Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 51 of 310
Found at i:15492058 original size:46 final size:48
Alignment explanation
Indices: 15491926--15492196 Score: 226
Period size: 46 Copynumber: 5.7 Consensus size: 48
15491916 TTATGAGATT
* *
15491926 CAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGATG-AGTGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTA-CGAGATGTA-AGC
* * * * *
15491974 TAGTGTAAGA-CATGTCTGGGATAT-GCATCAGCCT-CGAGACGTAAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATC-GGCTACGAGATGTAAGC
*
15492020 CAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGAGATGT--GT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGTAAGC
* * *
15492064 CAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ACGA-ATAGGCGAGAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGAT--G-TA-AGC
* * *
15492114 TAGTATAAGACCATGTCTAGCACATGGCATCGGCCT-CGATGATGATAA-C
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGG-CTACGA-GATG-TAAGC
*
15492163 CAGTGTAAGACCATGTCCAGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGC
15492197 AACTTGCCCC
Statistics
Matches: 179, Mismatches: 28, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
44 13 0.07
45 19 0.11
46 54 0.30
47 15 0.08
48 10 0.06
49 30 0.17
50 30 0.17
51 6 0.03
53 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGTAAGC
Found at i:15493262 original size:20 final size:21
Alignment explanation
Indices: 15493221--15493262 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15493211 TAGAAATTAA
15493221 TTCCACATGGGCGTGTTGCCC
1 TTCCACATGGGCGTGTTGCCC
15493242 TTCCACATGGGCGTG-TGCCC
1 TTCCACATGGGCGTGTTGCCC
15493262 T
1 T
15493263 GTTTTAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.10, C:0.33, G:0.29, T:0.29
Consensus pattern (21 bp):
TTCCACATGGGCGTGTTGCCC
Found at i:15499575 original size:97 final size:97
Alignment explanation
Indices: 15499452--15499646 Score: 381
Period size: 97 Copynumber: 2.0 Consensus size: 97
15499442 AAAAGAACCA
15499452 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
1 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
15499517 TAGGTCAACATTAATGGTTCAAATATAAGCCC
66 TAGGTCAACATTAATGGTTCAAATATAAGCCC
15499549 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
1 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
*
15499614 TAGGTCAACATTAATGGTTCAAGTATAAGCCC
66 TAGGTCAACATTAATGGTTCAAATATAAGCCC
15499646 T
1 T
15499647 CTAAATTCCA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (97 bp):
TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
TAGGTCAACATTAATGGTTCAAATATAAGCCC
Found at i:15500279 original size:6 final size:6
Alignment explanation
Indices: 15500268--15500299 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
15500258 TGGTTGAGTT
15500268 CCAACG CCAACG CCAACG CCAACG CCAACG CC
1 CCAACG CCAACG CCAACG CCAACG CCAACG CC
15500300 TGCATGGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
CCAACG
Found at i:15500733 original size:16 final size:16
Alignment explanation
Indices: 15500712--15500743 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15500702 TAAAAAGTAA
15500712 GCTAAACACATCATAC
1 GCTAAACACATCATAC
15500728 GCTAAACACATCATAC
1 GCTAAACACATCATAC
15500744 TATACCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.06, T:0.19
Consensus pattern (16 bp):
GCTAAACACATCATAC
Found at i:15501251 original size:14 final size:14
Alignment explanation
Indices: 15501234--15501274 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
15501224 TTTTATCTTG
*
15501234 AATTTTGGACTTTA
1 AATTTTGAACTTTA
15501248 AATTTTGAACTTTA
1 AATTTTGAACTTTA
*
15501262 AATTTTAAACTTT
1 AATTTTGAACTTT
15501275 GTATCTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (14 bp):
AATTTTGAACTTTA
Found at i:15502597 original size:29 final size:29
Alignment explanation
Indices: 15502560--15502635 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
15502550 TGACACAAAT
*
15502560 TCTCAACGAACAAATTCTTCGTCACGAAC
1 TCTCAACGAACAAATTCTTCATCACGAAC
* * *
15502589 TCTTAACGAACAAATTTTTCATCATGAAC
1 TCTCAACGAACAAATTCTTCATCACGAAC
*
15502618 TCTCAACGAACAAGTTCT
1 TCTCAACGAACAAATTCT
15502636 CCACCTCTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (29 bp):
TCTCAACGAACAAATTCTTCATCACGAAC
Found at i:15508805 original size:49 final size:48
Alignment explanation
Indices: 15508732--15508915 Score: 211
Period size: 49 Copynumber: 3.9 Consensus size: 48
15508722 TGCTATGTAA
*
15508732 TGCTAAACTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAAC-TGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
* * *
15508781 TGCTAAACTGAGTCTTCCACTGTCTACATTCTTATCACTATTTATCCCT
1 TGCTAAACTG-GTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
*
15508830 T-CT----TGGTCTTCCATTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
** * *
15508873 TGCTAAACTTAATCTTCCACTATCT--ATTCTTATCACTATTTAT
1 TGCTAAAC-TGGTCTTCCACTGTCTACACTCTTATCACTATTTAT
15508916 CCCTTCTTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
43 35 0.30
44 4 0.03
47 17 0.15
48 4 0.03
49 55 0.48
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.44
Consensus pattern (48 bp):
TGCTAAACTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:15508857 original size:43 final size:44
Alignment explanation
Indices: 15508739--15508876 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 44
15508729 TAATGCTAAA
15508739 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
1 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
* * * *
15508783 CTAAACTGAGTCTTCCACTGTCTACATTCTTATCACTATTTATCCCTT-
1 CT----TG-GTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
15508831 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
1 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
15508875 CT
1 CT
15508877 AAACTTAATC
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
43 35 0.44
44 6 0.08
48 4 0.05
49 35 0.44
ACGTcount: A:0.21, C:0.27, G:0.08, T:0.44
Consensus pattern (44 bp):
CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
Found at i:15509334 original size:30 final size:30
Alignment explanation
Indices: 15509293--15509366 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
15509283 TGACTTGGAT
* *
15509293 CACACATCCATGTGTGTTGCCCGTGTGTGA
1 CACACACCCATGTGTGTTGCCCGTATGTGA
* *
15509323 CACACGCCCATGTGTGTTGCCTGTATGTGA
1 CACACACCCATGTGTGTTGCCCGTATGTGA
*
15509353 GACACACCCATGTG
1 CACACACCCATGTG
15509367 GCCAAGCTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (30 bp):
CACACACCCATGTGTGTTGCCCGTATGTGA
Found at i:15511278 original size:29 final size:29
Alignment explanation
Indices: 15511245--15511300 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
15511235 TAATACTTAT
15511245 ACTATTCAACAATCTCAACATCTAAAAAA
1 ACTATTCAACAATCTCAACATCTAAAAAA
*
15511274 ACTATTCAACAATGTCAACATCTAAAA
1 ACTATTCAACAATCTCAACATCTAAAA
15511301 TCTTAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (29 bp):
ACTATTCAACAATCTCAACATCTAAAAAA
Found at i:15511557 original size:12 final size:12
Alignment explanation
Indices: 15511535--15511569 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
15511525 TATTATGTTT
15511535 TCATT-TTATTA
1 TCATTATTATTA
*
15511546 TCTTTATTATTA
1 TCATTATTATTA
15511558 TCATTATTATTA
1 TCATTATTATTA
15511570 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:15519311 original size:12 final size:12
Alignment explanation
Indices: 15519294--15519326 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
15519284 TTCCCTGTAA
15519294 AATAGTAAAAAT
1 AATAGTAAAAAT
15519306 AATAGTAAAAAT
1 AATAGTAAAAAT
15519318 AATAGTAAA
1 AATAGTAAA
15519327 TGGGAAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:15520248 original size:10 final size:9
Alignment explanation
Indices: 15520233--15520288 Score: 58
Period size: 10 Copynumber: 5.7 Consensus size: 9
15520223 ATTCTAAAAG
15520233 ATAAATACAA
1 ATAAATA-AA
15520243 ATAAATAAA
1 ATAAATAAA
*
15520252 GATAATTAAAA
1 -ATAAAT-AAA
15520263 ATAAATAAA
1 ATAAATAAA
15520272 GATAAATGAAA
1 -ATAAAT-AAA
15520283 ATAAAT
1 ATAAAT
15520289 CCTAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 5 0.12
10 29 0.73
11 6 0.15
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (9 bp):
ATAAATAAA
Found at i:15520252 original size:20 final size:19
Alignment explanation
Indices: 15520229--15520288 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
15520219 TGAAATTCTA
15520229 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
15520249 AAAGATAATTAAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
15520269 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
15520289 CCTAAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:15520267 original size:30 final size:31
Alignment explanation
Indices: 15520227--15520286 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
15520217 AATGAAATTC
15520227 TAAAAGATAAATACAA-ATAAAT-AAAGATAAT
1 TAAAAGATAAATA-AAGATAAATGAAA-ATAAT
15520258 TAAAA-ATAAATAAAGATAAATGAAAATAA
1 TAAAAGATAAATAAAGATAAATGAAAATAA
15520287 ATCCTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.07
30 17 0.63
31 8 0.30
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (31 bp):
TAAAAGATAAATAAAGATAAATGAAAATAAT
Found at i:15521947 original size:10 final size:9
Alignment explanation
Indices: 15521937--15521997 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 9
15521927 ATCTGAAAAT
15521937 AATAAATAA
1 AATAAATAA
*
15521946 TA-AAAT-A
1 AATAAATAA
15521953 -ATAAGATAAA
1 AATAA-ATA-A
15521963 AATAAATAA
1 AATAAATAA
15521972 AATAAAATAA
1 AAT-AAATAA
15521982 AATAAAATAA
1 AAT-AAATAA
15521992 AATAAA
1 AATAAA
15521998 AAATAAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
6 1 0.02
7 3 0.07
8 6 0.13
9 8 0.18
10 23 0.51
11 4 0.09
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (9 bp):
AATAAATAA
Found at i:15521952 original size:15 final size:14
Alignment explanation
Indices: 15521932--15522007 Score: 77
Period size: 15 Copynumber: 5.4 Consensus size: 14
15521922 TTAATATCTG
15521932 AAAATAAT-AAATAA
1 AAAATAATAAAAT-A
*
15521946 TAAAATAATAAGATA
1 -AAAATAATAAAATA
15521961 AAAATAAATAAAATA
1 AAAAT-AATAAAATA
*
15521976 AAATAAAATAAAAT-
1 AAA-ATAATAAAATA
15521990 AAAATAA-AAAATA
1 AAAATAATAAAATA
15522003 AAAAT
1 AAAAT
15522008 TGGGTTGCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
12 5 0.09
13 8 0.15
14 8 0.15
15 28 0.53
16 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (14 bp):
AAAATAATAAAATA
Found at i:15521961 original size:20 final size:19
Alignment explanation
Indices: 15521937--15522005 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
15521927 ATCTGAAAAT
15521937 AATAAATAATAAAATAATAA
1 AATAAA-AATAAAATAATAA
* *
15521957 GATAAAAATAAATAAAATAA
1 AATAAAAATAAA-ATAATAA
15521977 AAT-AAAATAAAATAA-AA
1 AATAAAAATAAAATAATAA
*
15521994 TA-AAAAATAAAA
1 AATAAAAATAAAA
15522006 ATTGGGTTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 12 0.29
18 3 0.07
19 14 0.33
20 13 0.31
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (19 bp):
AATAAAAATAAAATAATAA
Found at i:15522005 original size:5 final size:5
Alignment explanation
Indices: 15521944--15521998 Score: 71
Period size: 5 Copynumber: 11.4 Consensus size: 5
15521934 AATAATAAAT
*
15521944 AATAA AAT-- AATAA GATAA AA-ATA AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATA-A AATAA AATAA AATAA AATAA AATAA
15521992 AATAA AA
1 AATAA AA
15521999 AATAAAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 3 0.07
4 1 0.02
5 39 0.89
6 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:15526883 original size:42 final size:42
Alignment explanation
Indices: 15526823--15526908 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
15526813 GAAAGCACGC
15526823 AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
1 AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
*
15526865 AGTTTAATTTGATTCTCAGTTACCCCTTGAGGTTTCATACTA
1 AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
15526907 AG
1 AG
15526909 GCAAACCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (42 bp):
AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
Found at i:15527484 original size:12 final size:12
Alignment explanation
Indices: 15527467--15527500 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
15527457 TTCCCTGCAA
15527467 AATAGTAAAAAT
1 AATAGTAAAAAT
15527479 AATAGTAAAAAT
1 AATAGTAAAAAT
15527491 AATAGTAAAA
1 AATAGTAAAA
15527501 GGGAAGTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:15528429 original size:10 final size:10
Alignment explanation
Indices: 15528410--15528469 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
15528400 TGAAATTCTA
15528410 AAAGATAAAT
1 AAAGATAAAT
15528420 ACAA-ATAAAT
1 A-AAGATAAAT
*
15528430 AAAGATAATT
1 AAAGATAAAT
15528440 AAAGATAAAT
1 AAAGATAAAT
15528450 AAAGATAAAT
1 AAAGATAAAT
15528460 GAAA-ATAAAT
1 -AAAGATAAAT
15528470 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:15530471 original size:14 final size:14
Alignment explanation
Indices: 15530452--15530503 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
15530442 GTTTGCCATT
*
15530452 AAAATGTTTTCCGA
1 AAAATGATTTCCGA
* *
15530466 AAAATGATTTCTGG
1 AAAATGATTTCCGA
* *
15530480 AAAATGATTTCTGG
1 AAAATGATTTCCGA
15530494 AAAATGATTT
1 AAAATGATTT
15530504 ACTTTTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGA
Found at i:15530635 original size:28 final size:28
Alignment explanation
Indices: 15530604--15530676 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 28
15530594 TCGGAAAAGC
*
15530604 TGTTTTTACAAATATTTATATTTTAAAT
1 TGTTTTTACAAATATTTATACTTTAAAT
** *
15530632 TGTTTTTTTAATAAATTTATACTTTAAAT
1 TGTTTTTACAA-ATATTTATACTTTAAAT
* * *
15530661 TATTTCTACATATATT
1 TGTTTTTACAAATATT
15530677 GCAATGATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
28 13 0.38
29 21 0.62
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (28 bp):
TGTTTTTACAAATATTTATACTTTAAAT
Found at i:15531912 original size:21 final size:21
Alignment explanation
Indices: 15531888--15531929 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15531878 TCAATATCAT
15531888 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CATAATAAATTCAA
*
15531909 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
15531930 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:15534317 original size:13 final size:13
Alignment explanation
Indices: 15534299--15534324 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15534289 AAGATTATCC
15534299 TATCCTAATAATA
1 TATCCTAATAATA
15534312 TATCCTAATAATA
1 TATCCTAATAATA
15534325 AATTTGAATT
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TATCCTAATAATA
Found at i:15536495 original size:115 final size:115
Alignment explanation
Indices: 15536337--15536590 Score: 508
Period size: 115 Copynumber: 2.2 Consensus size: 115
15536327 CATAGAGGTA
15536337 TTTCATCATCAACCATGGATGCATTAAAAAGAATAGCAGTCTTTTAATAAATTTTTCCTTTCCTT
1 TTTCATCATCAACCATGGATGCATTAAAAAGAATAGCAGTCTTTTAATAAATTTTTCCTTTCCTT
15536402 TTCTCTTATTTCAGTAGGGGTTAGCTAAAAAGAATAGTAGTTTTTTTCTC
66 TTCTCTTATTTCAGTAGGGGTTAGCTAAAAAGAATAGTAGTTTTTTTCTC
15536452 TTTCATCATCAACCATGGATGCATTAAAAAGAATAGCAGTCTTTTAATAAATTTTTCCTTTCCTT
1 TTTCATCATCAACCATGGATGCATTAAAAAGAATAGCAGTCTTTTAATAAATTTTTCCTTTCCTT
15536517 TTCTCTTATTTCAGTAGGGGTTAGCTAAAAAGAATAGTAGTTTTTTTCTC
66 TTCTCTTATTTCAGTAGGGGTTAGCTAAAAAGAATAGTAGTTTTTTTCTC
15536567 TTTCATCATCAACCATGGATGCAT
1 TTTCATCATCAACCATGGATGCAT
15536591 GAGGAAGCAG
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 139 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (115 bp):
TTTCATCATCAACCATGGATGCATTAAAAAGAATAGCAGTCTTTTAATAAATTTTTCCTTTCCTT
TTCTCTTATTTCAGTAGGGGTTAGCTAAAAAGAATAGTAGTTTTTTTCTC
Found at i:15537407 original size:40 final size:40
Alignment explanation
Indices: 15537352--15537433 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
15537342 TCTGCAAGAA
15537352 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
1 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
15537392 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
1 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
15537432 TT
1 TT
15537434 AATGCTATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (40 bp):
TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
Found at i:15548900 original size:31 final size:31
Alignment explanation
Indices: 15548862--15548924 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
15548852 TGCTCCAAAC
15548862 GGCTTAGCACACGGGTGTGTGACTTGGCCCT
1 GGCTTAGCACACGGGTGTGTGACTTGGCCCT
15548893 GGCTTAGCACACGGGTGTGTGACTTGGCCCT
1 GGCTTAGCACACGGGTGTGTGACTTGGCCCT
15548924 G
1 G
15548925 TGGCATAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.13, C:0.25, G:0.37, T:0.25
Consensus pattern (31 bp):
GGCTTAGCACACGGGTGTGTGACTTGGCCCT
Found at i:15550084 original size:16 final size:18
Alignment explanation
Indices: 15550058--15550091 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
15550048 TATACTTAGA
15550058 TAAATTAATTTTC-CAAT
1 TAAATTAATTTTCTCAAT
15550075 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
15550092 CTAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:15556177 original size:46 final size:44
Alignment explanation
Indices: 15556079--15556239 Score: 162
Period size: 46 Copynumber: 3.5 Consensus size: 44
15556069 GTGCCGACGC
15556079 CATGTCCCAAACATGGTCTTACATTGACACATCTCATAGCCGATG
1 CATGTCCCAAACAT-GTCTTACATTGACACATCTCATAGCCGATG
** * *
15556124 CATGTCCCAAACATGTCTTACATTGACTTATGTCCTGAGGCCGATG
1 CATGTCCCAAACATGTCTTACATTGACACATCTCAT-A-GCCGATG
* * * *
15556170 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA-ATGCCGATG
1 CATGTCCCAAACATGTCTTACA-TTG-ACACATCTCATA-GCCGATG
*
15556216 CCATGTCCCAGACATGGTCTTACA
1 -CATGTCCCAAACAT-GTCTTACA
15556240 CTAGCTCTCA
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
44 18 0.18
45 15 0.15
46 36 0.36
47 16 0.16
48 14 0.14
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (44 bp):
CATGTCCCAAACATGTCTTACATTGACACATCTCATAGCCGATG
Found at i:15556261 original size:94 final size:93
Alignment explanation
Indices: 15556162--15556380 Score: 350
Period size: 94 Copynumber: 2.3 Consensus size: 93
15556152 TATGTCCTGA
15556162 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCA-CTCGTCTCAATGCCGATGCCATGTCCCA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCT-GTCTCAATGCCGATGCCATGTCCCA
15556226 GACATGGTCTTACACTAGCTCTCATAATGT
65 GACATGGTCTTACACTAGCTC-CATAATGT
* * ***
15556256 GGCCGATGCATGTACCAGACATGTCTTAGACTAGCACCTGTCTCAATGCCGATGCCATGTTGTAG
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCTGTCTCAATGCCGATGCCATGTCCCAG
15556321 ACATGGTCTTACACTAGCTCCATAATGT
66 ACATGGTCTTACACTAGCTCCATAATGT
* *
15556349 GGTCGATGCATGTCCCAAACATGTCTTACACT
1 GGCCGATGCATGTCCCAGACATGTCTTACACT
15556381 GGCGCACATA
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
93 36 0.31
94 77 0.67
95 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (93 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCTGTCTCAATGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCCATAATGT
Found at i:15558811 original size:24 final size:24
Alignment explanation
Indices: 15558741--15558800 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
15558731 CTGTTAGGAG
15558741 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
15558765 AGGATTTATGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
15558789 AGGATTTAGGAG
1 AGGATTTAGGAG
15558801 AAGACAAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.30
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:15560287 original size:27 final size:26
Alignment explanation
Indices: 15560229--15560339 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 26
15560219 AGGAAGCATC
* * *
15560229 CTGGTGGCTATGCCCCAAATTATCTGAT
1 CTGGTGGCTCTG--CCACATTATCTGTT
15560257 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
15560284 CTGGTGGTTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
15560312 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
15560338 CT
1 CT
15560340 AGCAGCCATG
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 8 0.11
27 36 0.51
28 27 0.38
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:15564050 original size:16 final size:16
Alignment explanation
Indices: 15564029--15564063 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15564019 TTATACACTT
*
15564029 ATTTAGTCATGAAGTC
1 ATTTAGTCACGAAGTC
15564045 ATTTAGTCACGAAGTC
1 ATTTAGTCACGAAGTC
15564061 ATT
1 ATT
15564064 CCACAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (16 bp):
ATTTAGTCACGAAGTC
Found at i:15568933 original size:41 final size:40
Alignment explanation
Indices: 15568831--15568939 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
15568821 AATACTCGAT
* * * *
15568831 ATCTCACACACCAAGTGTCGTACATAGCCGAAGCTATCTC
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTC
** *
15568871 AAATCACACACTAAGTGCCATATATAGCCGAAGCTATCTTG
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATC-TC
*
15568912 ATCTCGCACACTAAGTGCCATATATAGC
1 ATCTCACACACTAAGTGCCATATATAGC
15568940 TGATTTCTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
40 32 0.55
41 26 0.45
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (40 bp):
ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTC
Found at i:15569977 original size:13 final size:13
Alignment explanation
Indices: 15569959--15569983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15569949 GAAATAGTAT
15569959 GTATGAAAATTTC
1 GTATGAAAATTTC
15569972 GTATGAAAATTT
1 GTATGAAAATTT
15569984 AATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
GTATGAAAATTTC
Found at i:15571191 original size:42 final size:43
Alignment explanation
Indices: 15571131--15571234 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
15571121 GAATTATGTA
* *
15571131 TAAGACCATGTCTGGGACA-TCAACATC-ATATTTGATTTCGTG
1 TAAGACCATGTCTGGGACAGT-AACATCGATATTTGATTACATG
* **
15571173 TAAGACC-TGGTCTTGGACAGTGGCATCGATATTTGATTACATG
1 TAAGACCAT-GTCTGGGACAGTAACATCGATATTTGATTACATG
* *
15571216 TAAGACCACGTCTAGGACA
1 TAAGACCATGTCTGGGACA
15571235 TTGGAATTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.02
42 20 0.39
43 30 0.59
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGTAACATCGATATTTGATTACATG
Found at i:15571234 original size:43 final size:42
Alignment explanation
Indices: 15571154--15571234 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
15571144 GGGACATCAA
* * ** *
15571154 CATCATATTTGATTTCGTGTAAGACCTGGTCTTGGACAGTGG
1 CATCATATTTGATTACATGTAAGACCACGTCTAGGACAGTGG
15571196 CATCGATATTTGATTACATGTAAGACCACGTCTAGGACA
1 CATC-ATATTTGATTACATGTAAGACCACGTCTAGGACA
15571235 TTGGAATTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 4 0.12
43 29 0.88
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (42 bp):
CATCATATTTGATTACATGTAAGACCACGTCTAGGACAGTGG
Found at i:15578948 original size:60 final size:61
Alignment explanation
Indices: 15578841--15578958 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 61
15578831 TCCAGTAATG
* * * * *
15578841 TGGTCGAGCCACCAGTAATGCAGATAAACTACTAGTAGTGTATACAA-GCTGCCAATATTA
1 TGGTCAAGCCACCAGTAATACAGATAAACTACCAGTAATGTAGACAAGGCTGCCAATATTA
* * * *
15578901 TGGTCAAGTCACCAGTGATACAGATAAACTGCCAGTAATGTAGACAAGGTTGCCAATA
1 TGGTCAAGCCACCAGTAATACAGATAAACTACCAGTAATGTAGACAAGGCTGCCAATA
15578959 CTTCCTCCTT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
60 39 0.81
61 9 0.19
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (61 bp):
TGGTCAAGCCACCAGTAATACAGATAAACTACCAGTAATGTAGACAAGGCTGCCAATATTA
Found at i:15581582 original size:519 final size:519
Alignment explanation
Indices: 15580603--15581643 Score: 2001
Period size: 519 Copynumber: 2.0 Consensus size: 519
15580593 CTAACTATTA
15580603 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
1 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
15580668 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATCTGTCTATAGGCTTTAAGTTTGGCTACC
66 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATCTGTCTATAGGCTTTAAGTTTGGCTACC
15580733 ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
131 ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
15580798 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
196 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
*
15580863 ATCTTTATAAGCTTGCTGCATATTGGTTAATGTGCAGCCTGCATATAACATGAAATACCATTCAA
261 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAGCCTGCATATAACATGAAATACCATTCAA
15580928 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAAT
326 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAAT
* *
15580993 TATCCAGAGTCTAAAAGATTTAGCTCTTGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
391 TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
*
15581058 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTGAG
456 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
15581122 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
1 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
15581187 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATCTGTCTATAGGCTTTAAGTTTGGCTACC
66 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATCTGTCTATAGGCTTTAAGTTTGGCTACC
* *
15581252 ATTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTGCTATGAATAAGA
131 ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
15581317 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
196 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
*
15581382 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAGCCTGCATATAACATGAAATACCATTGAA
261 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAGCCTGCATATAACATGAAATACCATTCAA
*
15581447 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAGT
326 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAAT
*
15581512 TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAATG
391 TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
15581577 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
456 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
15581641 ATG
1 ATG
15581644 ACAGCTTTCA
Statistics
Matches: 513, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
519 513 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (519 bp):
ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATCTGTCTATAGGCTTTAAGTTTGGCTACC
ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAGCCTGCATATAACATGAAATACCATTCAA
TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAAT
TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
Found at i:15587972 original size:134 final size:134
Alignment explanation
Indices: 15587732--15587983 Score: 495
Period size: 134 Copynumber: 1.9 Consensus size: 134
15587722 GGATGGTTGA
15587732 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
15587797 TGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGTGCGTGAGATGTAA
66 TGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGTGCGTGAGATGTAA
15587862 CTAG
131 CTAG
15587866 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
*
15587931 TGAGTCTGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGTG
66 TGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGTG
15587984 GCACTTATAT
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 117 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (134 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGTGCGTGAGATGTAA
CTAG
Found at i:15595590 original size:133 final size:133
Alignment explanation
Indices: 15595352--15595601 Score: 491
Period size: 133 Copynumber: 1.9 Consensus size: 133
15595342 GGATGGTTGA
*
15595352 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
15595417 TGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGTTGTGAGATGTAAC
66 TGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGTTGTGAGATGTAAC
15595482 TAG
131 TAG
15595485 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
15595550 TGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGT
66 TGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGT
15595602 GGCACTTATA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 116 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.31
Consensus pattern (133 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGCTTATGGGCGGGTTACATGATTGCTTGATTGAATATGTTGTGAGATGTAAC
TAG
Found at i:15623986 original size:31 final size:32
Alignment explanation
Indices: 15623925--15623996 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
15623915 GAAAAAAAAA
*
15623925 TCAAATTTTGAGTTAAACAAATCGAGTTGAGTCT
1 TCAAATTTTGAGTT--ACAAATCGAATTGAGTCT
* *
15623959 TCAAATTTTGAGTT-CGAATCGAATTGAGTTT
1 TCAAATTTTGAGTTACAAATCGAATTGAGTCT
*
15623990 TTAAATT
1 TCAAATT
15623997 CGAATAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.59
34 14 0.41
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (32 bp):
TCAAATTTTGAGTTACAAATCGAATTGAGTCT
Found at i:15627778 original size:26 final size:26
Alignment explanation
Indices: 15627749--15627799 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
15627739 CGCATTTTGA
15627749 TGCGATAATATGATTGAGCACTTCGG
1 TGCGATAATATGATTGAGCACTTCGG
* * *
15627775 TGCGATATTGTGATTGAGCAGTTCG
1 TGCGATAATATGATTGAGCACTTCG
15627800 ATCTGATACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (26 bp):
TGCGATAATATGATTGAGCACTTCGG
Found at i:15628238 original size:22 final size:20
Alignment explanation
Indices: 15628192--15628239 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
15628182 TGAGAAGTAT
* *
15628192 TAAAATATACTTAATTGGTG
1 TAAAATATAATTAATTAGTG
*
15628212 AAAAATATATATTATATTAGTG
1 TAAAATATA-ATTA-ATTAGTG
15628234 TAAAAT
1 TAAAAT
15628240 TGATAAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 8 0.36
21 3 0.14
22 11 0.50
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAAATATAATTAATTAGTG
Found at i:15632977 original size:48 final size:49
Alignment explanation
Indices: 15632829--15633016 Score: 165
Period size: 48 Copynumber: 3.9 Consensus size: 49
15632819 AGGTTTTGGT
* * * * *
15632829 GATGATATGTGT-ACCAGTGTAAGACCATGTTTGGGACATGGGATCGGC
1 GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGAC
* * * ** * * * *
15632877 AATGATATATGTGCCCGGTATAAGACCATGTCT-GGGCATGGCAT-TAGT
1 GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGA-C
15632925 GATGATATGTGTG-CCAATGTAAGACCATGTCTAGGACATGGCATCGAC
1 GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGAC
*
15632973 GATGATATGTG-GATTC-ATGTAAGACCATGT-TGAGGACATGGCAT
1 GATGATATGTGTGA-CCAATGTAAGACCATGTCT-AGGACATGGCAT
15633017 TGGTACTTTA
Statistics
Matches: 113, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
47 18 0.16
48 77 0.68
49 18 0.16
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (49 bp):
GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGAC
Found at i:15638292 original size:103 final size:104
Alignment explanation
Indices: 15638113--15638377 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
15638103 AACCGTTATT
* * * *
15638113 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
15638178 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
15638216 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
15638281 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
15638320 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
15638378 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:15639982 original size:42 final size:42
Alignment explanation
Indices: 15639918--15640030 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
15639908 CCTCGATTGA
* **
15639918 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGAGGCATCGATAT-T
*
15639961 GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATATT
* * * *
15640003 GAATTACATGTAAGACCACGTCCGGGAC
1 G-ATTTCGTGTAAGACCATGTCTGGGAC
15640031 GTCAGCGTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 30 0.51
43 29 0.49
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGAGGCATCGATATT
Found at i:15647237 original size:42 final size:42
Alignment explanation
Indices: 15647158--15647260 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
15647148 CCTCGATTGA
* ** *
15647158 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGAGCCATCGATAT-T
*
15647201 GATTTCGTGTAAGACCCTGTCTGGGACAGAGCCATCGATATT
1 GATTTCGTGTAAGACCATGTCTGGGACAGAGCCATCGATATT
* *
15647243 GAATTACATGTAAGACCA
1 G-ATTTCGTGTAAGACCA
15647261 CGTTCGAGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.58
43 21 0.42
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGAGCCATCGATATT
Found at i:15648967 original size:16 final size:16
Alignment explanation
Indices: 15648926--15648967 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
15648916 ATTTTGACAA
15648926 TTTATCTTGG-ATTTC
1 TTTATCTTGGAATTTC
** *
15648941 TAAATCATGGAATTTC
1 TTTATCTTGGAATTTC
15648957 TTTATCTTGGA
1 TTTATCTTGGA
15648968 TATCTTTGTC
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.50
Consensus pattern (16 bp):
TTTATCTTGGAATTTC
Found at i:15650879 original size:98 final size:98
Alignment explanation
Indices: 15650770--15650964 Score: 372
Period size: 98 Copynumber: 2.0 Consensus size: 98
15650760 CATTTGTATT
*
15650770 ATATTATTAATTATATGATAGATATTTATAATAATTAAATTATAATATATTAAGTTAATAAAATA
1 ATATTATTAATTATATGATAGATATTTATAATAATTAAATTATAATATATTAAATTAATAAAATA
15650835 AATAAAACAAATGAAATAATAAAAGAATAAAAA
66 AATAAAACAAATGAAATAATAAAAGAATAAAAA
*
15650868 ATATTATTAATTATATGATAGATATTTATAATAATTAAATTATAATATATTAAATTAATAAAGTA
1 ATATTATTAATTATATGATAGATATTTATAATAATTAAATTATAATATATTAAATTAATAAAATA
15650933 AATAAAACAAATGAAATAATAAAAGAATAAAA
66 AATAAAACAAATGAAATAATAAAAGAATAAAA
15650965 CCAAAGACAA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (98 bp):
ATATTATTAATTATATGATAGATATTTATAATAATTAAATTATAATATATTAAATTAATAAAATA
AATAAAACAAATGAAATAATAAAAGAATAAAAA
Found at i:15650912 original size:14 final size:15
Alignment explanation
Indices: 15650893--15650924 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15650883 TGATAGATAT
15650893 TTATAATA-ATTAAA
1 TTATAATATATTAAA
15650907 TTATAATATATTAAA
1 TTATAATATATTAAA
15650922 TTA
1 TTA
15650925 ATAAAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATAATATATTAAA
Found at i:15650926 original size:24 final size:25
Alignment explanation
Indices: 15650873--15650926 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
15650863 AAAAAATATT
*
15650873 ATTAATTATATGATAGATATTTATA
1 ATTAATTAAATGATAGATATTTATA
*
15650898 A-TAATTAAATTATA-ATATATTA-A
1 ATTAATTAAATGATAGATAT-TTATA
15650921 ATTAAT
1 ATTAAT
15650927 AAAGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 6 0.24
24 18 0.72
25 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
ATTAATTAAATGATAGATATTTATA
Found at i:15651452 original size:17 final size:18
Alignment explanation
Indices: 15651430--15651465 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15651420 TAAATGAGTT
15651430 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
15651447 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
15651465 A
1 A
15651466 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:15655026 original size:48 final size:48
Alignment explanation
Indices: 15654927--15655077 Score: 178
Period size: 48 Copynumber: 3.1 Consensus size: 48
15654917 TGTTTTGGCA
* * * *
15654927 ATGATATGTGTACCAGTGTAAGACCATGTTTGGGACATGGCATCGGTG
1 ATGATATATGTCCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTG
* * *
15654975 ATGATATATGTTCCCGGTGTAAGACCATGTCTGGG-CATTGCATTAGTG
1 ATGATATATG-TCCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTG
* * * * *
15655023 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCG
1 ATGATATATGTCCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTG
15655071 ATGATAT
1 ATGATAT
15655078 GTGGATTCAT
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
47 21 0.24
48 44 0.51
49 21 0.24
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGATATATGTCCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTG
Found at i:15655091 original size:48 final size:46
Alignment explanation
Indices: 15654927--15655113 Score: 169
Period size: 48 Copynumber: 3.9 Consensus size: 46
15654917 TGTTTTGGCA
* * *
15654927 ATGATATGTGTACCAGTGTAAGACCATGTTTGGGACATGGCATCGGTG
1 ATGATATGTGT-TCA-TGTAAGACCATGTCTAGGACATGGCATCGGTG
* * * * **
15654975 ATGATATATGTTCCCGGTGTAAGACCATGTCT-GGGCATTGCATTAGTG
1 ATGATATGTGTT--C-ATGTAAGACCATGTCTAGGACATGGCATCGGTG
* *
15655023 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCG
1 ATGATATGTGT-TCA-TGTAAGACCATGTCTAGGACATGGCATCGGTG
* *
15655071 ATGATATGTGGATTCATGTAAGACCATGTCGAGGATATGGCAT
1 ATGATATGT-G-TTCATGTAAGACCATGTCTAGGACATGGCAT
15655114 TGGTACTTTA
Statistics
Matches: 112, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
47 16 0.14
48 77 0.69
49 18 0.16
50 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (46 bp):
ATGATATGTGTTCATGTAAGACCATGTCTAGGACATGGCATCGGTG
Found at i:15655114 original size:96 final size:95
Alignment explanation
Indices: 15654927--15655100 Score: 253
Period size: 96 Copynumber: 1.8 Consensus size: 95
15654917 TGTTTTGGCA
* * * *
15654927 ATGATATGTGTACCAGTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATATGTTCCCGG
1 ATGATATGTGTACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTT-CCGA
15654992 TGTAAGACCATGTCTGGGCATTGCATTAGTG
65 TGTAAGACCATGTCTGGGCATTGCATTAGTG
* *
15655023 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGGATT-C-
1 ATGATATGTGTACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATAT-G-TTCCG
15655086 ATGTAAGACCATGTC
64 ATGTAAGACCATGTC
15655101 GAGGATATGG
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
95 14 0.20
96 53 0.76
97 1 0.01
98 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (95 bp):
ATGATATGTGTACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTTCCGAT
GTAAGACCATGTCTGGGCATTGCATTAGTG
Found at i:15660375 original size:27 final size:27
Alignment explanation
Indices: 15660344--15660512 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
15660334 TAAATTGTAC
15660344 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
15660371 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15660397 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15660425 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15660453 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15660480 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
15660507 AGCACT
1 AGCACT
15660513 GNNNNNNNNN
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15660458 original size:82 final size:81
Alignment explanation
Indices: 15660345--15660500 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15660335 AAATTGTACA
* *
15660345 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
15660409 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
15660426 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
15660491 TGCGAGTTGA
65 TGCGAATTGA
15660501 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15669197 original size:39 final size:40
Alignment explanation
Indices: 15668993--15669215 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
15668983 TTGAATGCTG
* * * * * *
15668993 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
15669033 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
15669073 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
15669113 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
15669153 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
15669192 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15669216 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:15669235 original size:79 final size:80
Alignment explanation
Indices: 15669068--15669250 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
15669058 GTGCGAGATA
** * *
15669068 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
15669133 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
15669148 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
15669212 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
15669227 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
15669251 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:15675659 original size:25 final size:25
Alignment explanation
Indices: 15675629--15675684 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
15675619 GTAAATCCTA
15675629 ACTTAGTGAATTTAGATACTTTAAC
1 ACTTAGTGAATTTAGATACTTTAAC
15675654 ACTTAGTGAATTTAGATACTTTAAC
1 ACTTAGTGAATTTAGATACTTTAAC
15675679 ATCTTA
1 A-CTTA
15675685 TTTGGATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (25 bp):
ACTTAGTGAATTTAGATACTTTAAC
Found at i:15695234 original size:15 final size:15
Alignment explanation
Indices: 15695214--15695244 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15695204 CCATATGTCA
15695214 ACCACATCCAAACAT
1 ACCACATCCAAACAT
*
15695229 ACCACATTCAAACAT
1 ACCACATCCAAACAT
15695244 A
1 A
15695245 TCAAAAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (15 bp):
ACCACATCCAAACAT
Found at i:15697534 original size:521 final size:521
Alignment explanation
Indices: 15696543--15697587 Score: 2000
Period size: 521 Copynumber: 2.0 Consensus size: 521
15696533 GGAGATGGAT
15696543 TGAGTTGCATAAGGATTATGACTGTTCAATCAAGTATCACCCAAGAAAGGCTAATGTGGTAGCCG
1 TGAGTTGCATAAGGATTATGACTGTTCAATCAAGTATCACCCAAGAAAGGCTAATGTGGTAGCCG
15696608 ATGCTTTGAGTCGTAGAACCGTATCTGATCTGAGAGCAATGTTCGCTCGTTTGAGTTTGTATGAT
66 ATGCTTTGAGTCGTAGAACCGTATCTGATCTGAGAGCAATGTTCGCTCGTTTGAGTTTGTATGAT
15696673 GATGGTAGTTTGTTGGCTGAATTGCAAGTAAGGCCAACCTGGGTGGACCAGATTAAGGAAAAGCA
131 GATGGTAGTTTGTTGGCTGAATTGCAAGTAAGGCCAACCTGGGTGGACCAGATTAAGGAAAAGCA
15696738 GTTGGAAGATGAGTCTTTGGTCGCTCGTTTTCAACAAGTTAAGGAAGGGAAAACTTCTGAGTTCG
196 GTTGGAAGATGAGTCTTTGGTCGCTCGTTTTCAACAAGTTAAGGAAGGGAAAACTTCTGAGTTCG
*
15696803 GTTTAAATGGTGATGGAGTTCTGTGTTTTCGAGGAAGAATTTGTGTTCCGAAGGACTCTGACTTG
261 GTTTAAATGGTGATGGAGTTCTGTGTTTCCGAGGAAGAATTTGTGTTCCGAAGGACTCTGACTTG
* *
15696868 AGGCAGACAATATTGAAGGAAGCTCATTAGGGACTATGTGCCATGCATCCTTGAGGGAATAAGTT
326 AGGCAGACAATATTGAAGGAAGCTCATGAGGGACTATGTGCCATGCATCCTGGAGGGAATAAGTT
15696933 GTATCACGACTTGCGAGAATTGTACTGGTGGCCTGGACTTAAGCGAGAAGTAACAGAGTTTGTAG
391 GTATCACGACTTGCGAGAATTGTACTGGTGGCCTGGACTTAAGCGAGAAGTAACAGAGTTTGTAG
* * * *
15696998 GAAATTGTTTGACATGCCAACAAGTGAAAGTTGAGCATCAATTACCTTCTGGACTGTTGCAGCCG
456 GAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCTTCTGGACTGTTACAGCCG
15697063 G
521 G
15697064 TGAGTTGCATAAGGATTATGACTGTTCAATCAAGTATCACCCAAGAAAGGCTAATGTGGTAGCCG
1 TGAGTTGCATAAGGATTATGACTGTTCAATCAAGTATCACCCAAGAAAGGCTAATGTGGTAGCCG
*
15697129 ATGCTTTGAGTCGTAGAACCGTATCTGATCTGAGAGCAATGTTTGCTCGTTTGAGTTTGTATGAT
66 ATGCTTTGAGTCGTAGAACCGTATCTGATCTGAGAGCAATGTTCGCTCGTTTGAGTTTGTATGAT
15697194 GATGGTAGTTTGTTGGCTGAATTGCAAGTAAGGCCAACCTGGGTGGACCAGATTAAGGAAAAGCA
131 GATGGTAGTTTGTTGGCTGAATTGCAAGTAAGGCCAACCTGGGTGGACCAGATTAAGGAAAAGCA
15697259 GTTGGAAGATGAGTCTTTGGTCGCTCGTTTTCAACAAGTTAAGGAAGGGAAAACTTCTGAGTTCG
196 GTTGGAAGATGAGTCTTTGGTCGCTCGTTTTCAACAAGTTAAGGAAGGGAAAACTTCTGAGTTCG
15697324 GTTTAAATGGTGATGGAGTTCTGTGTTTCCGAGGAAGAATTTGTGTTCCGAAGGACTCTGACTTG
261 GTTTAAATGGTGATGGAGTTCTGTGTTTCCGAGGAAGAATTTGTGTTCCGAAGGACTCTGACTTG
*
15697389 AGGCAGACAATATTGAAGGAAGCTCATGGGGGACTATGTGCCATGCATCCTGGAGGGAATAAGTT
326 AGGCAGACAATATTGAAGGAAGCTCATGAGGGACTATGTGCCATGCATCCTGGAGGGAATAAGTT
*
15697454 GTATCACGACTTGCGAGAATTGTACTGGTGGCCTGGACTTAAGCGAGAAGTAACGGAGTTTGTAG
391 GTATCACGACTTGCGAGAATTGTACTGGTGGCCTGGACTTAAGCGAGAAGTAACAGAGTTTGTAG
15697519 GAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCTTCTGGACTGTTACAGCCG
456 GAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCTTCTGGACTGTTACAGCCG
15697584 G
521 G
15697585 TGA
1 TGA
15697588 AGATACCACT
Statistics
Matches: 514, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
521 514 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (521 bp):
TGAGTTGCATAAGGATTATGACTGTTCAATCAAGTATCACCCAAGAAAGGCTAATGTGGTAGCCG
ATGCTTTGAGTCGTAGAACCGTATCTGATCTGAGAGCAATGTTCGCTCGTTTGAGTTTGTATGAT
GATGGTAGTTTGTTGGCTGAATTGCAAGTAAGGCCAACCTGGGTGGACCAGATTAAGGAAAAGCA
GTTGGAAGATGAGTCTTTGGTCGCTCGTTTTCAACAAGTTAAGGAAGGGAAAACTTCTGAGTTCG
GTTTAAATGGTGATGGAGTTCTGTGTTTCCGAGGAAGAATTTGTGTTCCGAAGGACTCTGACTTG
AGGCAGACAATATTGAAGGAAGCTCATGAGGGACTATGTGCCATGCATCCTGGAGGGAATAAGTT
GTATCACGACTTGCGAGAATTGTACTGGTGGCCTGGACTTAAGCGAGAAGTAACAGAGTTTGTAG
GAAAATGTCTGACATGCCAACAAGTGAAAGCTGAGCATCAATTACCTTCTGGACTGTTACAGCCG
G
Found at i:15701684 original size:27 final size:26
Alignment explanation
Indices: 15701626--15701738 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
15701616 AGGAAGCGTC
* *
15701626 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
15701654 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
15701681 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
15701709 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
15701735 CTGG
1 CTGG
15701739 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.50
28 31 0.41
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:15701711 original size:55 final size:54
Alignment explanation
Indices: 15701626--15701738 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
15701616 AGGAAGCGTC
*
15701626 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
15701681 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
15701735 CTGG
1 CTGG
15701739 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 20 0.38
55 32 0.62
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:15704010 original size:11 final size:11
Alignment explanation
Indices: 15703996--15704028 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15703986 AATTTTATAA
15703996 TTATTTTTATT
1 TTATTTTTATT
*
15704007 TTATTTTTATA
1 TTATTTTTATT
15704018 TTA-TTTTATT
1 TTATTTTTATT
15704028 T
1 T
15704029 ATTCAACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:15715872 original size:81 final size:81
Alignment explanation
Indices: 15715735--15715925 Score: 310
Period size: 81 Copynumber: 2.4 Consensus size: 81
15715725 TTATTCGGAT
* * *
15715735 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
*
15715800 CATTTGCGCTAGTGAC
66 CATTTGCGCGAGTGAC
15715816 GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* *
15715881 CATTTGTGCGAGTTAC
66 CATTTGCGCGAGTGAC
* *
15715897 TATATCCGGGCTAAGTCCCGAAGGCATTT
1 GATATCCGGGCTAAGACCCGAAGGCATTT
15715926 GTGCGATTTG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (81 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
CATTTGCGCGAGTGAC
Found at i:15715927 original size:40 final size:40
Alignment explanation
Indices: 15715736--15715959 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
15715726 TATTCGGATG
*
15715736 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
15715777 ATATCCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
15715817 ATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
15715858 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
15715898 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* *
15715938 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
15715960 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.09
40 90 0.55
41 60 0.37
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:15717786 original size:40 final size:40
Alignment explanation
Indices: 15717704--15717872 Score: 257
Period size: 40 Copynumber: 4.2 Consensus size: 40
15717694 TATTCGGATG
* * *
15717704 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACT
* * *
15717745 ATATCCGGGTTAAGTCTCGAAGGCATTTGTACGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
15717785 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
15717825 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
15717865 ATATCCGG
1 ATATCCGG
15717873 TTAAATCGTG
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
40 95 0.81
41 22 0.19
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:15720193 original size:27 final size:27
Alignment explanation
Indices: 15720139--15720249 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
15720129 AGCATGGCTG
* * *
15720139 CCAGAACAGATAA-TGTGACAGTGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
15720165 CCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
15720192 CCAGAACAGAT-ATATGTGGCAGTGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
15720219 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
15720246 CCAG
1 CCAG
15720250 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 56 0.77
28 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:15720223 original size:54 final size:53
Alignment explanation
Indices: 15720139--15720249 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
15720129 AGCATGGCTG
*
15720139 CCAGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
* * *
15720192 CCAGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
15720246 CCAG
1 CCAG
15720250 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
Found at i:15721753 original size:24 final size:25
Alignment explanation
Indices: 15721678--15721754 Score: 106
Period size: 24 Copynumber: 3.2 Consensus size: 25
15721668 CCAACACCGT
*
15721678 TCTCCCTAATCAGCTC-CTAAATCC
1 TCTCCCTTATCAGCTCTCTAAATCC
*
15721702 TCTACCTTATCAGCT-TCTAAATCC
1 TCTCCCTTATCAGCTCTCTAAATCC
*
15721726 TCTCCCTTATCAGCTCTC-AAATCT
1 TCTCCCTTATCAGCTCTCTAAATCC
15721750 TCTCC
1 TCTCC
15721755 TAACAGCCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 45 0.96
25 2 0.04
ACGTcount: A:0.22, C:0.39, G:0.04, T:0.35
Consensus pattern (25 bp):
TCTCCCTTATCAGCTCTCTAAATCC
Found at i:15730740 original size:4 final size:4
Alignment explanation
Indices: 15730733--15730762 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
15730723 TTAAATAAAA
15730733 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
15730763 AACCTAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:15737256 original size:13 final size:13
Alignment explanation
Indices: 15737234--15737265 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15737224 ATTCAGTTCC
15737234 AAAT-TGAAATTA
1 AAATGTGAAATTA
15737246 AAATGTGAAATTA
1 AAATGTGAAATTA
15737259 AAATGTG
1 AAATGTG
15737266 TCTTTCCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (13 bp):
AAATGTGAAATTA
Found at i:15738026 original size:48 final size:48
Alignment explanation
Indices: 15737931--15738028 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 48
15737921 AATTCTAAAA
* *
15737931 AAATTCAAAAAATATATAAAAATACATAAATCTTTAAAATAATATAAT
1 AAATTCAAAAAACATATAAAAATACATAAATCTTTAAAATAAAATAAT
* *
15737979 AAATTCAAAAAAACATATAAAAATACATTATAT-TTT-ATATAAAATAAT
1 AAATTC-AAAAAACATATAAAAATACA-TAAATCTTTAAAATAAAATAAT
15738027 AA
1 AA
15738029 GTTAATCCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
48 18 0.41
49 22 0.50
50 4 0.09
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (48 bp):
AAATTCAAAAAACATATAAAAATACATAAATCTTTAAAATAAAATAAT
Found at i:15739663 original size:6 final size:6
Alignment explanation
Indices: 15739652--15739678 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15739642 TCCCTAGATT
15739652 ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATA
15739679 ATTCCTGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:15746412 original size:14 final size:15
Alignment explanation
Indices: 15746385--15746413 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15746375 TGTTTGATAA
15746385 ACTGAAATATTAAAT
1 ACTGAAATATTAAAT
15746400 ACTGAAA-ATTAAAT
1 ACTGAAATATTAAAT
15746414 GTTTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (15 bp):
ACTGAAATATTAAAT
Found at i:15752414 original size:44 final size:44
Alignment explanation
Indices: 15751974--15752448 Score: 334
Period size: 44 Copynumber: 10.7 Consensus size: 44
15751964 AAAATCAGCC
* ** *
15751974 ACAAATCTTATCTCCCTAAAGTTGCAATATAGCAGATTAAAGCC
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * * *
15752018 AAAAATCTTATCTCCCTGAAGTTGCAATGAAGTAGATTGAAA-AT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCT
** * *
15752062 AACAAATCTTATCTTTCTAAAGTTGCAGTAGAGTAGATTAAAGCT
1 -ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
15752107 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGGT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * *
15752151 ACAAACCTTATCTCCCTAAAGTTACAGTGGAGCATATTTAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * * *
15752195 ACAAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * *
15752239 AGAAATCTCATCTCCTTAAAGTTGCAGTAGAGCATATTAAAGC-
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
15752282 AGCAAAT-TCTATGTCTCC-AAAGTTGCAGTAGG-TCGGATTAAATCAAGT
1 A-CAAATCT-TATCTC-CCTAAAGTTGCAGT-GGAGCAGATTAAAGC---T
* * * * * *
15752330 CACAAATATTATCTCCCTGAAGTTGCAGTGAAACATATTGAAGCT
1 -ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
15752375 ACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAG-T
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * *
15752418 AACAAATCATATAC-CTCTGAAGTTGCAGTGG
1 -ACAAATCTTAT-CTCCCTAAAGTTGCAGTGG
15752449 GTTAGAATGA
Statistics
Matches: 342, Mismatches: 72, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
43 3 0.01
44 268 0.78
45 39 0.11
47 3 0.01
48 27 0.08
49 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
Found at i:15752631 original size:6 final size:6
Alignment explanation
Indices: 15752620--15752649 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15752610 CAGCAACCAA
*
15752620 AAAAAT AAAAAT AAAGAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
15752650 TAACAGTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:15754940 original size:29 final size:30
Alignment explanation
Indices: 15754876--15754940 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
15754866 AATCTTAAAA
*
15754876 TTATACATGAATTATGGTTTAATGTGCAACT
1 TTATACATGAATTATGATTT-ATGTGCAACT
* *
15754907 ATATACATGAACTT-TGATTT-TGTGCAATT
1 TTATACATGAA-TTATGATTTATGTGCAACT
15754936 TTATA
1 TTATA
15754941 AATAAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 12 0.41
31 15 0.52
32 2 0.07
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
TTATACATGAATTATGATTTATGTGCAACT
Found at i:15755173 original size:29 final size:31
Alignment explanation
Indices: 15755130--15755208 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
15755120 TTTGAACCAC
* * *
15755130 AATTAGAGTTTCATGTGTATAATTGCAC-T-A
1 AATTAAAG-TTCATGTATACAATTGCACATAA
*
15755160 AATTAAAGTTCATGTATACAATTGTACATAA
1 AATTAAAGTTCATGTATACAATTGCACATAA
*
15755191 AATCAAAGTTCATGTATA
1 AATTAAAGTTCATGTATA
15755209 ATTTTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.38
30 8 0.19
31 18 0.43
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (31 bp):
AATTAAAGTTCATGTATACAATTGCACATAA
Found at i:15756140 original size:29 final size:30
Alignment explanation
Indices: 15756083--15756143 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
15756073 ATAAACCTAT
**
15756083 ATTTTTAAATTTAAAAAATAAAGAGATTAA
1 ATTTTTAAAAATAAAAAATAAAGAGATTAA
15756113 ATTTTTAAAAATAAAAATATAAA-A-ATTAA
1 ATTTTTAAAAATAAAAA-ATAAAGAGATTAA
15756142 AT
1 AT
15756144 ATATGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 7 0.25
30 16 0.57
31 5 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
ATTTTTAAAAATAAAAAATAAAGAGATTAA
Found at i:15758071 original size:22 final size:22
Alignment explanation
Indices: 15758043--15758107 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
15758033 GGGTATGAAA
15758043 CTGCATTTG-ATTCTGATCTGTT
1 CTGCATTTGTA-TCTGATCTGTT
*
15758065 CTGCATTTGTATCTGATTTGTT
1 CTGCATTTGTATCTGATCTGTT
* * *
15758087 CTACATCT-TATCTGAACTGTT
1 CTGCATTTGTATCTGATCTGTT
15758108 ATGATAATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.30
22 25 0.68
23 1 0.03
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.49
Consensus pattern (22 bp):
CTGCATTTGTATCTGATCTGTT
Found at i:15763328 original size:32 final size:32
Alignment explanation
Indices: 15763284--15763347 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
15763274 TAAGACGTTT
*
15763284 TATTCTCTTATCAAGCTAGTTTTCTACTTCTA
1 TATTCTCCTATCAAGCTAGTTTTCTACTTCTA
15763316 TATTCTCCTATCAAGCTAGTTTTCTACTTCTA
1 TATTCTCCTATCAAGCTAGTTTTCTACTTCTA
15763348 CTTTATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.23, G:0.06, T:0.48
Consensus pattern (32 bp):
TATTCTCCTATCAAGCTAGTTTTCTACTTCTA
Found at i:15765846 original size:61 final size:58
Alignment explanation
Indices: 15765763--15765878 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 58
15765753 AGTGATTATC
15765763 TTAATATTAAATTAAATTTAATATTTATCTTATAGATAAATACTATATTAATTTAATAGAT
1 TTAATATTAAATTAAATTTAATATTTATC-T-T-GATAAATACTATATTAATTTAATAGAT
* * * *
15765824 TTAATATTAAATT-TATTCTAATATTTATCTTGATAAGTATTATATTATTTTAATA
1 TTAATATTAAATTAAATT-TAATATTTATCTTGATAAATACTATATTAATTTAATA
15765879 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 21 0.42
59 1 0.02
60 4 0.08
61 24 0.48
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTAAATTTAATATTTATCTTGATAAATACTATATTAATTTAATAGAT
Found at i:15768225 original size:43 final size:43
Alignment explanation
Indices: 15768164--15768251 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
15768154 TAAAAAGTAA
15768164 GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
1 GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
15768207 GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
1 GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
15768250 GG
1 GG
15768252 GATATACCCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (43 bp):
GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
Found at i:15768879 original size:87 final size:86
Alignment explanation
Indices: 15768726--15768890 Score: 258
Period size: 87 Copynumber: 1.9 Consensus size: 86
15768716 AAATTTAGAT
** * *
15768726 TCGGTGAATTCATCAAGTTTGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTGAGA
1 TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
15768791 GTAATAAACTCAACCTCTCAAA
66 GTAA-AAACTCAACCTCTCAAA
* * *
15768813 TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATGTGAATTTATTAAGA
1 TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
15768878 GTAAAAACTCAAC
66 GTAAAAACTCAAC
15768891 TTTATGCATG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 9 0.13
87 62 0.87
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (86 bp):
TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
GTAAAAACTCAACCTCTCAAA
Found at i:15779434 original size:18 final size:19
Alignment explanation
Indices: 15779411--15779446 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
15779401 AGTTTTTTAT
15779411 TAAACATTA-ATCTCATTA
1 TAAACATTATATCTCATTA
15779429 TAAACATTATATCTCATT
1 TAAACATTATATCTCATT
15779447 TTTTGATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAACATTATATCTCATTA
Found at i:15780514 original size:23 final size:23
Alignment explanation
Indices: 15780458--15780505 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
15780448 GAACTATAAC
*
15780458 TAGGTCTTCAAGTTTATAAAGGT
1 TAGGGCTTCAAGTTTATAAAGGT
*
15780481 TAGGGCTTCAAGTTTATAAATGT
1 TAGGGCTTCAAGTTTATAAAGGT
15780504 TA
1 TA
15780506 TGTTGTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (23 bp):
TAGGGCTTCAAGTTTATAAAGGT
Found at i:15783666 original size:55 final size:55
Alignment explanation
Indices: 15783601--15783732 Score: 169
Period size: 55 Copynumber: 2.4 Consensus size: 55
15783591 GCCCTTAGCC
* * * *
15783601 CATGTGCAACACTGATTTTGAAACACGGCCATGACACACGCCCATGTGGCCTGCT
1 CATGTACAACACTGACTTTAAAACACGGCCACGACACACGCCCATGTGGCCTGCT
* *
15783656 CATGTACAACACTGACTTTAAAACACGGCCACGACACACGCTCGTGTGGCCTG-T
1 CATGTACAACACTGACTTTAAAACACGGCCACGACACACGCCCATGTGGCCTGCT
*
15783710 CCGTGTACTAA-ACTGACTTTAAA
1 -CATGTAC-AACACTGACTTTAAA
15783733 TTTTAAGTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
54 1 0.01
55 65 0.96
56 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (55 bp):
CATGTACAACACTGACTTTAAAACACGGCCACGACACACGCCCATGTGGCCTGCT
Found at i:15795702 original size:9 final size:8
Alignment explanation
Indices: 15795684--15795715 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
15795674 TAACTTATAA
15795684 ATTTAAAT
1 ATTTAAAT
15795692 ATTTAAAAT
1 ATTT-AAAT
15795701 ATTTAAAT
1 ATTTAAAT
15795709 ATTTAAA
1 ATTTAAA
15795716 AGACTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTAAAT
Found at i:15795704 original size:17 final size:17
Alignment explanation
Indices: 15795684--15795716 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15795674 TAACTTATAA
15795684 ATTTAAATATTTAAAAT
1 ATTTAAATATTTAAAAT
15795701 ATTTAAATATTTAAAA
1 ATTTAAATATTTAAAA
15795717 GACTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAATATTTAAAAT
Found at i:15795723 original size:17 final size:17
Alignment explanation
Indices: 15795686--15795725 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
15795676 ACTTATAAAT
* *
15795686 TTAAATATTTAAAATAT
1 TTAAATATTTAAAAGAC
15795703 TTAAATATTTAAAAGAC
1 TTAAATATTTAAAAGAC
15795720 TTAAAT
1 TTAAAT
15795726 TACACACTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAATATTTAAAAGAC
Found at i:15797063 original size:31 final size:32
Alignment explanation
Indices: 15797009--15797070 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
15796999 ATTTAATAGC
*
15797009 TTAGTGACTTTTAATAAAAACTTTCGAATAAT
1 TTAGTGACTTTAAATAAAAACTTTCGAATAAT
*
15797041 TTAGTGAC-TTAAATGAAAACTTTCGAATAA
1 TTAGTGACTTTAAATAAAAACTTTCGAATAA
15797071 CTTAATGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (32 bp):
TTAGTGACTTTAAATAAAAACTTTCGAATAAT
Found at i:15798200 original size:13 final size:13
Alignment explanation
Indices: 15798184--15798208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15798174 TTTTTTTAAA
15798184 TTTTTAATTAATG
1 TTTTTAATTAATG
15798197 TTTTTAATTAAT
1 TTTTTAATTAAT
15798209 AAATATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:15808224 original size:28 final size:27
Alignment explanation
Indices: 15808190--15808344 Score: 130
Period size: 28 Copynumber: 5.5 Consensus size: 27
15808180 AACCGATCTT
*
15808190 GCACACACAGTGCTTGGTTACGAAACTC
1 GCACACACAGTGCTCGGTTACG-AACTC
**** *
15808218 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTA-CGAACTC
15808247 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTAC-GAACTC
* **** *
15808275 GCACACACAATGCCTCAACAACTGATCTC
1 GCACACACAGTG-CTCGGTTAC-GAACTC
*
15808304 GCACACACAGTGCTCGGTTACAGAACTT
1 GCACACACAGTGCTCGGTTAC-GAACTC
15808332 GCACACACAGTGC
1 GCACACACAGTGC
15808345 CTCAACAACC
Statistics
Matches: 97, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
27 1 0.01
28 54 0.56
29 40 0.41
30 2 0.02
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.17
Consensus pattern (27 bp):
GCACACACAGTGCTCGGTTACGAACTC
Found at i:15808251 original size:57 final size:57
Alignment explanation
Indices: 15808160--15808373 Score: 322
Period size: 57 Copynumber: 3.7 Consensus size: 57
15808150 GATCTCATTT
* * * *
15808160 CACACACTTAGTGCCCCAAGAACCGATCTTGCACACACAGTGCTTGGTTACGAAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
*
15808219 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* * *
15808276 CACACACAATGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTAC-AGAACTTG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGA-AACTCG
15808333 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGC
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGC
15808374 CTATGTTCAC
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
57 136 0.95
59 7 0.05
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
Found at i:15808256 original size:29 final size:29
Alignment explanation
Indices: 15808215--15808375 Score: 173
Period size: 29 Copynumber: 5.6 Consensus size: 29
15808205 GGTTACGAAA
15808215 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
15808244 CTCGCACACACAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
* *
15808272 CTCGCACACACAATGCCTCAACAACTGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
15808301 CTCGCACACACAGTG-CTCGGTTACAGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
15808329 CTTGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
15808358 CTCGCACACACAGTGCCT
1 CTCGCACACACAGTGCCT
15808376 ATGTTCACTT
Statistics
Matches: 102, Mismatches: 28, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
28 42 0.41
29 60 0.59
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:15810328 original size:26 final size:26
Alignment explanation
Indices: 15810299--15810358 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
15810289 TCCCTTTGAA
* * *
15810299 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
15810325 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
15810353 CCATTC
1 TCATTC
15810359 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:15810344 original size:28 final size:28
Alignment explanation
Indices: 15810313--15810384 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
15810303 TCGATATTTT
*
15810313 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
15810341 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
15810369 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
15810385 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:15837686 original size:144 final size:144
Alignment explanation
Indices: 15837538--15837806 Score: 412
Period size: 144 Copynumber: 1.9 Consensus size: 144
15837528 AAGGTGGTCA
* *
15837538 ATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAAGGTGGCCAATGCCATGTCCCAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCAATGCCATGTCCCAGACA
* * * * *
15837603 TGGTCTTACTCTATCACACACATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
66 TGGTCTTACACTAGCACACACATCAATGCCAAAGCCATGTCCCAAACATGGTCTTACACTAGCAC
15837668 ACACATCAATACCG
131 ACACATCAATACCG
* *** * * *
15837682 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGTTGTGGCCGATGCCATTTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCAATGCCATGTCCCAGACA
15837747 TGGTCTTACACTAGCACACACATCAATGCCAAAGCCATGTCCCAAACATGGTCTTACACT
66 TGGTCTTACACTAGCACACACATCAATGCCAAAGCCATGTCCCAAACATGGTCTTACACT
15837807 GGAACGCATA
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
144 111 1.00
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCAATGCCATGTCCCAGACA
TGGTCTTACACTAGCACACACATCAATGCCAAAGCCATGTCCCAAACATGGTCTTACACTAGCAC
ACACATCAATACCG
Found at i:15837784 original size:48 final size:48
Alignment explanation
Indices: 15837438--15837806 Score: 277
Period size: 48 Copynumber: 7.7 Consensus size: 48
15837428 ACATGTCGAG
* * * * * *
15837438 GCCGATGTCAGGTCCCGGACATGGTCTTACACTAGCTCTCATC-TCATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA-CATCAAT
* * * * * * *
15837486 ACCGATGCCATGTCCCAGACATAGTGTTATACT-G-GCTCTCAT-AAGGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAA--T
* * * * * *
15837533 GGTCAATGCCATGTCCCATACATGGTCTTACACT-G-GCTCTCAT-AAGGT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAA--T
* * * *
15837581 GGCCAATGCCATGTCCCAGTCATGGTCTTACTCTATCACACACATCAAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
15837630 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
* * * * * ** **
15837678 ACCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGT-TGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
* *
15837725 GGCCGATGCCATTTCCTAGACATGGTCTTACACTAGCACACACATCAAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
* * *
15837774 GCCAAAGCCATGTCCCAAACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
15837807 GGAACGCATA
Statistics
Matches: 258, Mismatches: 54, Indels: 18
0.78 0.16 0.05
Matches are distributed among these distances:
45 2 0.01
46 4 0.02
47 3 0.01
48 240 0.93
49 2 0.01
50 5 0.02
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACACATCAAT
Found at i:15842073 original size:74 final size:74
Alignment explanation
Indices: 15841993--15842145 Score: 288
Period size: 74 Copynumber: 2.1 Consensus size: 74
15841983 TGAATCGAAT
15841993 AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAAT
1 AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAAT
15842058 AATAATAAA
66 AATAATAAA
*
15842067 AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCTAAGTTAAAATATTATCAAT
1 AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAAT
*
15842132 AATAATAAT
66 AATAATAAA
15842141 AAATT
1 AAATT
15842146 ATTTAATACA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.31
Consensus pattern (74 bp):
AAATTTTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAAT
AATAATAAA
Found at i:15844227 original size:16 final size:17
Alignment explanation
Indices: 15844206--15844264 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 17
15844196 ATATTTAGTC
15844206 ATATAATAAATTA-TTA
1 ATATAATAAATTATTTA
15844222 ATATAATAAATATAATTTA
1 ATATAATAAAT-T-ATTTA
15844241 TTATATTAATAAATTATTTA
1 --ATA-TAATAAATTATTTA
15844261 ATAT
1 ATAT
15844265 TTTAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 11 0.30
17 2 0.05
18 4 0.11
19 3 0.08
20 5 0.14
21 4 0.11
22 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATAAATTATTTA
Found at i:15844236 original size:22 final size:22
Alignment explanation
Indices: 15844211--15844254 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15844201 TAGTCATATA
15844211 ATAAATTATTA-ATATAATAAAT
1 ATAAATTATTATAT-TAATAAAT
*
15844233 ATAATTTATTATATTAATAAAT
1 ATAAATTATTATATTAATAAAT
15844255 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTATATTAATAAAT
Found at i:15844290 original size:13 final size:14
Alignment explanation
Indices: 15844274--15844315 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15844264 TTTTAATTTT
15844274 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
15844287 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
15844302 ATTTTAAATAATAT
1 ATTTT-AATAATAT
15844316 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:15844300 original size:16 final size:16
Alignment explanation
Indices: 15844278--15844314 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15844268 AATTTTATTT
15844278 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
15844295 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
15844310 TAATA
1 TAATA
15844315 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:15844400 original size:46 final size:48
Alignment explanation
Indices: 15844302--15844400 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 48
15844292 AAAAATAATA
*
15844302 ATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATATTAAT
1 ATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATATAAAT
*
15844350 ATTTT-AATAAATATTTATT-ACA-ATTA-TAAATATATT-AATAATAAAT
1 ATTTTAAAT-AATA-TTATTCACATATTATTAAAAATATTCAAT-ATAAAT
15844396 ATTTT
1 ATTTT
15844401 GTAATATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
45 3 0.07
46 19 0.41
47 7 0.15
48 12 0.26
49 5 0.11
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.47
Consensus pattern (48 bp):
ATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATATAAAT
Found at i:15847718 original size:71 final size:71
Alignment explanation
Indices: 15847602--15847748 Score: 249
Period size: 71 Copynumber: 2.1 Consensus size: 71
15847592 CTCGTCTCAA
* * *
15847602 CTTACATAATTTTCATGTATCAACATATCAAAGATATTCGTATATGTACATGTCATGATACATAC
1 CTTACATAATTTTCATGTATCAACATATAAAAAATATTCATATATGTACATGTCATGATACATAC
15847667 CATTCT
66 CATTCT
* *
15847673 CTTACATAATTTTCATGTATTAACATATAAAAAATATTCATATATGTACATGTCATGATACATAT
1 CTTACATAATTTTCATGTATCAACATATAAAAAATATTCATATATGTACATGTCATGATACATAC
15847738 CATTCT
66 CATTCT
15847744 CTTAC
1 CTTAC
15847749 TGTTTCTTCT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (71 bp):
CTTACATAATTTTCATGTATCAACATATAAAAAATATTCATATATGTACATGTCATGATACATAC
CATTCT
Found at i:15848023 original size:24 final size:26
Alignment explanation
Indices: 15847966--15848028 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
15847956 GTACATGTAT
* *
15847966 GCTCATACAAGCTCTAAATTGATATA
1 GCTCATACGAGCTGTAAATTGATATA
*
15847992 -CTCTTACGAGCTGTAAA-TGATA-A
1 GCTCATACGAGCTGTAAATTGATATA
15848015 GCTCATACGAGCTG
1 GCTCATACGAGCTG
15848029 AATATCGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 17 0.53
25 14 0.44
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (26 bp):
GCTCATACGAGCTGTAAATTGATATA
Found at i:15849273 original size:23 final size:23
Alignment explanation
Indices: 15849243--15849289 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15849233 TAGAAATGAG
15849243 ATCCTGATACCTCATTTTCTAAA
1 ATCCTGATACCTCATTTTCTAAA
15849266 ATCCTGATACCTCATTTTCTAAA
1 ATCCTGATACCTCATTTTCTAAA
15849289 A
1 A
15849290 CCACTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (23 bp):
ATCCTGATACCTCATTTTCTAAA
Found at i:15851947 original size:40 final size:40
Alignment explanation
Indices: 15851855--15851952 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
15851845 AACCCAAGTA
*
15851855 CCTTCGGGAT-TTAGCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGATCTTAGCCGGATATAGCAACTAGCACAAATG
15851894 CCTTCGGGA-CTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGATCTTAG-CCGGATATAG-CAACTAGCACAAATG
15851934 CCTTC-GGATCTTAGTCCGG
1 CCTTCGGGATCTTAG-CCGG
15851953 TTATCATCCG
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
39 16 0.30
40 36 0.68
41 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGATCTTAGCCGGATATAGCAACTAGCACAAATG
Found at i:15863276 original size:25 final size:24
Alignment explanation
Indices: 15863248--15863303 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
15863238 CCGGAGGACC
*
15863248 AATCATATAACTCATGATAATGATT
1 AATCATATAACTCATCATAATGA-T
* * *
15863273 AATCACATAATTCTTCATAATGAT
1 AATCATATAACTCATCATAATGAT
15863297 AATCATA
1 AATCATA
15863304 AAGATAATCG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (24 bp):
AATCATATAACTCATCATAATGAT
Found at i:15869872 original size:56 final size:56
Alignment explanation
Indices: 15869807--15869920 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
15869797 AATTTTTGAA
15869807 TTTATTCCATGTGTTTTTCTACTTTTATATATTGTATATTTTGAAACATTTTATAT
1 TTTATTCCATGTGTTTTTCTACTTTTATATATTGTATATTTTGAAACATTTTATAT
*
15869863 TTTATTCCATGTGTTTTTGTACTTTTATATATTGTATATTTTGAAACATTTTATAT
1 TTTATTCCATGTGTTTTTCTACTTTTATATATTGTATATTTTGAAACATTTTATAT
15869919 TT
1 TT
15869921 GTATGTCTCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.60
Consensus pattern (56 bp):
TTTATTCCATGTGTTTTTCTACTTTTATATATTGTATATTTTGAAACATTTTATAT
Found at i:15869950 original size:56 final size:56
Alignment explanation
Indices: 15869826--15869956 Score: 142
Period size: 56 Copynumber: 2.3 Consensus size: 56
15869816 TGTGTTTTTC
* * *** *
15869826 TACTTTTATATATTGTATATTTTGAAACATTTTATATTTTATTCCATGTGTTTTTG
1 TACTTATATATATTGTATATTTTGAAACATTTTATATTTTATTCCATATGAAGTTA
*
15869882 TACTTTTATATATTGTATATTTTGAAACATTTTATATTTGTATGTCTCATAT-AAGTTA
1 TACTTATATATATTGTATATTTTGAAACATTTTATATTT-TAT-TC-CATATGAAGTTA
15869940 TA-TTAT-TATATTTGTAT
1 TACTTATATATA-TTGTAT
15869957 CATGGATCGT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
56 43 0.66
57 12 0.18
58 6 0.09
59 4 0.06
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.57
Consensus pattern (56 bp):
TACTTATATATATTGTATATTTTGAAACATTTTATATTTTATTCCATATGAAGTTA
Found at i:15880090 original size:20 final size:19
Alignment explanation
Indices: 15880067--15880109 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
15880057 AATTTAGCCT
* *
15880067 TTTTTATTTTTATTTTAATA
1 TTTTTATCTTTAATTTAA-A
*
15880087 TTTTTGTCTTTAATTTAAA
1 TTTTTATCTTTAATTTAAA
15880106 TTTT
1 TTTT
15880110 ACATTCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTATCTTTAATTTAAA
Found at i:15882284 original size:46 final size:46
Alignment explanation
Indices: 15882231--15882391 Score: 168
Period size: 46 Copynumber: 3.5 Consensus size: 46
15882221 TTTGTGTGCT
* *
15882231 AGTGTAAGACATGTCCGGGACATGCTTCGGCCACGAGATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACGAGATGTAAGCC
* * * **
15882277 AGTGTAAGACATGTTTAGGACATGAATT-GGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATG-CTTCGGCCACGAGATGTAAGCC
* * * *
15882323 AGT-TGAAGACATGTCTGGGACATGCATCAGCTACGAGATGT--GTC
1 AGTGT-AAGACATGTCTGGGACATGCTTCGGCCACGAGATGTAAGCC
15882367 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
15882392 GCATCAGCAC
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
44 9 0.10
45 18 0.19
46 65 0.69
47 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCTTCGGCCACGAGATGTAAGCC
Done.