769248 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
22769296 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
22769328 TAGAAAAGGG
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 172 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:22778909 original size:34 final size:34
Alignment explanation
Indices: 22778871--22778939 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
22778861 TGATTGAGTG
22778871 TATGTGATAGGGAAGCCATTACATGCTTATTGAT
1 TATGTGATAGGGAAGCCATTACATGCTTATTGAT
22778905 TATGTGATAGGGAAGCCATTACATGCTTATTGAT
1 TATGTGATAGGGAAGCCATTACATGCTTATTGAT
22778939 T
1 T
22778940 TTATTACCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (34 bp):
TATGTGATAGGGAAGCCATTACATGCTTATTGAT
Found at i:22794221 original size:46 final size:46
Alignment explanation
Indices: 22794149--22794240 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
22794139 CAGACTAAGC
*
22794149 GCATTCGATACTGAGCACCAGAGGTACCTGTGGAAGAGGCCACGGT
1 GCATTCGATAATGAGCACCAGAGGTACCTGTGGAAGAGGCCACGGT
* * *
22794195 GCATTCGATAATGAGCACCAGTGGTACTTGTGGAGGAGGCCACGGT
1 GCATTCGATAATGAGCACCAGAGGTACCTGTGGAAGAGGCCACGGT
22794241 AGAGCTCATG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.25, C:0.22, G:0.34, T:0.20
Consensus pattern (46 bp):
GCATTCGATAATGAGCACCAGAGGTACCTGTGGAAGAGGCCACGGT
Found at i:22800113 original size:27 final size:28
Alignment explanation
Indices: 22800083--22800260 Score: 152
Period size: 27 Copynumber: 6.5 Consensus size: 28
22800073 ATATTGAGTC
* *
22800083 CGCACACTCAGTGCTATATAAT-AAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
22800110 CGCACACTTAGTGCTACGTAATCGAA-T
1 CGCACACTTAGTGCTACATAATCAAACT
*
22800137 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
** ** * *
22800165 CGCACACTTAGTGCCGCATGGTC-GATT
1 CGCACACTTAGTGCTACATAATCAAACT
* ***
22800192 CGCACACTTAGTGC-ATCATATTC-GTTT
1 CGCACACTTAGTGCTA-CATAATCAAACT
* *
22800219 CGCACACTTAGTGCAACATAGTCAAA-T
1 CGCACACTTAGTGCTACATAATCAAACT
22800246 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22800261 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:22800222 original size:82 final size:81
Alignment explanation
Indices: 22800109--22800259 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
22800099 TATAATAAAC
* *
22800109 TCGCACACTTAGTGCTACGTAATCGAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCGAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
22800174 AGTGCCGCATGGTCGAT
65 AGTGCCGCATGGTCGAT
* **
22800191 TCGCACACTTAGTGC-ATCATATTCGTTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCGAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
22800255 AGTGC
65 AGTGC
22800260 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCGAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCGAT
Found at i:22803554 original size:72 final size:72
Alignment explanation
Indices: 22803425--22803567 Score: 216
Period size: 72 Copynumber: 2.0 Consensus size: 72
22803415 CAGGGGCGAT
* * * *
22803425 GGCTTGCTGTTTTGAACGGTTGAGGAGAGCGAGGAAGCAGCGGCTGAATCTAATCGGGAGGAGAC
1 GGCTGGCTGTTTTGAACGGTTGAGGAGAGCAAAGAAGCAGCAGCTGAATCTAATCGGGAGGAGAC
22803490 AGCTTCG
66 AGCTTCG
* *
22803497 GGCTGGCTGTTTTGAATGGTTGAGGAGAGCAAAGAAGCAGCAGCTGAAT-TGATTCGGGAGGAGA
1 GGCTGGCTGTTTTGAACGGTTGAGGAGAGCAAAGAAGCAGCAGCTGAATCT-AATCGGGAGGAGA
22803561 CAGCTTC
65 CAGCTTC
22803568 AGACAGTACT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.02
72 63 0.98
ACGTcount: A:0.25, C:0.15, G:0.38, T:0.22
Consensus pattern (72 bp):
GGCTGGCTGTTTTGAACGGTTGAGGAGAGCAAAGAAGCAGCAGCTGAATCTAATCGGGAGGAGAC
AGCTTCG
Found at i:22805904 original size:98 final size:98
Alignment explanation
Indices: 22805792--22805987 Score: 383
Period size: 98 Copynumber: 2.0 Consensus size: 98
22805782 AGTTGATATA
22805792 TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
1 TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
*
22805857 ATTATTTGGCCCCTGAATTATACTAGTTTTCTC
66 ATTATTTGGCCCCTGAATTATACTAATTTTCTC
22805890 TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
1 TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
22805955 ATTATTTGGCCCCTGAATTATACTAATTTTCTC
66 ATTATTTGGCCCCTGAATTATACTAATTTTCTC
22805988 ACTTTGACAC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (98 bp):
TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
ATTATTTGGCCCCTGAATTATACTAATTTTCTC
Found at i:22808023 original size:27 final size:28
Alignment explanation
Indices: 22807993--22808073 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 28
22807983 ATAAAATTTT
* ** *
22807993 GGGAAAGA-TGTAAAATTTGTAAAGTAG
1 GGGAAAGATTGTAAAATCTAAAAAATAG
*
22808020 GGGACAGATTGTAAAATCTAAAAAATAG
1 GGGAAAGATTGTAAAATCTAAAAAATAG
22808048 GGGAAA-ATTGTAAAATC-AAAGAAATA
1 GGGAAAGATTGTAAAATCTAAA-AAATA
22808074 AGGACAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.07
27 23 0.50
28 20 0.43
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.22
Consensus pattern (28 bp):
GGGAAAGATTGTAAAATCTAAAAAATAG
Found at i:22808082 original size:27 final size:28
Alignment explanation
Indices: 22808021--22808082 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
22808011 GTAAAGTAGG
* *
22808021 GGACAGATTGTAAAATCTAAAAAATAGG
1 GGACAAATTGTAAAATCTAAAAAATAGA
22808049 GGA-AAATTGTAAAATC-AAAGAAATA-A
1 GGACAAATTGTAAAATCTAAA-AAATAGA
22808075 GGACAAAT
1 GGACAAAT
22808083 GGCCATGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 6 0.20
27 21 0.70
28 3 0.10
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (28 bp):
GGACAAATTGTAAAATCTAAAAAATAGA
Found at i:22809248 original size:18 final size:19
Alignment explanation
Indices: 22809211--22809251 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22809201 ATTTAGAATC
22809211 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
22809230 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
22809248 AAAA
1 AAAA
22809252 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:22809253 original size:31 final size:31
Alignment explanation
Indices: 22809177--22809250 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
22809167 TCAAGTTATC
*
22809177 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
22809209 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
22809239 TTAAATATAAAA
1 TTAAATATAAAA
22809251 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:22812288 original size:37 final size:37
Alignment explanation
Indices: 22812238--22812344 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
22812228 CTATGCAGCA
22812238 GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
* *
22812275 GATGCACGGGGCGAAGACGATGGAGG-GAATGAGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGAG-ATGGGTTGC
* *
22812312 GATGCACGGGGAGAAGGCGACGGAGGAGATGGG
1 GATGCACGGGGCGAAGGCGATGGAGGAGATGGG
22812345 ATTTTTTGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.02
37 60 0.97
38 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.50, T:0.11
Consensus pattern (37 bp):
GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
Found at i:22813400 original size:7 final size:7
Alignment explanation
Indices: 22813388--22813434 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
22813378 AGTTAACTCC
22813388 TAAACCT
1 TAAACCT
22813395 TAAACCT
1 TAAACCT
*
22813402 TAAACCA
1 TAAACCT
* *
22813409 TATATCT
1 TAAACCT
*
22813416 TAAACCA
1 TAAACCT
22813423 TAAACCT
1 TAAACCT
22813430 TAAAC
1 TAAAC
22813435 TATAATGATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAACCT
Found at i:22813405 original size:14 final size:14
Alignment explanation
Indices: 22813320--22813439 Score: 73
Period size: 14 Copynumber: 8.4 Consensus size: 14
22813310 AACCCCTATC
22813320 CCATAAACAC-TAAA
1 CCATAAAC-CTTAAA
*
22813334 CCCTAAACCTT-AA
1 CCATAAACCTTAAA
* **
22813347 CCATTAACCCCAAA
1 CCATAAACCTTAAA
* *
22813361 CCCTTACACCTTAAA
1 -CCATAAACCTTAAA
* * *
22813376 CTAGTTAACTCCTAAA
1 CCA-TAAAC-CTTAAA
*
22813392 CCTTAAACCTTAAA
1 CCATAAACCTTAAA
* *
22813406 CCATATATCTTAAA
1 CCATAAACCTTAAA
22813420 CCATAAACCTTAAA
1 CCATAAACCTTAAA
*
22813434 CTATAA
1 CCATAA
22813440 TGATAATTAA
Statistics
Matches: 76, Mismatches: 25, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
13 10 0.13
14 44 0.58
15 16 0.21
16 6 0.08
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (14 bp):
CCATAAACCTTAAA
Found at i:22820037 original size:24 final size:24
Alignment explanation
Indices: 22819982--22820053 Score: 99
Period size: 24 Copynumber: 2.9 Consensus size: 24
22819972 GAGTCATGGT
*
22819982 CGGTAAGCTCTTACTGAGCTGATAAA
1 CGGTAAGCTC-TATTGAGCTGA-AAA
*
22820008 CAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCTCTATTGAGCTGAAAA
*
22820032 CGGTAAGCTTTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
22820054 CAGTAAGCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 23 0.55
25 10 0.24
26 9 0.21
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (24 bp):
CGGTAAGCTCTATTGAGCTGAAAA
Found at i:22820066 original size:24 final size:24
Alignment explanation
Indices: 22819984--22820112 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 24
22819974 GTCATGGTCG
*
22819984 GTAAGCTCTTACTGAGCTGATAAACA
1 GTAAGCTCTTATTGAGCTG--AAACA
*
22820010 GTAAGCTC-TATTGAGCTGAAAACG
1 GTAAGCTCTTATTGAGCTG-AAACA
22820034 GTAAGCT-TTATTGAGCTG-AACA
1 GTAAGCTCTTATTGAGCTGAAACA
** ***
22820056 GTAAGCTCTT-TCAAGCTGAATTG
1 GTAAGCTCTTATTGAGCTGAAACA
* *
22820079 GTAAGCTAC--AATGAGCTGAAATA
1 GTAAGCT-CTTATTGAGCTGAAACA
22820102 GTAAGCTCTTA
1 GTAAGCTCTTA
22820113 CGAGATATGG
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
22 17 0.21
23 25 0.30
24 23 0.28
25 9 0.11
26 8 0.10
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (24 bp):
GTAAGCTCTTATTGAGCTGAAACA
Found at i:22820073 original size:46 final size:45
Alignment explanation
Indices: 22819982--22820111 Score: 127
Period size: 46 Copynumber: 2.8 Consensus size: 45
22819972 GAGTCATGGT
* *
22819982 CGGTAAGCTCTTACTGAGCTGATAAACAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCT-TTAATGAGCTG--AAACAGTAAGCTCT-TTAAGCTG-AAA
* *
22820032 CGGTAAGCTTTATTGAGCTG-AACAGTAAGCTCTTTCAAGCTGAAT
1 CGGTAAGCTTTAATGAGCTGAAACAGTAAGCTCTTT-AAGCTGAAA
* ** *
22820077 TGGTAAGCTACAATGAGCTGAAATAGTAAGCTCTT
1 CGGTAAGCTTTAATGAGCTGAAACAGTAAGCTCTT
22820112 ACGAGATATG
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
45 20 0.29
46 31 0.44
49 10 0.14
50 9 0.13
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
CGGTAAGCTTTAATGAGCTGAAACAGTAAGCTCTTTAAGCTGAAA
Found at i:22822896 original size:47 final size:47
Alignment explanation
Indices: 22822829--22822933 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
22822819 CCCTTCGGGA
* * *
22822829 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATAAACTTTCACATCCATCACATTGGCCATTCGGC
22822876 CTTATCACATATATAAACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATAAACTTTCACATCCATCACATTGGCCATTCGGC
22822923 CTTATCACATA
1 CTTATCACATA
22822934 ATTAATACTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATAAACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:22830519 original size:16 final size:17
Alignment explanation
Indices: 22830478--22830519 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
22830468 AAGTAAATAA
* *
22830478 AAGAAAGAAAGAAACAG
1 AAGAAGGAACGAAACAG
*
22830495 AATAAGGAACGAAACAG
1 AAGAAGGAACGAAACAG
22830512 -AGAAGGAA
1 AAGAAGGAA
22830520 GGAAGGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.64, C:0.07, G:0.26, T:0.02
Consensus pattern (17 bp):
AAGAAGGAACGAAACAG
Found at i:22834696 original size:23 final size:22
Alignment explanation
Indices: 22834620--22834731 Score: 100
Period size: 23 Copynumber: 4.8 Consensus size: 22
22834610 GTCATGGTCG
22834620 GTAAGCTCTTACTGAGCTGACAAACA
1 GTAAGCTCTT--TGAGCT-A-AAACA
* *
22834646 GTTAGCTCTATTGAGCT-GAACA
1 GTAAGCTCT-TTGAGCTAAAACA
*
22834668 GTAAGCTCTTTCGAGCTAAATCA
1 GTAAGCTCTTT-GAGCTAAAACA
**
22834691 GTAAGCTACAATGAGCTAAAACA
1 GTAAGCT-CTTTGAGCTAAAACA
22834714 GTAAGCTCTTATGAGCTA
1 GTAAGCTCTT-TGAGCTA
22834732 TGGTGAGTCC
Statistics
Matches: 71, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
21 2 0.03
22 18 0.25
23 34 0.48
24 2 0.03
25 6 0.08
26 8 0.11
27 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (22 bp):
GTAAGCTCTTTGAGCTAAAACA
Found at i:22837694 original size:29 final size:30
Alignment explanation
Indices: 22837665--22837887 Score: 165
Period size: 30 Copynumber: 7.5 Consensus size: 30
22837655 TTCAGCTATC
22837665 AATTATGAAAAGGGATGATGACGACCATCA
1 AATTATGAAAAGGGATGATGACGACCATCA
* *
22837695 ACA--ATGAAAATGGATGGTGACGACCATC-
1 A-ATTATGAAAAGGGATGATGACGACCATCA
* * * * *
22837723 AACTATGAAAAGGGATAGCT-TCGGCTATCA
1 AATTATGAAAAGGGAT-GATGACGACCATCA
* *
22837753 AATTTTGAAAAGGGATGGTGACGA-CATCGA
1 AATTATGAAAAGGGATGATGACGACCATC-A
* * * * *
22837783 AA-TATGAAAAAGGATAACT-TCGGCTATCA
1 AATTATGAAAAGGGATGA-TGACGACCATCA
*
22837812 AATTATGAAAAGGGAT-AGTGACGACCATCG
1 AATTATGAAAAGGGATGA-TGACGACCATCA
** * * *
22837842 AACAATGGAAAGAGATGGTGACGACCATCA
1 AATTATGAAAAGGGATGATGACGACCATCA
22837872 AATTATGAAAAGGGAT
1 AATTATGAAAAGGGAT
22837888 AGCTTCAGCT
Statistics
Matches: 145, Mismatches: 36, Indels: 24
0.71 0.18 0.12
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 63 0.43
30 79 0.54
31 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (30 bp):
AATTATGAAAAGGGATGATGACGACCATCA
Found at i:22837764 original size:30 final size:30
Alignment explanation
Indices: 22837611--22837829 Score: 143
Period size: 29 Copynumber: 7.5 Consensus size: 30
22837601 TCATCGACAA
* *
22837611 ATGAAAAGGGATAGTTTTGGCTATCAAA-T
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
* *
22837640 ACGAAAAGGGATAGCTTCAGCTATC-AATT
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
* * * *
22837669 ATGAAAAGGGAT-GATGACGACCATCAACA--
1 ATGAAAAGGGATAGCT-TCGGCTATCAA-ATT
* * * * * *
22837698 ATGAAAATGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATCAAATT
22837727 ATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
* * * *
22837757 TTGAAAAGGGAT-GGTGACGAC-ATCGAAA-T
1 ATGAAAAGGGATAGCT-TCGGCTATC-AAATT
* *
22837786 ATGAAAAAGGATAACTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
22837816 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
22837830 TGACGACCAT
Statistics
Matches: 147, Mismatches: 30, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
27 1 0.01
28 5 0.03
29 100 0.68
30 40 0.27
31 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGGCTATCAAATT
Found at i:22837789 original size:59 final size:60
Alignment explanation
Indices: 22837698--22837843 Score: 224
Period size: 59 Copynumber: 2.5 Consensus size: 60
22837688 ACCATCAACA
* * * *
22837698 ATGAAAATGGATGGTGACGACCATC-AACTATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAAGGATAACTTCGGCTATCAAATT
*
22837757 TTGAAAAGGGATGGTGACGA-CATCGAAATATGAAAAAGGATAACTTCGGCTATCAAATT
1 ATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAAGGATAACTTCGGCTATCAAATT
*
22837816 ATGAAAAGGGATAGTGACGACCATCGAA
1 ATGAAAAGGGATGGTGACGACCATCGAA
22837844 CAATGGAAAG
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
58 4 0.05
59 67 0.86
60 7 0.09
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAAGGATAACTTCGGCTATCAAATT
Found at i:22855578 original size:49 final size:48
Alignment explanation
Indices: 22855506--22855681 Score: 208
Period size: 51 Copynumber: 3.5 Consensus size: 48
22855496 CTGATACGCA
* * *
22855506 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACAAACAAT-TGGTACACG
* * * *
22855555 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CAAA-CAATTG-GTACACG
* * *
22855606 TAGTAGGCTGCACTTAGTACTACACATGTGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC-AAACAAT-TGGTACACG
22855656 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
22855682 CGTGTACTCA
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
49 29 0.27
50 37 0.35
51 41 0.38
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACAAACAATTGGTACACG
Found at i:22855680 original size:101 final size:100
Alignment explanation
Indices: 22855500--22855685 Score: 309
Period size: 101 Copynumber: 1.9 Consensus size: 100
22855490 AGCTATCTGA
*
22855500 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTG
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTG
22855565 CACTTAGTACTACACACGTGATCAAAGCCATTGAG
66 CACTTAGTACTACACACGTGATCAAAGCCATTGAG
* * * * *
22855600 TACGCATAGTAGGCTGCACTTAGTACTACACATGTGACTTAACAGTATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATACGGTACACGTAGTAGCCT
22855665 GCACTTAGTACTACACACGTG
65 GCACTTAGTACTACACACGTG
22855686 TACTCACAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 36 0.46
101 43 0.54
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (100 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTG
CACTTAGTACTACACACGTGATCAAAGCCATTGAG
Found at i:22857829 original size:29 final size:29
Alignment explanation
Indices: 22857787--22857856 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
22857777 TCATCGAAAA
* * *
22857787 ATGAAAAGGTATAGTTTCGGTTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
22857816 ATGAAATGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
22857845 ATGAAAAGGGAT
1 ATGAAAAGGGAT
22857857 GGTGACGACC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:22857909 original size:30 final size:30
Alignment explanation
Indices: 22857845--22858005 Score: 141
Period size: 30 Copynumber: 5.4 Consensus size: 30
22857835 GCTATCGATT
* *
22857845 ATGAAAAGGGATGGTGACGACCAT-TAACA
1 ATGAAAAGGGATGGTGACGACCATCGAATA
* *
22857874 ATGAAAAGGGATGGCGACGACCATCGGATA
1 ATGAAAAGGGATGGTGACGACCATCGAATA
*
22857904 ATGAAAAGGAATGGTGACGACCATCGAACT-
1 ATGAAAAGGGATGGTGACGACCATCGAA-TA
* * * * * *
22857934 ATGAAAAGGGATAAGT-TCGGCTATCAAATT
1 ATGAAAAGGGAT-GGTGACGACCATCGAATA
* * *
22857964 AT-AGAAAGGGATGGTGACAACCATCAAATT
1 ATGA-AAAGGGATGGTGACGACCATCGAATA
22857994 ATGAAAAGGGAT
1 ATGAAAAGGGAT
22858006 AGCTCCGGCT
Statistics
Matches: 107, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
29 27 0.25
30 76 0.71
31 4 0.04
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCGAATA
Found at i:22858015 original size:60 final size:59
Alignment explanation
Indices: 22857813--22858030 Score: 201
Period size: 60 Copynumber: 3.7 Consensus size: 59
22857803 TCGGTTATCG
* * *
22857813 AATATGAAATGGGATAGCTTCGGCTATC-GATTATGAAAAGGGATGGTGACGACCATTA
1 AATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCA
* ** * * ** * *
22857871 ACA-ATGAAAAGGGATGGCGACGACCATCGGATAATGAAAAGGAATGGTGACGACCATCGA
1 A-ATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATC-A
* *
22857931 ACTATGAAAAGGGATAAG-TTCGGCTATCAAATTAT-AGAAAGGGATGGTGACAACCATCA
1 AATATGAAAAGGGAT-AGCTTCGGCTATCAAATTATGA-AAAGGGATGGTGACGACCATCA
* * * *
22857990 AATTATGAAAAGGGATAGCTCCGGCTGTCAAACTATAAAAA
1 AA-TATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAA
22858031 AAGATAACTT
Statistics
Matches: 127, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
58 20 0.16
59 32 0.25
60 73 0.57
61 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (59 bp):
AATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCA
Found at i:22859321 original size:20 final size:20
Alignment explanation
Indices: 22859281--22859321 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22859271 CCCTATAGTG
* *
22859281 TTGAAAAGTTCTATGATTTT
1 TTGAAAAATTCTATGAGTTT
*
22859301 TTGAAAAATTCTTTGAGTTT
1 TTGAAAAATTCTATGAGTTT
22859321 T
1 T
22859322 CGATTTAGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (20 bp):
TTGAAAAATTCTATGAGTTT
Found at i:22860187 original size:29 final size:28
Alignment explanation
Indices: 22860146--22860212 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
22860136 TCGATTATGT
* * *
22860146 AAAAGGATGGTGATGAGCATCAACAATG
1 AAAAGGATAGTGACGACCATCAACAATG
* *
22860174 AAAAGGGATAGTGACGACCATCGACTATG
1 AAAA-GGATAGTGACGACCATCAACAATG
22860203 AAAAAGGATA
1 -AAAAGGATA
22860213 ACTTCGACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 4 0.12
29 24 0.75
30 4 0.12
ACGTcount: A:0.45, C:0.12, G:0.27, T:0.16
Consensus pattern (28 bp):
AAAAGGATAGTGACGACCATCAACAATG
Found at i:22860266 original size:60 final size:61
Alignment explanation
Indices: 22860174--22860332 Score: 205
Period size: 61 Copynumber: 2.6 Consensus size: 61
22860164 ATCAACAATG
* * *
22860174 AAAAGGGATAGTGACGACCATCG-ACTATGAAAAAGGATAACTTCGACTATAAAATTAT-A
1 AAAAAGGATAGTGATGACCATCGAACTATGAAAAGGGATAACTTCGACTATAAAATTATGA
* * ** *
22860233 AAAAAGGATAGTGATGTCCATCGAACTATGAAAAGGGATAGCTTCGGTTATTAAATTATGA
1 AAAAAGGATAGTGATGACCATCGAACTATGAAAAGGGATAACTTCGACTATAAAATTATGA
* * *
22860294 AAAAAGGATAGTGATGGCCATTGAACAATGAAAAGGGAT
1 AAAAAGGATAGTGATGACCATCGAACTATGAAAAGGGAT
22860333 GGTGATGACC
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
59 20 0.23
60 30 0.34
61 37 0.43
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (61 bp):
AAAAAGGATAGTGATGACCATCGAACTATGAAAAGGGATAACTTCGACTATAAAATTATGA
Found at i:22860273 original size:30 final size:31
Alignment explanation
Indices: 22860232--22860364 Score: 92
Period size: 30 Copynumber: 4.4 Consensus size: 31
22860222 ATAAAATTAT
* *
22860232 AAAAAAGGATAGTGATGTCCATCGAACTATG
1 AAAAAGGGATAGTGATGTCCATCAAACTATG
*** * * *
22860263 -AAAAGGGATAGCTTCGGT-TATTAAATTATG
1 AAAAAGGGATAG-TGATGTCCATCAAACTATG
* * ** *
22860293 AAAAAAGGATAGTGATGGCCATTGAACAATG
1 AAAAAGGGATAGTGATGTCCATCAAACTATG
* * *
22860324 -AAAAGGGATGGTGATGACCATCAAAATATG
1 AAAAAGGGATAGTGATGTCCATCAAACTATG
22860354 AAAAAGGGATA
1 AAAAAGGGATA
22860365 ATTTCAGCTA
Statistics
Matches: 73, Mismatches: 25, Indels: 8
0.69 0.24 0.08
Matches are distributed among these distances:
30 43 0.59
31 30 0.41
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAAAGGGATAGTGATGTCCATCAAACTATG
Found at i:22860354 original size:61 final size:61
Alignment explanation
Indices: 22860174--22860364 Score: 167
Period size: 61 Copynumber: 3.2 Consensus size: 61
22860164 ATCAACAATG
* * * * * * *
22860174 AAAAGGGATAGTGACGACCATCG-ACTATGAAAAAGGATAACTTCGACTAT-AAAATTAT-A
1 AAAAAGGATAGTGATGGCCATCGAACAATGAAAAGGGATAGCTTCGACCATCAAAA-TATGA
* * *** * *
22860233 AAAAAGGATAGTGATGTCCATCGAACTATGAAAAGGGATAGCTTCGGTTATTAAATTATGA
1 AAAAAGGATAGTGATGGCCATCGAACAATGAAAAGGGATAGCTTCGACCATCAAAATATGA
* *
22860294 AAAAAGGATAGTGATGGCCATTGAACAATGAAAAGGGAT-GGTGAT-GACCATCAAAATATGA
1 AAAAAGGATAGTGATGGCCATCGAACAATGAAAAGGGATAGCT--TCGACCATCAAAATATGA
*
22860355 AAAAGGGATA
1 AAAAAGGATA
22860365 ATTTCAGCTA
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
59 20 0.18
60 28 0.26
61 60 0.55
62 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (61 bp):
AAAAAGGATAGTGATGGCCATCGAACAATGAAAAGGGATAGCTTCGACCATCAAAATATGA
Found at i:22868411 original size:28 final size:28
Alignment explanation
Indices: 22868356--22868484 Score: 120
Period size: 28 Copynumber: 4.7 Consensus size: 28
22868346 GGGGACAAAG
* *
22868356 CTGTAAAATCTAAAAAAATAAGGTTAAAT
1 CTGTAAAATCT-AAAAAATAAGGGTAAAA
* *
22868385 TTGTAAAATCTAAAAAATAGGGGTAAAA
1 CTGTAAAATCTAAAAAATAAGGGTAAAA
* *
22868413 CTATAAAATCT-AAAAA-AAGGCT-AAA
1 CTGTAAAATCTAAAAAATAAGGGTAAAA
* * * *
22868438 CTATCAAATATGAAAAATAAGGGTAAAA
1 CTGTAAAATCTAAAAAATAAGGGTAAAA
* *
22868466 CTATAAAATCTGAAAAATA
1 CTGTAAAATCTAAAAAATA
22868485 GGGAACACAT
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
25 12 0.14
26 9 0.11
27 10 0.12
28 43 0.51
29 10 0.12
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.24
Consensus pattern (28 bp):
CTGTAAAATCTAAAAAATAAGGGTAAAA
Found at i:22868487 original size:27 final size:27
Alignment explanation
Indices: 22868388--22868487 Score: 123
Period size: 28 Copynumber: 3.7 Consensus size: 27
22868378 GTTAAATTTG
*
22868388 TAAAATCTAAAAAATAGGGGTAAAACTA
1 TAAAATCTGAAAAATA-GGGTAAAACTA
* *
22868416 TAAAATCT-AAAAAAAGGCT-AAACTA
1 TAAAATCTGAAAAATAGGGTAAAACTA
* *
22868441 TCAAATATGAAAAATAAGGGTAAAACTA
1 TAAAATCTGAAAAAT-AGGGTAAAACTA
22868469 TAAAATCTGAAAAATAGGG
1 TAAAATCTGAAAAATAGGG
22868488 AACACATGGC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.20
26 8 0.13
27 14 0.23
28 27 0.44
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.21
Consensus pattern (27 bp):
TAAAATCTGAAAAATAGGGTAAAACTA
Found at i:22871862 original size:56 final size:56
Alignment explanation
Indices: 22871776--22871975 Score: 283
Period size: 56 Copynumber: 3.6 Consensus size: 56
22871766 ACCTGGAAGT
* *
22871776 ATATGTGACTTCGATACATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGCATCG
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGCATCG
* *
22871832 ATATGTGACTCCGATATATGTGTGTGAGTAAGTCCACGTTTCATATGTTGGCATCG
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGCATCG
* * * *
22871888 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCG
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGCATCG
* * * * *
22871944 ATATGTGATTTCGATATGTGTTTACGAGTAAG
1 ATATGTGACTCCGATATATGTGTGCGAGTAAG
22871976 ACCCTGTTTG
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 128 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (56 bp):
ATATGTGACTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGCATCG
Found at i:22881335 original size:29 final size:29
Alignment explanation
Indices: 22881302--22881361 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
22881292 CACATATGTA
*
22881302 ATAAGAGTAATTAGAAGTTATTATTTACT
1 ATAAGAGTAATTACAAGTTATTATTTACT
22881331 ATAAGAGTAATTACAAGTTATTATTTACT
1 ATAAGAGTAATTACAAGTTATTATTTACT
22881360 AT
1 AT
22881362 CATAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (29 bp):
ATAAGAGTAATTACAAGTTATTATTTACT
Found at i:22881375 original size:32 final size:29
Alignment explanation
Indices: 22881310--22881371 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
22881300 TAATAAGAGT
* * **
22881310 AATTAGAAGTTATTATTTACTATAAGAGT
1 AATTACAAGTTATTATTTACTATAAAAAA
22881339 AATTACAAGTTATTATTTACTATCATAAAAA
1 AATTACAAGTTATTATTTACTAT-A-AAAAA
22881370 AA
1 AA
22881372 ATTAGCCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 22 0.81
30 1 0.04
31 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (29 bp):
AATTACAAGTTATTATTTACTATAAAAAA
Found at i:22884340 original size:30 final size:30
Alignment explanation
Indices: 22884264--22884342 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
22884254 AAGTTGTAAA
*
22884264 TTTAGTCCTTATACTTT--ATTTGATCAAT
1 TTTAGTCCTTATACTTTCAAATTGATCAAT
* * * *
22884292 TTTAGTCC-TGTGCTTTTCAAATTGGTCACT
1 TTTAGTCCTTATAC-TTTCAAATTGATCAAT
22884322 TTTAGTCCTTATACTTTCAAA
1 TTTAGTCCTTATACTTTCAAA
22884343 AATTAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
27 3 0.08
28 11 0.28
30 23 0.57
31 3 0.08
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTAGTCCTTATACTTTCAAATTGATCAAT
Found at i:22885296 original size:29 final size:29
Alignment explanation
Indices: 22885250--22885308 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
22885240 GCCATTTGAA
*
22885250 CATATTTGCTAAGTATTTATATCAAAATT
1 CATATTTGCTAAGCATTTATATCAAAATT
*
22885279 CATATTTGCTAAGCATTTATATCAACATT
1 CATATTTGCTAAGCATTTATATCAAAATT
22885308 C
1 C
22885309 TTTTGACAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (29 bp):
CATATTTGCTAAGCATTTATATCAAAATT
Found at i:22900271 original size:10 final size:9
Alignment explanation
Indices: 22900240--22900273 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
22900230 TTTCATTTCA
22900240 TTTTTTTAGT
1 TTTTTTTA-T
*
22900250 TTCTTTTAT
1 TTTTTTTAT
22900259 TTTTTTTAT
1 TTTTTTTAT
22900268 TTTTTT
1 TTTTTT
22900274 ACTACAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:22901779 original size:20 final size:20
Alignment explanation
Indices: 22901754--22901797 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
22901744 TTCATTGCTC
22901754 TTTAATTATTAGTGTTAATA
1 TTTAATTATTAGTGTTAATA
*
22901774 TTTAATTATTAGTGTTAGTA
1 TTTAATTATTAGTGTTAATA
22901794 TTTA
1 TTTA
22901798 TATGTTGCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTAATTATTAGTGTTAATA
Found at i:22902672 original size:16 final size:16
Alignment explanation
Indices: 22902648--22902679 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22902638 TAATTAAAAA
*
22902648 TTTATAAAATATATAT
1 TTTAAAAAATATATAT
22902664 TTTAAAAAATATATAT
1 TTTAAAAAATATATAT
22902680 ATACATATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAAAATATATAT
Found at i:22903387 original size:13 final size:13
Alignment explanation
Indices: 22903371--22903431 Score: 95
Period size: 13 Copynumber: 4.7 Consensus size: 13
22903361 ACCAAATTTT
22903371 TCAAAAGCACTTC
1 TCAAAAGCACTTC
22903384 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
22903397 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
22903410 TCCACAGCACTTC
1 TCAAAAGCACTTC
22903423 TCAAAAGCA
1 TCAAAAGCA
22903432 TTTTTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:22903436 original size:26 final size:26
Alignment explanation
Indices: 22903371--22903444 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
22903361 ACCAAATTTT
*
22903371 TCAAAAGCACTTCTCAAAAGCACTTC
1 TCAAAAGCACTTTTCAAAAGCACTTC
* *
22903397 TCAAAAGCACTTTTCCACAGCACTTC
1 TCAAAAGCACTTTTCAAAAGCACTTC
* *
22903423 TCAAAAGCATTTTTTAAAAGCA
1 TCAAAAGCACTTTTCAAAAGCA
22903445 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (26 bp):
TCAAAAGCACTTTTCAAAAGCACTTC
Found at i:22904421 original size:14 final size:14
Alignment explanation
Indices: 22904391--22904430 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
22904381 TAATGAGCTA
*
22904391 AATAGAATAATTAAT
1 AATAAAATAA-TAAT
22904406 AATAAAATAATAAT
1 AATAAAATAATAAT
*
22904420 AATAATATAAT
1 AATAAAATAAT
22904431 GGCATGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:22906559 original size:51 final size:50
Alignment explanation
Indices: 22906440--22906828 Score: 257
Period size: 51 Copynumber: 7.6 Consensus size: 50
22906430 TTTTAATATC
* *
22906440 AAACTGTTTCATATA-T-TTTACTTATTATAATTTTTTTATATTA-TTTATTT
1 AAACTGTTTTATATATTATTTA-TT-TTA-AATTTTTATATATTAGTTTATTT
* * * *
22906490 GAAA-TAGTGTTATATATTATTTATTTTAGACTTTTTACATATTAGTTCATTT
1 -AAACT-GTTTTATATATTATTTATTTTA-AATTTTTATATATTAGTTTATTT
* * * *
22906542 AAACTGTTTTATGTATTATATATTTAAAATTACTTTATAAATTA-TTTATTT
1 AAACTGTTTTATATATTATTTATTTTAAATT--TTTATATATTAGTTTATTT
* * *
22906593 CAAATTGTTTTATGCT-TTATTTATTTTAATTTTTTTATATATT-GTTTATTTT
1 -AAACTGTTTTAT-ATATTATTTATTTTAA-ATTTTTATATATTAGTTTA-TTT
*
22906645 AAACT-TTTTCATAAATTATTTATTTTAAATTGTTT-TATTATTA-TTTA-TT
1 AAACTGTTTT-ATATATTATTTATTTTAAATT-TTTATA-TATTAGTTTATTT
** * * **
22906694 -ATGTATTTTAAACTATTATCCATTTTAAATTTTTTATATATTA-TTTATTTT
1 AAACTGTTTTATA-TATTATTTATTTTAAA-TTTTTATATATTAGTTTA-TTT
* * * *
22906745 AAACTGTTATATATATTGTTTATTTTGAATTATATATATATATTA-TTTTTTT
1 AAACTGTTTTATATATTATTTATTTTAAATT-T-T-TATATATTAGTTTATTT
* *
22906797 AAACCGTTTTGTATATTATTTATTTTAAATTT
1 AAACTGTTTTATATATTATTTATTTTAAATTT
22906829 CTTTTTACAT
Statistics
Matches: 265, Mismatches: 46, Indels: 54
0.73 0.13 0.15
Matches are distributed among these distances:
48 4 0.02
49 31 0.12
50 18 0.07
51 112 0.42
52 81 0.31
53 19 0.07
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (50 bp):
AAACTGTTTTATATATTATTTATTTTAAATTTTTATATATTAGTTTATTT
Found at i:22906589 original size:103 final size:102
Alignment explanation
Indices: 22906474--22906693 Score: 234
Period size: 103 Copynumber: 2.2 Consensus size: 102
22906464 TTATAATTTT
*
22906474 TTTAT-ATTATTTATTTGAAATAGTGTTAT-ATATTATTTATTTTAGA-CTTTTTACATATTAGT
1 TTTATAATTATTTATTTCAAATAGTGTTATGAT-TTATTTATTTTA-ATCTTTTTACATATT-GT
**
22906536 TCA-TTTAAACTGTTTT-ATGTATTATATATTTAAAATTAC
63 TCATTTTAAACT-TTTTCATAAATTATATATTTAAAATTAC
* * * * * *
22906575 TTTATAAATTATTTATTTCAAATTGTTTTATGCTTTATTTATTTTAATTTTTTTATATATTGTTT
1 TTTAT-AATTATTTATTTCAAATAGTGTTATGATTTATTTATTTTAATCTTTTTACATATTGTTC
* * **
22906640 ATTTTAAACTTTTTCATAAATTATTTATTTTAAATTGT
65 ATTTTAAACTTTTTCATAAATTATATATTTAAAATTAC
*
22906678 TTTATTATTATTTATT
1 TTTATAATTATTTATT
22906694 ATGTATTTTA
Statistics
Matches: 99, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
101 5 0.05
102 19 0.19
103 74 0.75
104 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.60
Consensus pattern (102 bp):
TTTATAATTATTTATTTCAAATAGTGTTATGATTTATTTATTTTAATCTTTTTACATATTGTTCA
TTTTAAACTTTTTCATAAATTATATATTTAAAATTAC
Found at i:22906604 original size:26 final size:26
Alignment explanation
Indices: 22906451--22906996 Score: 337
Period size: 26 Copynumber: 21.5 Consensus size: 26
22906441 AACTGTTTCA
* * *
22906451 TATATTTTACTTATTAT-AATT-TTT
1 TATATATTATTTATTTTAAATTGTTT
* * *
22906475 T-TATATTATTTATTTGAAATAGTGT
1 TATATATTATTTATTTTAAATTGTTT
* *
22906500 TATATATTATTTATTTTAGACT-TTT
1 TATATATTATTTATTTTAAATTGTTT
* * *
22906525 TACATATTAGTTCA-TTTAAACTGTTT
1 TATATATTA-TTTATTTTAAATTGTTT
* * * **
22906551 TATGTATTATATATTTAAAATTACTT
1 TATATATTATTTATTTTAAATTGTTT
* *
22906577 TATAAATTATTTATTTCAAATTGTTT
1 TATATATTATTTATTTTAAATTGTTT
* *
22906603 TATGCT-TTATTTATTTT-AATTTTTT
1 TAT-ATATTATTTATTTTAAATTGTTT
*
22906628 TATATATTGTTTATTTTAAACTT-TTT
1 TATATATTATTTATTTTAAA-TTGTTT
* *
22906654 CATAAATTATTTATTTTAAATTGTTT
1 TATATATTATTTATTTTAAATTGTTT
*
22906680 TAT-TATTATTTA--TT--ATGTATTT
1 TATATATTATTTATTTTAAAT-TGTTT
* **
22906702 TAAACTATTATCCATTTTAAATT-TTT
1 TATA-TATTATTTATTTTAAATTGTTT
* *
22906728 TATATATTATTTATTTTAAACTGTTA
1 TATATATTATTTATTTTAAATTGTTT
* * * *
22906754 TATATATTGTTTATTTTGAATTATATA
1 TATATATTATTTATTTTAAATTGT-TT
**
22906781 TATATATTATTT-TTTTAAACCGTTT
1 TATATATTATTTATTTTAAATTGTTT
* *
22906806 TGTATATTATTTATTTTAAATTTCTTTT
1 TATATATTATTTATTTTAAA-TT-GTTT
* * * * *
22906834 TACATGTTATTTATCTTAAAACTCTTT
1 TATATATTATTTAT-TTTAAATTGTTT
* * *
22906861 T-T-T-TTATGTATTTTAAAGTG-TC
1 TATATATTATTTATTTTAAATTGTTT
*
22906883 TATTATATTATTTATGTTAAATT-TCTT
1 TA-TATATTATTTATTTTAAATTGT-TT
* * * * *
22906910 TGTATGTTATTTATTTTCATTTCTTT
1 TATATATTATTTATTTTAAATTGTTT
*
22906936 TACATATTATTTATTTTAAATTG-TT
1 TATATATTATTTATTTTAAATTGTTT
* * *
22906961 T-TATACTATTT-CTTCAAATTGTTT
1 TATATATTATTTATTTTAAATTGTTT
22906985 TATATATTATTT
1 TATATATTATTT
22906997 TGCTTCGTTT
Statistics
Matches: 395, Mismatches: 94, Indels: 65
0.71 0.17 0.12
Matches are distributed among these distances:
21 2 0.01
22 8 0.02
23 27 0.07
24 31 0.08
25 93 0.24
26 189 0.48
27 23 0.06
28 17 0.04
29 5 0.01
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
TATATATTATTTATTTTAAATTGTTT
Found at i:22908028 original size:41 final size:41
Alignment explanation
Indices: 22907965--22908049 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
22907955 GAAATACAAA
*
22907965 ATAAACTAGTTTATTTTAAAAAAAAACCTTAATTATCTAAG
1 ATAAACTAGTTTATTTTAAAAAAAAAACTTAATTATCTAAG
*
22908006 ATAAA-TAGTTTAAATTTT-AAAAAAAAACTTATTTATCTAAG
1 ATAAACTAGTTT--ATTTTAAAAAAAAAACTTAATTATCTAAG
22908047 ATA
1 ATA
22908050 CAACCTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 6 0.15
41 29 0.73
42 5 0.12
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.38
Consensus pattern (41 bp):
ATAAACTAGTTTATTTTAAAAAAAAAACTTAATTATCTAAG
Found at i:22908236 original size:18 final size:18
Alignment explanation
Indices: 22908213--22908249 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22908203 ATGTCGTTCC
22908213 TATCCATACTTGTATCGT
1 TATCCATACTTGTATCGT
22908231 TATCCATACTTGTATCGT
1 TATCCATACTTGTATCGT
22908249 T
1 T
22908250 CTCCCCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (18 bp):
TATCCATACTTGTATCGT
Found at i:22913080 original size:7 final size:7
Alignment explanation
Indices: 22913068--22913108 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
22913058 AATCCGAGTA
22913068 TAACATT
1 TAACATT
22913075 TAACATT
1 TAACATT
22913082 TAACATT
1 TAACATT
22913089 TAACATT
1 TAACATT
22913096 TAACATT
1 TAACATT
22913103 TAACAT
1 TAACAT
22913109 GTTTTGTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:22913870 original size:32 final size:32
Alignment explanation
Indices: 22913829--22913956 Score: 220
Period size: 32 Copynumber: 4.0 Consensus size: 32
22913819 TATAACTATA
22913829 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
22913861 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
22913893 CAACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
22913925 TTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
22913957 ATTTTTTATG
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 89 1.00
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.46
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:22914927 original size:118 final size:118
Alignment explanation
Indices: 22914719--22914949 Score: 426
Period size: 118 Copynumber: 2.0 Consensus size: 118
22914709 TATTTTAAAG
22914719 GATTGTATTGGGGCCATAGATGGAACACACATAAAAGCATGCATTTCGCCTTCTTCTCAAATACC
1 GATTGTATTGGGGCCATAGATGGAACACACATAAAAGCATGCATTTCGCCTTCTTCTCAAATACC
*
22914784 TTATATCGGACGGAAAGGTGAACCAACTCAAAATGTTATGGCAGTTTGCGACA
66 TTATATCGGACGGAAAGGTGAACCAACTCAAAATATTATGGCAGTTTGCGACA
* * *
22914837 GATTGTATTGGTGTCATAGATGGAACACACATAAAAGCATGCATTTCGCCTTCTTGTCAAATACC
1 GATTGTATTGGGGCCATAGATGGAACACACATAAAAGCATGCATTTCGCCTTCTTCTCAAATACC
22914902 TTATATCGGACGGAAAGGTGAACCAACTCAAAATATTATGGCAGTTTG
66 TTATATCGGACGGAAAGGTGAACCAACTCAAAATATTATGGCAGTTTG
22914950 TGACTTCAAC
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 109 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (118 bp):
GATTGTATTGGGGCCATAGATGGAACACACATAAAAGCATGCATTTCGCCTTCTTCTCAAATACC
TTATATCGGACGGAAAGGTGAACCAACTCAAAATATTATGGCAGTTTGCGACA
Found at i:22929330 original size:39 final size:39
Alignment explanation
Indices: 22929286--22929413 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
22929276 TATGAGATTG
22929286 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
*
22929325 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* * ** *
22929364 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
22929403 AAAATATCCGG
1 AAAATATCCGG
22929414 GTTAAAGACC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
Found at i:22929427 original size:78 final size:76
Alignment explanation
Indices: 22929285--22929439 Score: 195
Period size: 78 Copynumber: 2.0 Consensus size: 76
22929275 GTATGAGATT
* * *
22929285 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACATAAGACCCGCA
*
22929350 GGCTATATGCTA
66 GGCT-TACGCTA
* * * **
22929362 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACAT-AAGACCCG
22929426 CAGGCTTACGCTA
64 CAGGCTTACGCTA
22929439 G
1 G
22929440 TAATGTATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 12 0.18
78 55 0.82
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:22968879 original size:21 final size:21
Alignment explanation
Indices: 22968853--22968892 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22968843 CAAAACAATG
*
22968853 TAGTTTTGCCTTTTAACTTAA
1 TAGTTTTGACTTTTAACTTAA
22968874 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
22968893 TAGAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:22972894 original size:16 final size:15
Alignment explanation
Indices: 22972875--22972904 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
22972865 TAATATTTCG
22972875 TTTAATATTTTATTTA
1 TTTAATA-TTTATTTA
22972891 TTTAATATTTATTT
1 TTTAATATTTATTT
22972905 CTTCAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTAATATTTATTTA
Found at i:22972992 original size:18 final size:19
Alignment explanation
Indices: 22972969--22973013 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
22972959 ATATATTGTC
22972969 TATTATTACTATC-ATTAT
1 TATTATTACTATCTATTAT
*
22972987 TATTATT-TTATCTATTAT
1 TATTATTACTATCTATTAT
22973005 TATTTATTA
1 TA-TTATTA
22973014 TATATGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATTACTATCTATTAT
Found at i:22976960 original size:20 final size:19
Alignment explanation
Indices: 22976923--22976963 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
22976913 CGCCTTCTTT
*
22976923 TTTGCATTCATCCCATGCA
1 TTTGCATTCATCACATGCA
*
22976942 TTTGCATTACATCATATGCA
1 TTTGCATT-CATCACATGCA
22976962 TT
1 TT
22976964 AAATTTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (19 bp):
TTTGCATTCATCACATGCA
Found at i:22984735 original size:44 final size:44
Alignment explanation
Indices: 22984672--22985007 Score: 214
Period size: 44 Copynumber: 7.6 Consensus size: 44
22984662 CATCATGGCG
* * * * *
22984672 AATCTTATCTCCTTAAAGTTATAGCGGAGCAGATTAAAGTCACG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
* * * *
22984716 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
* * ** *
22984760 GATCTTATCTCACTGAAGTTACAGTGGAATAGATCAAAGAT-AGCA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG-TCA-CA
* * * * *
22984805 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAG-CTATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTC-ACA
* * * * *
22984849 AACCTTATCTCCCTGAAGTTGCAGT-GAGCAGGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
* * * * * * *
22984892 AGTCTCATCTTCCTGAAGTTGCAGTGGAGCAGAGTAAAG-AAGGAA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCA--CA
* *** * * * *
22984937 AATCTTATCTCCCTAAAGTTGTGGTAGAGTAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
**
22984981 AATCCCATAC-CCCTGAAGTTACAGTGG
1 AATCTTAT-CTCCCTGAAGTTACAGTGG
22985008 GATAGATTGA
Statistics
Matches: 221, Mismatches: 61, Indels: 20
0.73 0.20 0.07
Matches are distributed among these distances:
43 34 0.15
44 121 0.55
45 65 0.29
46 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
Found at i:22984965 original size:132 final size:133
Alignment explanation
Indices: 22984719--22984957 Score: 326
Period size: 132 Copynumber: 1.8 Consensus size: 133
22984709 AGTCACGAAT
* *
22984719 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAGATCTTATCTCACTGAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAAAGATCTCATCTCACTGAAGTTACAG
* * * *
22984784 TGGAATAGATCAAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATA
66 TGGAACAGATCAAAGATAGAAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCTATA
22984849 AAC
131 AAC
* *
22984852 CTTATCTCCCTGAAGTTGCAGT-GAGCAGGTTGAAGTTACAAG-TCTCATCTTC-CTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-AAGATCTCATC-TCACTGAAGTTAC
*
22984914 AGTGGAGCAGAGT-AAAGA-AGGAAAATCTTATCTCCCTAAAGTTG
64 AGTGGAACAGA-TCAAAGATA-GAAAATCTTATCTCCCTAAAGTTG
22984958 TGGTAGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
131 1 0.01
132 65 0.70
133 27 0.29
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAAAGATCTCATCTCACTGAAGTTACAG
TGGAACAGATCAAAGATAGAAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCTATA
AAC
Found at i:22984995 original size:132 final size:132
Alignment explanation
Indices: 22984672--22985020 Score: 314
Period size: 132 Copynumber: 2.6 Consensus size: 132
22984662 CATCATGGCG
* ** ** * * * * *
22984672 AATCTTATCTCCTTAAAGTTATAGCGGAGCAGATTAAAGTCACGAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCCACAAACCATATCTCCCTGAAGTTG
* * *
22984737 CAGTGGAGCAGATTGAAGTTATAGATCTTATCTCACTGAAGTTACAGTGGAATAGATCAAAGATA
66 CAGT-GAGCAGATTGAAGTTAAAGATCTCATCTCACTGAAGTTACAGTGGAACAGATCAAAGATA
*
22984802 GCA
130 GAA
* * * * *
22984805 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCCACAAACCATATCTCCCTGAAGTTG
* * *
22984870 CAGTGAGCAGGTTGAAGTTACAAG-TCTCATCTTC-CTGAAGTTGCAGTGGAGCAGAGT-AAAGA
66 CAGTGAGCAGATTGAAGTTA-AAGATCTCATC-TCACTGAAGTTACAGTGGAACAGA-TCAAAGA
22984932 -AGGAA
128 TA-GAA
** * * *
22984937 AATCTTATCTCCCTAAAGTTGTGGTAGAGTAGATTGAAGCCACAAATCCCATA-C-CCCTGAAGT
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCCACAAA--CCATATCTCCCTGAAGT
* * *
22985000 TACAGTGGGATAGATTGAAGT
64 TGCAGTGAG-CAGATTGAAGT
22985021 CATCTATTAT
Statistics
Matches: 175, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
131 1 0.01
132 99 0.57
133 71 0.41
134 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (132 bp):
AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCCACAAACCATATCTCCCTGAAGTTG
CAGTGAGCAGATTGAAGTTAAAGATCTCATCTCACTGAAGTTACAGTGGAACAGATCAAAGATAG
AA
Found at i:22986558 original size:15 final size:16
Alignment explanation
Indices: 22986526--22986565 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
22986516 AAAGCACTGT
22986526 TTTATTTAATATTTTA
1 TTTATTTAATATTTTA
22986542 TTTATTTAATA-TTTA
1 TTTATTTAATATTTTA
*
22986557 TTTCTTTAA
1 TTTATTTAA
22986566 CCATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTTAATATTTTA
Found at i:22986645 original size:18 final size:18
Alignment explanation
Indices: 22986624--22986663 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22986614 ATATATTGTC
22986624 TATTATTACTATC-ATTAT
1 TATTATT-CTATCTATTAT
*
22986642 TATTATTTTATCTATTAT
1 TATTATTCTATCTATTAT
22986660 TATT
1 TATT
22986664 TATTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTATTCTATCTATTAT
Found at i:22986670 original size:18 final size:17
Alignment explanation
Indices: 22986633--22986668 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
22986623 CTATTATTAC
22986633 TATCATTATTATTATTT
1 TATCATTATTATTATTT
22986650 TATCTATTATTATTTATTT
1 TATC-ATTATTA-TTATTT
22986669 ATATATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
TATCATTATTATTATTT
Found at i:22989167 original size:10 final size:10
Alignment explanation
Indices: 22989137--22989170 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22989127 TTAGTTTAGA
22989137 TTTAGTTTTC
1 TTTAGTTTTC
*
22989147 TATAGGTTTTC
1 TTTA-GTTTTC
22989158 TTTAGTTTTC
1 TTTAGTTTTC
22989168 TTT
1 TTT
22989171 GCCCTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.68
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:22990779 original size:15 final size:17
Alignment explanation
Indices: 22990761--22990792 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
22990751 TAGCATAATT
22990761 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
22990776 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
22990793 CCAGTACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:22997416 original size:20 final size:20
Alignment explanation
Indices: 22997365--22997416 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
22997355 GAAATGAAAA
*
22997365 GAAGGAAAGAAACAGAGTA-
1 GAAGGAAAGAAACAGAGAAG
* *
22997384 GCATGAAACGAAACAGAGAAG
1 GAAGGAAA-GAAACAGAGAAG
*
22997405 GAAGGAAGGAAA
1 GAAGGAAAGAAA
22997417 GAAAGAAAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
19 6 0.24
20 14 0.56
21 5 0.20
ACGTcount: A:0.56, C:0.08, G:0.33, T:0.04
Consensus pattern (20 bp):
GAAGGAAAGAAACAGAGAAG
Found at i:22997873 original size:13 final size:13
Alignment explanation
Indices: 22997855--22997881 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22997845 AAGAAATTAG
22997855 TATTAAATGTAAA
1 TATTAAATGTAAA
22997868 TATTAAATGTAAA
1 TATTAAATGTAAA
22997881 T
1 T
22997882 TAGTATTGTA
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:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TATTAAATGTAAA
Found at i:22998825 original size:18 final size:18
Alignment explanation
Indices: 22998799--22998932 Score: 153
Period size: 18 Copynumber: 7.4 Consensus size: 18
22998789 TAAATAAAGG
* *
22998799 TACTGAATAACTGACTGC
1 TACTGAATAAATGACTGT
* * *
22998817 TATTGAATAATTAACTGT
1 TACTGAATAAATGACTGT
*
22998835 TACTGAATAAATGACTAT
1 TACTGAATAAATGACTGT
22998853 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
22998871 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
** *
22998889 TACTGAATAACCGACTAT
1 TACTGAATAAATGACTGT
* *
22998907 TACTGAACAATTGA-TCGT
1 TACTGAATAAATGACT-GT
22998925 TACTGAAT
1 TACTGAAT
22998933 GATATTGATA
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
17 1 0.01
18 97 0.99
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:23000939 original size:52 final size:52
Alignment explanation
Indices: 23000882--23000983 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
23000872 TCTCTGTCGA
* * *
23000882 AATTCTCCTAAAATTCTCCATTTTTCTTTTTGT-CATCTTCCCTTTCTTGAGT
1 AATTCTCCTAAAATTCTCCATTTTTATTTTTATCCCT-TTCCCTTTCTTGAGT
23000934 AATTCTCCTAAAATTCTCCATTTTTATTTTTATCCCTTTCCCTTTCTTGA
1 AATTCTCCTAAAATTCTCCATTTTTATTTTTATCCCTTTCCCTTTCTTGA
23000984 TTATTGATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 44 0.96
53 2 0.04
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.52
Consensus pattern (52 bp):
AATTCTCCTAAAATTCTCCATTTTTATTTTTATCCCTTTCCCTTTCTTGAGT
Found at i:23017166 original size:27 final size:27
Alignment explanation
Indices: 23017136--23017313 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23017126 ATATTGAGTC
* * * *
23017136 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23017163 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23017190 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23017218 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23017245 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23017272 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23017299 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23017314 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23017275 original size:82 final size:81
Alignment explanation
Indices: 23017157--23017312 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23017147 TGCTATATAA
* *
23017157 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23017222 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23017239 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23017303 CACTTAGTGC
65 CACTTAGTGC
23017313 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23025228 original size:27 final size:27
Alignment explanation
Indices: 23025198--23025375 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
23025188 ATATTGAGCC
* *
23025198 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
23025225 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
23025252 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
23025280 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
23025307 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
23025334 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
23025361 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23025376 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:23025310 original size:55 final size:54
Alignment explanation
Indices: 23025198--23025375 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
23025188 ATATTGAGCC
* * * * *
23025198 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
23025252 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
23025307 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
23025361 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23025376 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:23037065 original size:2 final size:2
Alignment explanation
Indices: 23037058--23037094 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23037048 TGACCTTAAA
23037058 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
23037095 AGAATTTGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23038416 original size:87 final size:88
Alignment explanation
Indices: 23038298--23038460 Score: 256
Period size: 87 Copynumber: 1.9 Consensus size: 88
23038288 GGATGTCAAC
* * *
23038298 TTAACTTAATACATTTATTAAGGTTAAGTTTATAGTAAATAGTGAAAATTGAATTATAGAGGAAC
1 TTAACTTAATACATTTATGAAGGTTAAGTTTATAATAAATAGTGAAAATTGAATTATAGAAGAAC
23038363 TCAACATCCATTTGTGTCTACTT
66 TCAACATCCATTTGTGTCTACTT
* ** *
23038386 TTAA-TTAATATATTTATGAAGGTTTTGTTTATAATATATAGTGAAAATTGAATTATAGAAGAAC
1 TTAACTTAATACATTTATGAAGGTTAAGTTTATAATAAATAGTGAAAATTGAATTATAGAAGAAC
23038450 TCAACATCCAT
66 TCAACATCCAT
23038461 CAATGTTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
87 64 0.94
88 4 0.06
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (88 bp):
TTAACTTAATACATTTATGAAGGTTAAGTTTATAATAAATAGTGAAAATTGAATTATAGAAGAAC
TCAACATCCATTTGTGTCTACTT
Found at i:23044408 original size:28 final size:28
Alignment explanation
Indices: 23044376--23044488 Score: 165
Period size: 28 Copynumber: 4.1 Consensus size: 28
23044366 CATGCCAGAC
* * *
23044376 AAAGGAAGTCTTTATGGCCATCTATGAA
1 AAAGGAAGCCTTTGTGGCGATCTATGAA
23044404 AAAGGAAGCCTTTGTGGCGATCTATGAA
1 AAAGGAAGCCTTTGTGGCGATCTATGAA
* * *
23044432 AAAGGAAGTCTTTGTGGCAATTTATGAA
1 AAAGGAAGCCTTTGTGGCGATCTATGAA
23044460 AAAGGAAGCCTTTGTGGCGATCTAT-AA
1 AAAGGAAGCCTTTGTGGCGATCTATGAA
23044487 AA
1 AA
23044489 TAAAAAAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
27 4 0.05
28 72 0.95
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (28 bp):
AAAGGAAGCCTTTGTGGCGATCTATGAA
Found at i:23044443 original size:56 final size:55
Alignment explanation
Indices: 23044376--23044488 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 55
23044366 CATGCCAGAC
*
23044376 AAAGGAAGTCTTTATGGCCATCTATGAAAAAGGAAGCCTTTGTGGCGATCTATGAA
1 AAAGGAAGTCTTTATGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATCTAT-AA
* *
23044432 AAAGGAAGTCTTTGTGGCAATTTATGAAAAAGGAAGCCTTTGTGGCGATCTATAA
1 AAAGGAAGTCTTTATGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATCTATAA
23044487 AA
1 AA
23044489 TAAAAAAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 4 0.07
56 50 0.93
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (55 bp):
AAAGGAAGTCTTTATGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATCTATAA
Found at i:23047092 original size:18 final size:18
Alignment explanation
Indices: 23047069--23047106 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23047059 ACTACTCATC
*
23047069 GTTGTGGACGAACCACTA
1 GTTGTGGACAAACCACTA
*
23047087 GTTGTGGATAAACCACTA
1 GTTGTGGACAAACCACTA
23047105 GT
1 GT
23047107 AATAAAATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (18 bp):
GTTGTGGACAAACCACTA
Found at i:23047268 original size:21 final size:22
Alignment explanation
Indices: 23047224--23047270 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
23047214 ACACTGTGGT
* *
23047224 TAAACCACTCAAATGGTATGGA
1 TAAACCACTCAAATGATATAGA
*
23047246 TAAACCACTC-AATGATGTAGA
1 TAAACCACTCAAATGATATAGA
23047267 TAAA
1 TAAA
23047271 TTGCTCAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (22 bp):
TAAACCACTCAAATGATATAGA
Found at i:23058198 original size:30 final size:30
Alignment explanation
Indices: 23058164--23058222 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
23058154 TCTTCCTTTA
23058164 TTAATTCCCTT-AAAATAATAAAAAAATAAT
1 TTAATT-CCTTAAAAATAATAAAAAAATAAT
* * *
23058194 TTAATTCTTTAAAAATTATAAAAATATAA
1 TTAATTCCTTAAAAATAATAAAAAAATAA
23058223 GTTATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (30 bp):
TTAATTCCTTAAAAATAATAAAAAAATAAT
Found at i:23064877 original size:120 final size:120
Alignment explanation
Indices: 23064734--23064973 Score: 444
Period size: 120 Copynumber: 2.0 Consensus size: 120
23064724 TACAATCATT
*
23064734 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATCATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
* *
23064799 TATTTTAAATTATATTTTATAGTATAATATATTATGATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAGTAAATTCATATA
23064854 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
*
23064919 TATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAGTAAATTCATATA
23064974 TTCTATTAAA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAGTAAATTCATATA
Found at i:23064926 original size:26 final size:25
Alignment explanation
Indices: 23064888--23064946 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
23064878 ATTAAATTAT
*
23064888 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
23064914 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
23064940 ATATTAT
1 ATATTAT
23064947 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:23064945 original size:15 final size:15
Alignment explanation
Indices: 23064901--23064956 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
23064891 TTTTTGTTAA
*
23064901 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
23064916 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
23064927 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
23064942 ATTATATATTATAAT
1 ATTATATTTTATAAT
23064957 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:23065198 original size:21 final size:21
Alignment explanation
Indices: 23065173--23065225 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
23065163 CGTTGTTTCT
*
23065173 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
23065194 AATCTCACCGTTACAGTAACT
1 AATCTCACCGCTACAGTAACC
23065215 AATCTCACCGC
1 AATCTCACCGC
23065226 CACTGTTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:23065597 original size:15 final size:15
Alignment explanation
Indices: 23065577--23065614 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
23065567 TGCTTATCAT
23065577 TTTTATTTGGA-TTTA
1 TTTTATTT-GATTTTA
*
23065592 TTTTATTTTATTTTA
1 TTTTATTTGATTTTA
23065607 TTTTATTT
1 TTTTATTT
23065615 TTAAGGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTATTTGATTTTA
Found at i:23065598 original size:5 final size:5
Alignment explanation
Indices: 23065588--23065615 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
23065578 TTTATTTGGA
23065588 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
23065616 TAAGGTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:23074673 original size:101 final size:99
Alignment explanation
Indices: 23074496--23074683 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
23074486 AGACAAGGTT
* * * * * * *
23074496 ATCTGGTACGCATAGTAGCCTGCACATAGTACTATACATGCGACCAATTATCCGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTGCACATAGTACCACACACGCGACAAATTATCCGGTACACATAGT
23074561 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * *
23074595 ATCTGATACACATAGTAGCCTGCACTTAGTACCACACACGTGATCAAAGTTATCGGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACATAGTACCACACACGCGA-CAAA-TTATCCGGTACACATA
23074660 GTAGCCTGCACTTAGTACTACACA
64 GTAGCCTGCACTTAGTACTACACA
23074684 TGCGACCTCA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 36 0.47
100 3 0.04
101 37 0.49
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACATAGTACCACACACGCGACAAATTATCCGGTACACATAGT
AGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:23080170 original size:46 final size:46
Alignment explanation
Indices: 23080120--23080295 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23080110 TGATTGAGCA
23080120 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23080166 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23080211 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23080259 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23080296 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23080276 original size:93 final size:93
Alignment explanation
Indices: 23080117--23080288 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23080107 GGATGATTGA
* *
23080117 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23080182 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23080210 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23080275 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
23080289 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23087746 original size:46 final size:46
Alignment explanation
Indices: 23087696--23087871 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23087686 TGGTTGAGCA
23087696 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23087742 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
23087787 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
23087835 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23087872 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:23087852 original size:93 final size:93
Alignment explanation
Indices: 23087693--23087864 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
23087683 GGATGGTTGA
* *
23087693 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23087758 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
23087786 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23087851 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
23087865 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23105520 original size:26 final size:26
Alignment explanation
Indices: 23105484--23105536 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
23105474 TATCTCATAG
*
23105484 TACGAGACTCGGATAATGTTCCCGTC
1 TACGAGACTCGAATAATGTTCCCGTC
*
23105510 TACGAGACTCGAATAATGTTCCTGTC
1 TACGAGACTCGAATAATGTTCCCGTC
23105536 T
1 T
23105537 CTTTCTACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (26 bp):
TACGAGACTCGAATAATGTTCCCGTC
Found at i:23111680 original size:46 final size:44
Alignment explanation
Indices: 23111576--23111683 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
23111566 TGTCTTTGAC
** * * *
23111576 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
23111620 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
23111666 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
23111684 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:23120101 original size:18 final size:18
Alignment explanation
Indices: 23120078--23120115 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
23120068 CCAAACAGGG
23120078 GTTTTCCAAACATTCACA
1 GTTTTCCAAACATTCACA
*
23120096 GTTTTCCAAACATTCGCA
1 GTTTTCCAAACATTCACA
23120114 GT
1 GT
23120116 CCTTGCCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (18 bp):
GTTTTCCAAACATTCACA
Found at i:23123807 original size:25 final size:25
Alignment explanation
Indices: 23123779--23123830 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
23123769 CGGCTACATC
23123779 CTATCTGGTTAAGTATTAAATTAAT
1 CTATCTGGTTAAGTATTAAATTAAT
23123804 CTATCTGGTTAAGTATTAAATTAAT
1 CTATCTGGTTAAGTATTAAATTAAT
23123829 CT
1 CT
23123831 CCTTGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (25 bp):
CTATCTGGTTAAGTATTAAATTAAT
Found at i:23124992 original size:19 final size:19
Alignment explanation
Indices: 23124946--23124993 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
23124936 GTATATATTT
*
23124946 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
*
23124964 TAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAGGAAGA
23124983 TAAATTTTATT
1 TAAATTTTATT
23124994 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:23128911 original size:19 final size:19
Alignment explanation
Indices: 23128865--23128912 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
23128855 GTATATATTT
*
23128865 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
*
23128883 TAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAGGAAGA
23128902 TAAATTTTATT
1 TAAATTTTATT
23128913 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:23145740 original size:18 final size:18
Alignment explanation
Indices: 23145717--23145759 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23145707 CTTCAATGTG
23145717 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
23145735 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
23145753 TAATTAA
1 TAATTAA
23145760 AAACTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:23150620 original size:22 final size:22
Alignment explanation
Indices: 23150568--23150621 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
23150558 TTTTTTATGC
* * *
23150568 ATTTAAAATTATAATTGTAATT
1 ATTTATAATTAAAATTATAATT
23150590 ATATT-TAATTAAAATTATAATT
1 AT-TTATAATTAAAATTATAATT
*
23150612 GTTTATAATT
1 ATTTATAATT
23150622 CAATACAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
ATTTATAATTAAAATTATAATT
Found at i:23150631 original size:28 final size:27
Alignment explanation
Indices: 23150572--23150631 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
23150562 TTATGCATTT
* *
23150572 AAAATTATAATTGTAATTATATTTAATT
1 AAAATTATAATTGT-ATTATATTCAATC
23150600 AAAATTATAATTGT-TTATAATTCAATAC
1 AAAATTATAATTGTATTAT-ATTCAAT-C
23150628 AAAA
1 AAAA
23150632 ATATGAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 6 0.21
28 18 0.64
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (27 bp):
AAAATTATAATTGTATTATATTCAATC
Found at i:23154351 original size:19 final size:19
Alignment explanation
Indices: 23154329--23154391 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
23154319 TTTACATCAT
23154329 TATTTTTATATTATTATTA
1 TATTTTTATATTATTATTA
23154348 TATTTTTACT-TGTATTA-TA
1 TATTTTTA-TAT-TATTATTA
23154367 TATTTATTA-ATTATTTATATA
1 TATTT-TTATATTA-TTAT-TA
23154388 TATT
1 TATT
23154392 GTTTTTACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.05
19 20 0.54
20 9 0.24
21 6 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTTTATATTATTATTA
Found at i:23154686 original size:19 final size:19
Alignment explanation
Indices: 23154664--23154723 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
23154654 TTATTATTTA
23154664 TTTATTTATTATGTATTAT
1 TTTATTTATTATGTATTAT
**
23154683 TTTACTTTAAAATG-A-TAT
1 TTTA-TTTATTATGTATTAT
* *
23154701 TTT-TATATTATGTGTTAT
1 TTTATTTATTATGTATTAT
23154719 TTTAT
1 TTTAT
23154724 AAATTCTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 6 0.19
18 12 0.39
19 6 0.19
20 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTATTTATTATGTATTAT
Found at i:23155052 original size:33 final size:33
Alignment explanation
Indices: 23155013--23155081 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
23155003 TTGTATTACT
23155013 CTTTTTTGTATATCATGCATTATTTAATTATTA
1 CTTTTTTGTATATCATGCATTATTTAATTATTA
23155046 CTTTTTTGTATATCATGCATTATTTAATTATTA
1 CTTTTTTGTATATCATGCATTATTTAATTATTA
23155079 CTT
1 CTT
23155082 CGTATGTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (33 bp):
CTTTTTTGTATATCATGCATTATTTAATTATTA
Found at i:23155172 original size:60 final size:60
Alignment explanation
Indices: 23155103--23155215 Score: 199
Period size: 60 Copynumber: 1.9 Consensus size: 60
23155093 ATGTTTTGTT
*
23155103 TATTCTTAATATTTGCTATATATGTATATTAGTTTTATATGTATGTATCTAATATATGCA
1 TATTCTTAATATTTGATATATATGTATATTAGTTTTATATGTATGTATCTAATATATGCA
* *
23155163 TATTGTTAATATTTGATATATATGTATATTATTTTTATATGTATGTATCTAAT
1 TATTCTTAATATTTGATATATATGTATATTAGTTTTATATGTATGTATCTAAT
23155216 GCACGATCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (60 bp):
TATTCTTAATATTTGATATATATGTATATTAGTTTTATATGTATGTATCTAATATATGCA
Found at i:23156600 original size:6 final size:6
Alignment explanation
Indices: 23156584--23156622 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
23156574 CGAGTATTGG
23156584 TTTTA- TTTTAT TTTTAT TTTTATTT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTA--T TTTTAT TTTTAT TT
23156623 GGTTAAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
8 6 0.19
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:23156601 original size:20 final size:21
Alignment explanation
Indices: 23156578--23156627 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
23156568 AATCTACGAG
23156578 TATTGGTT-TTATTTTATTTT
1 TATTGGTTATTATTTTATTTT
* *
23156598 TATT-TTTATTTTTTTATTTT
1 TATTGGTTATTATTTTATTTT
23156618 TATTTGGTTA
1 TA-TTGGTTA
23156628 AGTTTTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.08
20 17 0.71
21 2 0.08
22 3 0.12
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (21 bp):
TATTGGTTATTATTTTATTTT
Found at i:23156611 original size:14 final size:14
Alignment explanation
Indices: 23156594--23156622 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23156584 TTTTATTTTA
23156594 TTTTTATTTTTATT
1 TTTTTATTTTTATT
23156608 TTTTTATTTTTATT
1 TTTTTATTTTTATT
23156622 T
1 T
23156623 GGTTAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:23168756 original size:3 final size:3
Alignment explanation
Indices: 23168748--23168776 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23168738 ACTGTCAACC
23168748 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
23168777 AACTAAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:23175827 original size:21 final size:22
Alignment explanation
Indices: 23175785--23175830 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
23175775 AAAATTATAA
*
23175785 AAAATATTAATAATTACTAAAT
1 AAAATATTAATAATAACTAAAT
23175807 AAAATATT-ATAA-AACTAAAAT
1 AAAATATTAATAATAACT-AAAT
23175828 AAA
1 AAA
23175831 GAAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 8 0.36
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATATTAATAATAACTAAAT
Found at i:23178969 original size:24 final size:24
Alignment explanation
Indices: 23178924--23178970 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
23178914 TCTCATGAAA
* *
23178924 ATATAATAAAATATTAAGAAAAAC
1 ATATAATAAAATATAAAAAAAAAC
**
23178948 ATATAATAACTTATAAAAAAAAA
1 ATATAATAAAATATAAAAAAAAA
23178971 TGATCAATAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (24 bp):
ATATAATAAAATATAAAAAAAAAC
Found at i:23198268 original size:46 final size:45
Alignment explanation
Indices: 23198204--23198370 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
23198194 ACAACTCGTA
* *
23198204 GCCGATGCATGTCCCAGACATGTTTTACACTGGCTTACGTCTCAAG
1 GCCGATGCATGTCACAGACATGTCTTACACTGGCTT-CGTCTCAAG
* * * *
23198250 GCCGATGCATGTCTCAGACATGTCTTACACTAGCATTCGTCTTAAT
1 GCCGATGCATGTCACAGACATGTCTTACACTGGC-TTCGTCTCAAG
23198296 GCCGATGCCATGTCACAGACATGGTCTTACACTGGC-TC-TCAT-AATGTG
1 GCCGATG-CATGTCACAGACAT-GTCTTACACTGGCTTCGTC-TCAA---G
* *
23198344 GCTGATGCATGTCCCAGACATGTCTTA
1 GCCGATGCATGTCACAGACATGTCTTA
23198371 TATTAGCTCA
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
45 4 0.04
46 54 0.52
47 28 0.27
48 18 0.17
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCACAGACATGTCTTACACTGGCTTCGTCTCAAG
Found at i:23206584 original size:47 final size:47
Alignment explanation
Indices: 23206532--23206785 Score: 207
Period size: 46 Copynumber: 5.4 Consensus size: 47
23206522 CGATGTCATA
* * *
23206532 TCCCAGATATGGTCTTACACTGGCTCACATCTC-AAGTCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTCACATCTCGAAGCCAATG-CATG
* * * * *
23206579 GCCCAGACATGGTCTTACACTGACT-ATCATATCGTAGCCGATGCATG
1 TCCCAGACATGGTCTTACACTGGCTCA-CATCTCGAAGCCAATGCATG
* * *
23206626 TCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCAATGCATG
1 TCCCAGACATGGTCTTACACTGGCTCACATCTCGAAGCCAATGCATG
* * * * * *
23206672 TCCCATACAT-GTTTTACACTAGTTCTCGTCTC-AATGCCAATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTCACATCTCGAA-GCCAATG-CATG
* * ** **
23206719 TCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATGCATG
1 TCCCAGACATGGTCTTACACTGGCTCACAT-CTCGAAGCCAATGCATG
23206766 TCCCAGACAT-GTCTTACACT
1 TCCCAGACATGGTCTTACACT
23206786 AGTCAACAGT
Statistics
Matches: 169, Mismatches: 30, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 72 0.43
47 68 0.40
48 27 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTGGCTCACATCTCGAAGCCAATGCATG
Found at i:23206669 original size:46 final size:47
Alignment explanation
Indices: 23206520--23206785 Score: 208
Period size: 47 Copynumber: 5.7 Consensus size: 47
23206510 TGGGTAAAGT
* * * *
23206520 GCCGATGTCATATCCCAGATATGGTCTTACACTGGCTCACATCTC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
* * * *
23206567 GTCGATGCCATGGCCCAGACATGGTCTTACACTGAC-TATCATATCGTA-
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCG-AG
*
23206615 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
* * * * * * * *
23206661 GCCAATGCATGTCCCATACAT-GTTTTACACTAG-TTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTT-ACATCTCGAG
* * *
23206707 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAG
*
23206755 GCTGATGCATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCATGTCCCAGACATGGTCTTACACT
23206786 AGTCAACAGT
Statistics
Matches: 178, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 71 0.40
47 77 0.43
48 23 0.13
49 3 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
Found at i:23206682 original size:93 final size:94
Alignment explanation
Indices: 23206519--23206744 Score: 228
Period size: 93 Copynumber: 2.4 Consensus size: 94
23206509 GTGGGTAAAG
* * * * *
23206519 TGCCGATGTCATATCCCAGATATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGGCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCAATGCCATGGCCCA
*
23206584 GACATGGTCTTACACT-GACTATCATATC-G
66 GACAT-GTCTTACACTAG-CTATCATATCAA
* * * *
23206613 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCAATG-CATGTCC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTC-AAGCCAATGCCATGGCC
* * * * * *
23206675 CATACATGTTTTACACTAGTTCTCGTCTCAA
64 CAGACATGTCTTACACTAGCTATCATATCAA
*
23206706 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
23206745 TCATAATGTG
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
92 21 0.19
93 48 0.44
94 33 0.30
95 7 0.06
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCAATGCCATGGCCCA
GACATGTCTTACACTAGCTATCATATCAA
Found at i:23208791 original size:46 final size:47
Alignment explanation
Indices: 23208723--23208989 Score: 228
Period size: 46 Copynumber: 5.7 Consensus size: 47
23208713 GCATATCTGT
23208723 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
* * ** *
23208770 GCCGATG-CATGTCCCATACATGTCTTACACTAGC--ACTTGTCTTAAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTAC--GTC-TCGAG
*
23208817 ACCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
* * ** *
23208864 GCCGATG-CATGTCCCATACATGTCTTACACTAGC--ACTTGTCTTAAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTAC--GTC-TCGAG
* * * * *
23208911 ACCGATGCCATGTCCCAGGCATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACGT-CTCGAG
* *
23208959 GCTGATG-CATGTCCCAAACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
23208990 AGCTCACAAT
Statistics
Matches: 175, Mismatches: 30, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
44 4 0.02
46 66 0.38
47 43 0.25
48 45 0.26
49 14 0.08
50 2 0.01
51 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
Found at i:23208844 original size:94 final size:94
Alignment explanation
Indices: 23208724--23208992 Score: 443
Period size: 94 Copynumber: 2.9 Consensus size: 94
23208714 CATATCTGTG
23208724 CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCATAC
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCATAC
23208789 ATGTCTTACACTAGCACTTGTCTTAAATA
66 ATGTCTTACACTAGCACTTGTCTTAAATA
23208818 CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCATAC
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCATAC
23208883 ATGTCTTACACTAGCACTTGTCTTAAATA
66 ATGTCTTACACTAGCACTTGTCTTAAATA
* * * * *
23208912 CCGATGCCATGTCCCAGGCATGGTCTTACACTGGCTCT-CATAAT-GTGGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACGT-CTCGAGGCCGATGCATGTCCCA
*
23208975 AACATGTCTTACACTAGC
63 TACATGTCTTACACTAGC
23208993 TCACAATAAC
Statistics
Matches: 166, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
94 114 0.69
95 50 0.30
96 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCATAC
ATGTCTTACACTAGCACTTGTCTTAAATA
Done.