Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 41 of 175
Found at i:11446351 original size:309 final size:312
Alignment explanation
Indices: 11445933--11446528 Score: 748
Period size: 309 Copynumber: 1.9 Consensus size: 312
11445923 TTTGTGTATC
* * *
11445933 TATACTATTATTTAAGTTCCTAACTAAGTTGGTGTCACGAGTTAACCTAGCACCAACTCGATTAG
1 TATAATATTATTTAAGCTCCTAACTAAGTTGGTGTCACAAGTTAACCTAGCACCAACTCGATTAG
*
11445998 GAAAATTAAGAAAATGAACTTTCCTAATTAAAATAAGTTATATTATTCGATG-ACATTTTAGTCT
66 GAAAATTAAGAAAATGAACTTTCCTAATTAAAATAAGTTATATTATTCGA-GAACATTTTAATCT
* * *
11446062 TTTCA-TTTCAACAAAGACCAATAAAAATATGCATAT-GATGAGATTTAAACC-AGTGCCAGTTA
130 TTTCAGTTT-AACAAAAACCAATAAAAATATGCATATAG-TGAGATTTAAACCTA-CGCCAATTA
*
11446124 TATTAGTAAAACCTTAAATTTA-CTACTCAACCAAAACATTATTTTAAT-TAGTTTATACA-CTT
192 TATTAGTAAAAACTTAAATTTATC-ACTCAACCAAAACATTATTTTAATGTAGTTTATACATCTT
11446186 ATTTTAACATGCACAATTTATTATCT-TATTACCTTCATCAATTGTATATCTATCTA
256 ATTTTAACATGCACAATTTATTATCTCTATTACCTTCATCAATTGTATATCTATCTA
* * * * *
11446242 TATAATATTATTTAAGCTCTTGA-TAGAGTTGGTGTCACAAGTTAA-TTGGACACCAACTCGGTT
1 TATAATATTATTTAAGCTCCTAACTA-AGTTGGTGTCACAAGTTAACCTAG-CACCAACTCGATT
* * *
11446305 A-GAGAAATTACGAAAATG-TCTTTCTGTAATTAAAATAAGTTATATTATTCGAGAACATTTTAA
64 AGGA-AAATTAAGAAAATGAACTTTC-CTAATTAAAATAAGTTATATTATTCGAGAACATTTTAA
* * * * * *
11446368 TCTTTTTAGTTTAAGAAAAATCAATAAAAATATTCATATAGTGAGATTTGAACCTACGCCAATTG
127 TCTTTTCAGTTTAACAAAAACCAATAAAAATATGCATATAGTGAGATTTAAACCTACGCCAATTA
* * * * * * *
11446433 TTTTATTAAAAACTTAAATTTATCACTTAACTAAAACTTTATTTTAATGTATTTTATACATTTTA
192 TATTAGTAAAAACTTAAATTTATCACTCAACCAAAACATTATTTTAATGTAGTTTATACATCTTA
* *
11446498 TTTTAATATGCACAATTTATTGTCTCTATTA
257 TTTTAACATGCACAATTTATTATCTCTATTA
11446529 GTTGTATACT
Statistics
Matches: 244, Mismatches: 31, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
308 12 0.05
309 185 0.76
310 16 0.07
311 26 0.11
312 5 0.02
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (312 bp):
TATAATATTATTTAAGCTCCTAACTAAGTTGGTGTCACAAGTTAACCTAGCACCAACTCGATTAG
GAAAATTAAGAAAATGAACTTTCCTAATTAAAATAAGTTATATTATTCGAGAACATTTTAATCTT
TTCAGTTTAACAAAAACCAATAAAAATATGCATATAGTGAGATTTAAACCTACGCCAATTATATT
AGTAAAAACTTAAATTTATCACTCAACCAAAACATTATTTTAATGTAGTTTATACATCTTATTTT
AACATGCACAATTTATTATCTCTATTACCTTCATCAATTGTATATCTATCTA
Found at i:11448323 original size:18 final size:17
Alignment explanation
Indices: 11448300--11448333 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11448290 AATAAAAGAT
11448300 ATTAAAAGATGATAAATG
1 ATTAAAAGATGA-AAATG
*
11448318 ATTAAATGATGAAAAT
1 ATTAAAAGATGAAAAT
11448334 ATCATCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (17 bp):
ATTAAAAGATGAAAATG
Found at i:11449262 original size:43 final size:43
Alignment explanation
Indices: 11449186--11449335 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 43
11449176 CGAGATTACG
*
11449186 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGAATTCA
1 TGTAAGACCATGTCTGGGATATTGGCATCGATATGAGAATTCA
* * * * *
11449228 TGTAAGACTATGTCTGCGATATTGGCATCGATATGTGATTTCG
1 TGTAAGACCATGTCTGGGATATTGGCATCGATATGAGAATTCA
* *
11449271 TGTAAGACCATGGT-TGGGCTATTGGCATCGATACGAG-ATTACA
1 TGTAAGACCAT-GTCTGGGATATTGGCATCGATATGAGAATT-CA
* *
11449314 TGTAAGACCATATATGGGATAT
1 TGTAAGACCATGTCTGGGATAT
11449336 AGCATTGTTA
Statistics
Matches: 89, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 21 0.24
43 66 0.74
44 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGATATTGGCATCGATATGAGAATTCA
Found at i:11449335 original size:86 final size:85
Alignment explanation
Indices: 11449179--11449335 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
11449169 GGGTTACCGA
* * * *
11449179 GATTACGTGTAAGACCATATCTGGGATATGGCATCGATATGAGAATTCATGTAAGACTATGTCTG
1 GATTACGTGTAAGACCATATCTGGGATATGGCATCGATACGAGAATTCATGTAAGACCATATATG
11449244 CGATATTGGCATCGATATGT
66 CGATATTGGCATCGATATGT
* * *
11449264 GATTTCGTGTAAGACCATGGT-TGGGCTATTGGCATCGATACGAG-ATTACATGTAAGACCATAT
1 GATTACGTGTAAGACCAT-ATCTGGGATA-TGGCATCGATACGAGAATT-CATGTAAGACCATAT
*
11449327 ATGGGATAT
63 ATGCGATAT
11449336 AGCATTGTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 26 0.43
86 35 0.57
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (85 bp):
GATTACGTGTAAGACCATATCTGGGATATGGCATCGATACGAGAATTCATGTAAGACCATATATG
CGATATTGGCATCGATATGT
Found at i:11452768 original size:43 final size:43
Alignment explanation
Indices: 11452719--11452810 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
11452709 GTTACTCTAC
* *
11452719 GAACCTATGTTATTATGCAAACCCATG-TTGTATGTTATTATGT
1 GAACCTATGTTATTATGCAAACCCATGATTGTATG-AAGTATGT
* *
11452762 GAACCTATGTTATTATGCGAACCTATGATTGTATGAAGTATGT
1 GAACCTATGTTATTATGCAAACCCATGATTGTATGAAGTATGT
11452805 GAACCT
1 GAACCT
11452811 TTATTGATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 37 0.84
44 7 0.16
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (43 bp):
GAACCTATGTTATTATGCAAACCCATGATTGTATGAAGTATGT
Found at i:11452772 original size:18 final size:18
Alignment explanation
Indices: 11452749--11452788 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11452739 ACCCATGTTG
*
11452749 TATGTTATTATGTGAACC
1 TATGTTATTATGCGAACC
11452767 TATGTTATTATGCGAACC
1 TATGTTATTATGCGAACC
11452785 TATG
1 TATG
11452789 ATTGTATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (18 bp):
TATGTTATTATGCGAACC
Found at i:11467660 original size:19 final size:20
Alignment explanation
Indices: 11467630--11467679 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
11467620 AAATATAAAT
*
11467630 TAAACT-AATTAAATTAATC
1 TAAACTAAATTAAAGTAATC
11467649 -AAACTAAATT-AAGTAATC
1 TAAACTAAATTAAAGTAATC
*
11467667 TAAAATAAATTAA
1 TAAACTAAATTAA
11467680 TTGAATCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 12 0.46
19 13 0.50
20 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAACTAAATTAAAGTAATC
Found at i:11470128 original size:18 final size:19
Alignment explanation
Indices: 11470107--11470145 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11470097 TTCATAGCAC
*
11470107 AATAGAA-AAAAAAACCAA
1 AATAGAACAAAAAAAACAA
11470125 AATAGAACAAAAAAAACAA
1 AATAGAACAAAAAAAACAA
11470144 AA
1 AA
11470146 AAAACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.79, C:0.10, G:0.05, T:0.05
Consensus pattern (19 bp):
AATAGAACAAAAAAAACAA
Found at i:11470142 original size:9 final size:9
Alignment explanation
Indices: 11470113--11470151 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
11470103 GCACAATAGA
11470113 AAAAAAAACC
1 AAAAAAAA-C
*
11470123 AAAATAGAAC
1 AAAA-AAAAC
11470133 AAAAAAAAC
1 AAAAAAAAC
11470142 AAAAAAAAC
1 AAAAAAAAC
11470151 A
1 A
11470152 TAATAGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 14 0.54
10 9 0.35
11 3 0.12
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:11478391 original size:12 final size:13
Alignment explanation
Indices: 11478369--11478397 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11478359 CACTGACTTG
11478369 GGCCTGTGTGCTA
1 GGCCTGTGTGCTA
11478382 GGCC-GTGTGCTA
1 GGCCTGTGTGCTA
11478394 GGCC
1 GGCC
11478398 ATGTAACAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.07, C:0.28, G:0.41, T:0.24
Consensus pattern (13 bp):
GGCCTGTGTGCTA
Found at i:11479579 original size:25 final size:25
Alignment explanation
Indices: 11479535--11479629 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
11479525 ATGACCTGTG
*
11479535 AATCGGTATGCT-T-AGTCGAGCTGTA
1 AATCGGTATGCTCTCA--CGAGCTATA
*
11479560 GATCGGTATGCTCTCACGAGCTATA
1 AATCGGTATGCTCTCACGAGCTATA
* * * *
11479585 AACCGGTATGCACTTACAAGCTATA
1 AATCGGTATGCTCTCACGAGCTATA
* *
11479610 AATCAGTATGATCTCACGAG
1 AATCGGTATGCTCTCACGAG
11479630 ATGTGGAGTA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
25 53 0.96
26 1 0.02
27 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
AATCGGTATGCTCTCACGAGCTATA
Found at i:11487287 original size:25 final size:25
Alignment explanation
Indices: 11487192--11487288 Score: 113
Period size: 25 Copynumber: 3.9 Consensus size: 25
11487182 ATGAGCTGTG
***
11487192 AATCGGTATGCTCAGTCGAGCTATA
1 AATCGGTATGCTCTCACGAGCTATA
* *
11487217 GATCGGTATGCTCTCACAAGCTATA
1 AATCGGTATGCTCTCACGAGCTATA
* *
11487242 AATCGGTATGCTTTTACGAGCTATA
1 AATCGGTATGCTCTCACGAGCTATA
* *
11487267 AATCAGTATGCTCTCATGAGCT
1 AATCGGTATGCTCTCACGAGCT
11487289 GTGGAGTATC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
AATCGGTATGCTCTCACGAGCTATA
Found at i:11489791 original size:29 final size:29
Alignment explanation
Indices: 11489754--11489997 Score: 181
Period size: 29 Copynumber: 8.4 Consensus size: 29
11489744 TCGGAGTCTC
* *
11489754 ACCATAAAGGCATTCTTTTAACAGAGATA
1 ACCACAAAGGCATCCTTTTAACAGAGATA
**
11489783 ACCACAAAGGCATCCTTTTAATTGAGATA
1 ACCACAAAGGCATCCTTTTAACAGAGATA
* * *
11489812 CCCACAAAGGCATCTTTTTAACAAAGATA
1 ACCACAAAGGCATCCTTTTAACAGAGATA
* * * * *
11489841 GCCACAAAGGTATCCTTTTAACAAAAATCG
1 ACCACAAAGGCATCCTTTTAACAGAGAT-A
11489871 A-CACAAAGGCATCCTTTTAACAGAGATA
1 ACCACAAAGGCATCCTTTTAACAGAGATA
* * * * * *
11489899 GCCACAAAAGGCAGCCTGTTAATAAAGATT
1 ACCAC-AAAGGCATCCTTTTAACAGAGATA
* * * * *
11489929 GCCACAAAGTCTTCC-TTTAATAGAGATC
1 ACCACAAAGGCATCCTTTTAACAGAGATA
* * *
11489957 GCCGCAAAGGCTTCC-TTTAACATG-GATTA
1 ACCACAAAGGCATCCTTTTAACA-GAGA-TA
*
11489986 GCCACAAAGGCA
1 ACCACAAAGGCA
11489998 ATTTTTTAGG
Statistics
Matches: 173, Mismatches: 37, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
28 31 0.18
29 118 0.68
30 24 0.14
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (29 bp):
ACCACAAAGGCATCCTTTTAACAGAGATA
Found at i:11489823 original size:58 final size:57
Alignment explanation
Indices: 11489759--11489974 Score: 211
Period size: 58 Copynumber: 3.7 Consensus size: 57
11489749 GTCTCACCAT
* **
11489759 AAAGGCATTCTTTTAACAGAGATAACCACAAAGGCATCCTTTTAATTGAGATACCCAC
1 AAAGGCATTCTTTTAACAGAGATAGCCACAAAGGCATCCTTTTAATAAAGAT-CCCAC
* * * * *
11489817 AAAGGCA-TCTTTTTAACAAAGATAGCCACAAAGGTATCCTTTTAACAAAAATCGACAC
1 AAAGGCATTC-TTTTAACAGAGATAGCCACAAAGGCATCCTTTTAATAAAGATC-CCAC
* * * *
11489875 AAAGGCATCCTTTTAACAGAGATAGCCACAAAAGGCAGCCTGTTAATAAAGATTGCCAC
1 AAAGGCATTCTTTTAACAGAGATAGCCAC-AAAGGCATCCTTTTAATAAAGA-TCCCAC
* * * * * *
11489934 AAAGTC-TTCCTTTAATAGAGATCGCCGCAAAGGCTTCCTTT
1 AAAGGCATTCTTTTAACAGAGATAGCCACAAAGGCATCCTTT
11489975 AACATGGATT
Statistics
Matches: 127, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
57 13 0.10
58 87 0.69
59 26 0.20
60 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (57 bp):
AAAGGCATTCTTTTAACAGAGATAGCCACAAAGGCATCCTTTTAATAAAGATCCCAC
Found at i:11489948 original size:87 final size:87
Alignment explanation
Indices: 11489785--11489997 Score: 227
Period size: 87 Copynumber: 2.4 Consensus size: 87
11489775 CAGAGATAAC
** * * * *
11489785 CACAAAGGCATCCTTTTAATTGAGATACCCACAAAGGCATCTTTTTAACAAAGATAGCCACAAAG
1 CACAAAGGCATCCTTTTAACAGAGATAGCCACAAAGGCAGCCTGTTAACAAAGATAGCCACAAAG
11489850 GTATCCTTTTAACAAAAATCGA
66 GTATCCTTTTAACAAAAATCGA
* *
11489872 CACAAAGGCATCCTTTTAACAGAGATAGCCACAAAAGGCAGCCTGTTAATAAAGATTGCCACAAA
1 CACAAAGGCATCCTTTTAACAGAGATAGCCAC-AAAGGCAGCCTGTTAACAAAGATAGCCACAAA
* * * * *
11489937 -GTCTTCC-TTTAATAGAGATCGC
65 GGT-ATCCTTTTAACAAAAATCGA
* *
11489959 CGCAAAGGCTTCC-TTTAACATG-GATTAGCCACAAAGGCA
1 CACAAAGGCATCCTTTTAACA-GAGA-TAGCCACAAAGGCA
11489998 ATTTTTTAGG
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
86 16 0.15
87 61 0.57
88 30 0.28
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (87 bp):
CACAAAGGCATCCTTTTAACAGAGATAGCCACAAAGGCAGCCTGTTAACAAAGATAGCCACAAAG
GTATCCTTTTAACAAAAATCGA
Found at i:11495828 original size:14 final size:13
Alignment explanation
Indices: 11495809--11495839 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
11495799 AAATTATATT
11495809 TTAATTAATCTTAA
1 TTAATTAAT-TTAA
11495823 TTAATTAATTTAA
1 TTAATTAATTTAA
11495836 TTAA
1 TTAA
11495840 AACATTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATTAATTTAA
Found at i:11505877 original size:28 final size:28
Alignment explanation
Indices: 11505833--11505901 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
11505823 CAGAGGGCAT
11505833 CAAAGTGCATTAACAGAACAGAACAACAC
1 CAAAGTGC-TTAACAGAACAGAACAACAC
** *
11505862 CGTAGTGCTTATCAGAACAGAACAACAC
1 CAAAGTGCTTAACAGAACAGAACAACAC
11505890 CAAAGTGCTTAA
1 CAAAGTGCTTAA
11505902 ATAAAACAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 28 0.82
29 6 0.18
ACGTcount: A:0.45, C:0.23, G:0.16, T:0.16
Consensus pattern (28 bp):
CAAAGTGCTTAACAGAACAGAACAACAC
Found at i:11506778 original size:12 final size:12
Alignment explanation
Indices: 11506763--11506789 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11506753 AAAAATTTCT
11506763 ATTAATTTAATA
1 ATTAATTTAATA
11506775 ATTAATTTAATA
1 ATTAATTTAATA
11506787 ATT
1 ATT
11506790 TTGCAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTAATTTAATA
Found at i:11514812 original size:17 final size:17
Alignment explanation
Indices: 11514786--11514825 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11514776 ATTAAATTAA
*
11514786 TTTA-AATTAATTAATT
1 TTTACAATTAAATAATT
11514802 TTTACAATTAAATAATT
1 TTTACAATTAAATAATT
*
11514819 TTCACAA
1 TTTACAA
11514826 CTAGATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTACAATTAAATAATT
Found at i:11533091 original size:12 final size:11
Alignment explanation
Indices: 11533073--11533106 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
11533063 AATTAATTTG
11533073 AAAGAAAACTA
1 AAAGAAAACTA
11533084 ACAAGAAAACCTA
1 A-AAGAAAA-CTA
11533097 AAAGAAAACT
1 AAAGAAAACT
11533107 TAATAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 14 0.67
13 4 0.19
ACGTcount: A:0.68, C:0.15, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAGAAAACTA
Found at i:11538051 original size:31 final size:31
Alignment explanation
Indices: 11538010--11538070 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
11538000 AAACTAGATG
11538010 GAAAAATTAATGTATGTTAACACTGGTTATA
1 GAAAAATTAATGTATGTTAACACTGGTTATA
*
11538041 GAAAAGTTAATGTATGTTAACACTGGTTAT
1 GAAAAATTAATGTATGTTAACACTGGTTAT
11538071 GCCACATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (31 bp):
GAAAAATTAATGTATGTTAACACTGGTTATA
Found at i:11539806 original size:16 final size:16
Alignment explanation
Indices: 11539785--11539816 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11539775 ATAAATTAAT
*
11539785 TAAAATTTAATCATAA
1 TAAAATTTAAACATAA
11539801 TAAAATTTAAACATAA
1 TAAAATTTAAACATAA
11539817 AACACAAATA
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:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAATTTAAACATAA
Found at i:11540019 original size:15 final size:16
Alignment explanation
Indices: 11539983--11540021 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
11539973 ATAATAAAAA
11539983 TATAATATTATCATTTT
1 TATAAT-TTATCATTTT
*
11540000 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
11540015 TATAATT
1 TATAATT
11540022 AACTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.55
16 4 0.20
17 5 0.25
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:11543530 original size:41 final size:41
Alignment explanation
Indices: 11543471--11543552 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
11543461 AACCTAATTG
*
11543471 GGAAAATAATTCCGTTATTCTAATAAACTACTAAAAAATAA
1 GGAAAATAATTCCGTTATTCAAATAAACTACTAAAAAATAA
*
11543512 GGAAAATAATTCTC-TTATTCAAATAAACTACTAAAATATAA
1 GGAAAATAATTC-CGTTATTCAAATAAACTACTAAAAAATAA
11543553 AATAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.30
Consensus pattern (41 bp):
GGAAAATAATTCCGTTATTCAAATAAACTACTAAAAAATAA
Found at i:11543614 original size:19 final size:19
Alignment explanation
Indices: 11543590--11543630 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
11543580 TGATTTATTC
11543590 TAAGATTTATCTACCCAAA
1 TAAGATTTATCTACCCAAA
*
11543609 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCCAAA
11543628 TAA
1 TAA
11543631 CTTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (19 bp):
TAAGATTTATCTACCCAAA
Found at i:11556005 original size:63 final size:64
Alignment explanation
Indices: 11555906--11556033 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 64
11555896 CAATGCAAAA
11555906 CCAGTTAAACCGACTTTTGCAACCCAAATCCATCGAAAACATACCAAACCCT-AAAAATTTAAT
1 CCAGTTAAACCGACTTTTGCAACCCAAATCCATCGAAAACATACCAAACCCTAAAAAATTTAAT
11555969 CCAGTTAAACCGACTTTTGCAACCCAAATCCATCGAAAACATACCAAACCCTAAAAAATTTAAT
1 CCAGTTAAACCGACTTTTGCAACCCAAATCCATCGAAAACATACCAAACCCTAAAAAATTTAAT
11556033 C
1 C
11556034 AATCCAACCC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 52 0.81
64 12 0.19
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.22
Consensus pattern (64 bp):
CCAGTTAAACCGACTTTTGCAACCCAAATCCATCGAAAACATACCAAACCCTAAAAAATTTAAT
Found at i:11556055 original size:63 final size:63
Alignment explanation
Indices: 11555925--11556055 Score: 165
Period size: 63 Copynumber: 2.1 Consensus size: 63
11555915 CCGACTTTTG
* * * * ****
11555925 CAACCCAAATCCATCGAAAACATACCAAACCCTAAAAATTTAATCCAGTTAAACCGACTTTTG
1 CAACCCAAATCCATCGAAAACATACCAAACCCTAAAAATTTAATCCAATCAAACCCAATCACC
*
11555988 CAACCCAAATCCATCGAAAACATACCAAACCCTAAAAAATTTAAT-CAATCCAACCCAATCACC
1 CAACCCAAATCCATCGAAAACATACCAAACCCT-AAAAATTTAATCCAATCAAACCCAATCACC
11556051 CAACC
1 CAACC
11556056 TAAAATAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 47 0.81
64 11 0.19
ACGTcount: A:0.45, C:0.33, G:0.04, T:0.18
Consensus pattern (63 bp):
CAACCCAAATCCATCGAAAACATACCAAACCCTAAAAATTTAATCCAATCAAACCCAATCACC
Found at i:11557127 original size:22 final size:22
Alignment explanation
Indices: 11557088--11557135 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
11557078 AAAATTTATT
**
11557088 CAATCTTATTTATCTATTCTCC
1 CAATCTTATACATCTATTCTCC
* *
11557110 CAATCTTATACATTTATTCTCG
1 CAATCTTATACATCTATTCTCC
11557132 CAAT
1 CAAT
11557136 TTTCTGTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.46
Consensus pattern (22 bp):
CAATCTTATACATCTATTCTCC
Found at i:11557195 original size:16 final size:17
Alignment explanation
Indices: 11557174--11557210 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
11557164 TTCATTCAAT
11557174 TTTTGTAAATTT-TTT-A
1 TTTTGT-AATTTCTTTAA
11557190 TTTTGTAATTTCTTTAA
1 TTTTGTAATTTCTTTAA
11557207 TTTT
1 TTTT
11557211 ATTTCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTTGTAATTTCTTTAA
Found at i:11564265 original size:23 final size:24
Alignment explanation
Indices: 11564239--11564290 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
11564229 TTGTTTCATT
*
11564239 TCATATCTCAATTTCAT-TCTCAA
1 TCATATCACAATTTCATATCTCAA
* * *
11564262 TCATATGACATTTTCATATCTTAA
1 TCATATCACAATTTCATATCTCAA
11564286 TCATA
1 TCATA
11564291 CATCACTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (24 bp):
TCATATCACAATTTCATATCTCAA
Found at i:11566419 original size:16 final size:18
Alignment explanation
Indices: 11566387--11566419 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
11566377 TCTTGAAGAT
11566387 TTTATAATGAGGATATTA
1 TTTATAATGAGGATATTA
11566405 TTTA-AATGA-GATATT
1 TTTATAATGAGGATATT
11566420 CGATAATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (18 bp):
TTTATAATGAGGATATTA
Found at i:11569324 original size:36 final size:36
Alignment explanation
Indices: 11569283--11569368 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
11569273 TCAATTAGGT
11569283 TAATTCGGTTAATTC-GAATAATTCAGTTAATTTGGG
1 TAATTCGGTTAATTCAG-ATAATTCAGTTAATTTGGG
* * *
11569319 TAATTCGGTTAATTCAGGTAATTCGGTTAATTTGGT
1 TAATTCGGTTAATTCAGATAATTCAGTTAATTTGGG
*
11569355 TAATTTGGTTAATT
1 TAATTCGGTTAATT
11569369 TGGTTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 44 0.98
37 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (36 bp):
TAATTCGGTTAATTCAGATAATTCAGTTAATTTGGG
Found at i:11569378 original size:9 final size:9
Alignment explanation
Indices: 11569275--11569377 Score: 109
Period size: 9 Copynumber: 11.4 Consensus size: 9
11569265 TGTGTGATTC
*
11569275 AATTAGGTT
1 AATTCGGTT
11569284 AATTCGGTT
1 AATTCGGTT
**
11569293 AATTCGAAT
1 AATTCGGTT
*
11569302 AATTCAGTT
1 AATTCGGTT
* *
11569311 AATTTGGGT
1 AATTCGGTT
11569320 AATTCGGTT
1 AATTCGGTT
11569329 AATTCAGG-T
1 AATTC-GGTT
11569338 AATTCGGTT
1 AATTCGGTT
*
11569347 AATTTGGTT
1 AATTCGGTT
*
11569356 AATTTGGTT
1 AATTCGGTT
*
11569365 AATTTGGTT
1 AATTCGGTT
11569374 AATT
1 AATT
11569378 TTTAACCAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
8 2 0.03
9 76 0.95
10 2 0.03
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11569524 original size:9 final size:9
Alignment explanation
Indices: 11569510--11569536 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11569500 TTTTGAAAGG
11569510 TCGGTTAAT
1 TCGGTTAAT
11569519 TCGGTTAAT
1 TCGGTTAAT
11569528 TCGGTTAAT
1 TCGGTTAAT
11569537 GCTATTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (9 bp):
TCGGTTAAT
Found at i:11571820 original size:16 final size:15
Alignment explanation
Indices: 11571791--11571833 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
11571781 ATAGATTTAA
*
11571791 AAAAATAATTAAATAT
1 AAAAAT-ATAAAATAT
11571807 GAAAAATATAAAATAT
1 -AAAAATATAAAATAT
11571823 -AAAATATAAAA
1 AAAAATATAAAA
11571834 AATTACTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 11 0.44
16 8 0.32
17 6 0.24
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAATATAAAATAT
Found at i:11571821 original size:7 final size:7
Alignment explanation
Indices: 11571809--11571833 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11571799 TTAAATATGA
11571809 AAAATAT
1 AAAATAT
11571816 AAAATAT
1 AAAATAT
11571823 AAAATAT
1 AAAATAT
11571830 AAAA
1 AAAA
11571834 AATTACTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:11581100 original size:20 final size:19
Alignment explanation
Indices: 11581074--11581138 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
11581064 CTATGAAGTA
11581074 AAAAAAACACTCTTAATTT
1 AAAAAAACACTCTTAATTT
* * *
11581093 AAAGAAAATAGAT-GTAA-TT
1 AAA-AAAACA-CTCTTAATTT
*
11581112 AAAAAAACACACTTAATTT
1 AAAAAAACACTCTTAATTT
11581131 AAATAAAA
1 AAA-AAAA
11581139 TAAACATAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 9
0.68 0.14 0.18
Matches are distributed among these distances:
18 8 0.24
19 13 0.38
20 12 0.35
21 1 0.03
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (19 bp):
AAAAAAACACTCTTAATTT
Found at i:11581132 original size:19 final size:20
Alignment explanation
Indices: 11581072--11581138 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
11581062 AACTATGAAG
* *
11581072 TAAAAAAAACACTCTTAATT
1 TAAAGAAAACACACTTAATT
* *
11581092 TAAAGAAAATAGA-TGTAA-T
1 TAAAGAAAACACACT-TAATT
11581111 TAAA-AAAACACACTTAATT
1 TAAAGAAAACACACTTAATT
*
11581130 TAAATAAAA
1 TAAAGAAAA
11581139 TAAACATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
18 9 0.24
19 12 0.32
20 16 0.43
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (20 bp):
TAAAGAAAACACACTTAATT
Found at i:11581149 original size:38 final size:38
Alignment explanation
Indices: 11581074--11581150 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
11581064 CTATGAAGTA
* * **
11581074 AAAAAAACACTCTTAATTTAAAGAAAATAGATGTAATT
1 AAAAAAACACACTTAATTTAAAGAAAATAAACATAATT
*
11581112 AAAAAAACACACTTAATTTAAATAAAATAAACATAATT
1 AAAAAAACACACTTAATTTAAAGAAAATAAACATAATT
11581150 A
1 A
11581151 TCTAAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (38 bp):
AAAAAAACACACTTAATTTAAAGAAAATAAACATAATT
Found at i:11583303 original size:15 final size:15
Alignment explanation
Indices: 11583283--11583313 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11583273 GTCATGTAAG
11583283 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11583298 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11583313 T
1 T
11583314 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:11583504 original size:17 final size:17
Alignment explanation
Indices: 11583471--11583509 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11583461 TAAGCTTTTG
11583471 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
11583488 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
11583505 ATTTT
1 ATTTT
11583510 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:11587647 original size:15 final size:15
Alignment explanation
Indices: 11587627--11587657 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11587617 GTCATGTAAG
11587627 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11587642 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11587657 T
1 T
11587658 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:11587848 original size:17 final size:17
Alignment explanation
Indices: 11587815--11587853 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11587805 TAAGCTTTTG
11587815 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
11587832 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
11587849 ATTTT
1 ATTTT
11587854 CCACATGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:11594960 original size:26 final size:26
Alignment explanation
Indices: 11594924--11594974 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11594914 TGATCAGTGG
11594924 CACGTCTATTAATAAATGAAAAGATT
1 CACGTCTATTAATAAATGAAAAGATT
*
11594950 CACGTCTATTAATAAATGGAAAGAT
1 CACGTCTATTAATAAATGAAAAGAT
11594975 CCATGGCTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (26 bp):
CACGTCTATTAATAAATGAAAAGATT
Found at i:11601542 original size:72 final size:72
Alignment explanation
Indices: 11601420--11601558 Score: 251
Period size: 72 Copynumber: 1.9 Consensus size: 72
11601410 GCGTTGCGCA
*
11601420 TATAGGCCTCAAAATTATGGGCCGCATGATGGGATTGATGGTACTGTTGGGCCGAATGGTGGTGT
1 TATAGGCCTCAAAATTATGGGCCGCATGATGGGATTAATGGTACTGTTGGGCCGAATGGTGGTGT
11601485 TGTTGGT
66 TGTTGGT
* *
11601492 TATAGGCCTCAAAGTTATGGGCCGCATGATGGGATTAATGGTACTTTTGGGCCGAATGGTGGTGT
1 TATAGGCCTCAAAATTATGGGCCGCATGATGGGATTAATGGTACTGTTGGGCCGAATGGTGGTGT
11601557 TG
66 TG
11601559 GGCCGAAGGA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.20, C:0.13, G:0.35, T:0.32
Consensus pattern (72 bp):
TATAGGCCTCAAAATTATGGGCCGCATGATGGGATTAATGGTACTGTTGGGCCGAATGGTGGTGT
TGTTGGT
Found at i:11601572 original size:18 final size:18
Alignment explanation
Indices: 11601538--11601580 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11601528 AATGGTACTT
*
11601538 TTGGGCCGAATGGTGGTG
1 TTGGGCCGAATGGTGGTA
11601556 TTGGGCCGAA-GGATGGTA
1 TTGGGCCGAATGG-TGGTA
11601574 TTGGGCC
1 TTGGGCC
11601581 AAATAATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.14, C:0.14, G:0.47, T:0.26
Consensus pattern (18 bp):
TTGGGCCGAATGGTGGTA
Found at i:11606547 original size:13 final size:13
Alignment explanation
Indices: 11606526--11606576 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
11606516 ACACTCAAAT
11606526 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
11606539 TTCTCAAAAGTAA
1 TTTTCAAAAGCAC
* *
11606552 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
11606565 TTTTCAAAAGCA
1 TTTTCAAAAGCA
11606577 ATGAAAAACT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:11610352 original size:13 final size:13
Alignment explanation
Indices: 11610334--11610358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11610324 TGTTATTAAC
11610334 AAAACTACAAACA
1 AAAACTACAAACA
11610347 AAAACTACAAAC
1 AAAACTACAAAC
11610359 CTTAAGCATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAACTACAAACA
Found at i:11611631 original size:37 final size:38
Alignment explanation
Indices: 11611548--11611632 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 38
11611538 ACCACTTCGA
* * *
11611548 CCACCCTGCACACCACATATGAGCTATAATAAGCCCAT
1 CCACCCTACACACCACATAGGAGCCATAATAAGCCCAT
* * * *
11611586 CCATCCTACACACCACATAGGA-CCATGATAGGTCCAT
1 CCACCCTACACACCACATAGGAGCCATAATAAGCCCAT
11611623 CCACCCTACA
1 CCACCCTACA
11611633 TATCACAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 20 0.51
38 19 0.49
ACGTcount: A:0.33, C:0.39, G:0.11, T:0.18
Consensus pattern (38 bp):
CCACCCTACACACCACATAGGAGCCATAATAAGCCCAT
Found at i:11612154 original size:20 final size:20
Alignment explanation
Indices: 11612129--11612168 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11612119 TGCCTAGGCT
11612129 ATGTGGAGGTCTACACGCCC
1 ATGTGGAGGTCTACACGCCC
*
11612149 ATGTGGTGGTCTACACGCCC
1 ATGTGGAGGTCTACACGCCC
11612169 GTGTAGAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (20 bp):
ATGTGGAGGTCTACACGCCC
Found at i:11615888 original size:27 final size:25
Alignment explanation
Indices: 11615853--11615917 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
11615843 AATAGAGCAC
11615853 ATAATCGGGAAGCACACTCTCGAGCCAT
1 ATAA-CGGGAAGCACA-TCT-GAGCCAT
* *
11615881 ATAACGGGAAGCTCATGTGAGCCAT
1 ATAACGGGAAGCACATCTGAGCCAT
* *
11615906 GTAACAGGAAGC
1 ATAACGGGAAGC
11615918 TTATCCGGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 17 0.52
26 2 0.06
27 10 0.30
28 4 0.12
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (25 bp):
ATAACGGGAAGCACATCTGAGCCAT
Found at i:11615998 original size:25 final size:25
Alignment explanation
Indices: 11615964--11616015 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
11615954 TATAATGGGT
*
11615964 AGCTCTGAATAGCCATCA-ATCGAGA
1 AGCTCCGAATAGCCAT-ATATCGAGA
11615989 AGCTCCGAATAGCCATATATCGAGA
1 AGCTCCGAATAGCCATATATCGAGA
11616014 AG
1 AG
11616016 TTCAAGCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (25 bp):
AGCTCCGAATAGCCATATATCGAGA
Found at i:11616172 original size:23 final size:26
Alignment explanation
Indices: 11616142--11616198 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
11616132 ACAACCTAAT
*
11616142 GGGAAGCTCCG-AAG-AGC-TATAAC
1 GGGAAGCTCCGAAAGAACCATATAAC
11616165 GGGAAGCT-CGAAAGAACCATATAAC
1 GGGAAGCTCCGAAAGAACCATATAAC
11616190 GGGAAGCTC
1 GGGAAGCTC
11616199 GAGAGGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 2 0.07
23 11 0.38
24 2 0.07
25 14 0.48
ACGTcount: A:0.37, C:0.21, G:0.30, T:0.12
Consensus pattern (26 bp):
GGGAAGCTCCGAAAGAACCATATAAC
Found at i:11619494 original size:21 final size:21
Alignment explanation
Indices: 11619426--11619537 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 21
11619416 AATCCCGAAG
* * *
11619426 GCTGCACAGAAGCACATAAGT
1 GCTGAACAGAAGCTCATAAGA
* * * * *
11619447 GCTAAATAGAAACTCGTAAGG
1 GCTGAACAGAAGCTCATAAGA
*
11619468 GTTGAACAGAAGCTCATAAGA
1 GCTGAACAGAAGCTCATAAGA
** * *
11619489 GCTGAAGGGAAACCCATAAGA
1 GCTGAACAGAAGCTCATAAGA
* * * *
11619510 GTTAAACTGAAGCTCAAAAGA
1 GCTGAACAGAAGCTCATAAGA
11619531 GCTGAAC
1 GCTGAAC
11619538 GAAAACCCAT
Statistics
Matches: 64, Mismatches: 27, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (21 bp):
GCTGAACAGAAGCTCATAAGA
Found at i:11619501 original size:42 final size:42
Alignment explanation
Indices: 11619431--11619569 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 42
11619421 CGAAGGCTGC
* * * ** * * *
11619431 ACAGAAGCACATAAGTGCTAAATAGAAACTCGTAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
* *
11619473 ACAGAAGCTCATAAGAGCTGAAGGGAAACCCATAAGAGTTAA
1 ACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
* * * *
11619515 ACTGAAGCTCAAAAGAGCTGAACGAAAACCCATTAGGGTTAA
1 ACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
*
11619557 ACAGAAACTCATA
1 ACAGAAGCTCATA
11619570 TTAGTTAAGA
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
Found at i:11624182 original size:25 final size:25
Alignment explanation
Indices: 11624151--11624202 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11624141 ATCTGTGGAT
11624151 ATCAGAATCCGCAATCTGAATTGTC
1 ATCAGAATCCGCAATCTGAATTGTC
11624176 ATCAGAATCCGCAATCTGAATTGTC
1 ATCAGAATCCGCAATCTGAATTGTC
11624201 AT
1 AT
11624203 TCCTACCTTT
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:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
ATCAGAATCCGCAATCTGAATTGTC
Found at i:11644092 original size:16 final size:16
Alignment explanation
Indices: 11644071--11644102 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11644061 ATAATATTAT
11644071 TTTAATAAATTTAATA
1 TTTAATAAATTTAATA
*
11644087 TTTAATTAATTTAATA
1 TTTAATAAATTTAATA
11644103 CTTATCATGA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAATAAATTTAATA
Found at i:11645177 original size:10 final size:10
Alignment explanation
Indices: 11645164--11645199 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
11645154 TATATATATT
11645164 TTTATAATTA
1 TTTATAATTA
11645174 TTTATAATTA
1 TTTATAATTA
11645184 TTTAT-ATTA
1 TTTATAATTA
11645193 TGTTATA
1 T-TTATA
11645200 GTATAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (10 bp):
TTTATAATTA
Found at i:11656847 original size:14 final size:14
Alignment explanation
Indices: 11656828--11656859 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11656818 GATTTTTAAA
11656828 TTTTGTCTAATTAT
1 TTTTGTCTAATTAT
*
11656842 TTTTGTTTAATTAT
1 TTTTGTCTAATTAT
11656856 TTTT
1 TTTT
11656860 AACTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (14 bp):
TTTTGTCTAATTAT
Found at i:11660611 original size:20 final size:20
Alignment explanation
Indices: 11660586--11660627 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
11660576 TATTTATCAA
11660586 TATAAATATTACATTAAATT
1 TATAAATATTACATTAAATT
*
11660606 TATAAATATTAGATTAAATT
1 TATAAATATTACATTAAATT
11660626 TA
1 TA
11660628 ATATTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TATAAATATTACATTAAATT
Found at i:11660717 original size:37 final size:35
Alignment explanation
Indices: 11660675--11660782 Score: 103
Period size: 37 Copynumber: 3.0 Consensus size: 35
11660665 CAAGATAAAC
*
11660675 ATTAAATTAA-ATTAAATATTAATATAATCACTTTAA
1 ATTAAATTAATATTAAATATTAAAATAATCA--TTAA
** * *
11660711 TATTAAATTAATAAAATAATATTAAGATAATTATTAA
1 -ATTAAATTAATATTA-AATATTAAAATAATCATTAA
11660748 ATTAAATTTAATATTAAACTATTAAAATAAT-ATTA
1 ATTAAA-TTAATATTAAA-TATTAAAATAATCATTA
11660783 TTTTTGGAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
36 12 0.20
37 32 0.53
38 2 0.03
39 14 0.23
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (35 bp):
ATTAAATTAATATTAAATATTAAAATAATCATTAA
Found at i:11660723 original size:11 final size:11
Alignment explanation
Indices: 11660707--11660782 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
11660697 TATAATCACT
11660707 TTAATATTAAA
1 TTAATATTAAA
11660718 TTAATA--AAA
1 TTAATATTAAA
11660727 -TAATATTAAGA
1 TTAATATTAA-A
11660738 -TAATTATTAAA
1 TTAA-TATTAAA
11660749 TTAA-ATTTAATA
1 TTAATA-TTAA-A
11660761 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
11660774 ATAATATTA
1 TTAATATTA
11660783 TTTTTGGAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 5 0.09
9 3 0.06
10 3 0.06
11 20 0.37
12 14 0.26
13 4 0.07
14 4 0.07
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:11661031 original size:17 final size:17
Alignment explanation
Indices: 11660993--11661032 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11660983 CGACCCAACT
* *
11660993 GGTTTGGTCTAGCCACT
1 GGTTGGGTCTAGCCACC
*
11661010 AGTTGGGTCTAGCCACC
1 GGTTGGGTCTAGCCACC
11661027 GGTTGG
1 GGTTGG
11661033 ACCTTCGACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.12, C:0.23, G:0.35, T:0.30
Consensus pattern (17 bp):
GGTTGGGTCTAGCCACC
Found at i:11669691 original size:37 final size:36
Alignment explanation
Indices: 11669643--11670072 Score: 210
Period size: 37 Copynumber: 11.5 Consensus size: 36
11669633 AAAAAATGAA
* * *
11669643 TACTGAATATACTGAACATGCTCAAAAGAACAATGTC
1 TACTGATTATACTGAA-ATGCTCAAAAGAGCAATATC
* *
11669680 TACTGATTATACTGAAAGTTGCTCAAACGAGCGATATC
1 TACTGATTATACTGAAA--TGCTCAAAAGAGCAATATC
* * *
11669718 CACTGATTATACT-AAATGGGCTCGAACAA-A-AAATGTC
1 TACTGATTATACTGAAAT--GCTC-AA-AAGAGCAATATC
* * * * *
11669755 TACTGATTATATTGAATGTGCTTAAATGAACAATATC
1 TACTGATTATACTGAA-ATGCTCAAAAGAGCAATATC
* * * * * *
11669792 TACTGA-AACTACTGAATGTGCTCAAAATAGTAATGTA
1 TACTGATTA-TACTGAA-ATGCTCAAAAGAGCAATATC
* * * *
11669829 TACTGATTATATTGAAAGTTGCTCAGACGAGCGATATC
1 TACTGATTATACTGAAA--TGCTCAAAAGAGCAATATC
* *
11669867 CACTGATTATACT-AAATGGGCTCAAATGAGCAATATC
1 TACTGATTATACTGAAAT--GCTCAAAAGAGCAATATC
* * * * * *
11669904 TAATGAATATACTGAACGTGCTCAAAAGATCAATGTG
1 TACTGATTATACTGAA-ATGCTCAAAAGAGCAATATC
* * * * *
11669941 TATTGATTATATTGAAAGTTTCTCAAACGAGCGATATC
1 TACTGATTATACTGAAA--TGCTCAAAAGAGCAATATC
*
11669979 TACTGATTATACT-AAATGGGCTCAAACA-AGCGATATC
1 TACTGATTATACTGAAAT--GCTCAAA-AGAGCAATATC
* * *
11670016 TACTGATTATACAGAATACATGCTCAAACGAGCATTATC
1 TACTGATTATACTG-A-A-ATGCTCAAAAGAGCAATATC
* * *
11670055 CACTAATTATGC-GAAATG
1 TACTGATTATACTGAAATG
11670073 AGGTCTCACC
Statistics
Matches: 295, Mismatches: 70, Indels: 58
0.70 0.17 0.14
Matches are distributed among these distances:
35 7 0.02
36 6 0.02
37 169 0.57
38 83 0.28
39 27 0.09
40 1 0.00
41 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (36 bp):
TACTGATTATACTGAAATGCTCAAAAGAGCAATATC
Found at i:11669872 original size:112 final size:112
Alignment explanation
Indices: 11669756--11670004 Score: 349
Period size: 112 Copynumber: 2.2 Consensus size: 112
11669746 AAAAATGTCT
* * * * * * *
11669756 ACTGATTATATTGAATGTGCTTAAATGAACAATATCTACTGAA-ACTACTGAATGTGCTCAAAAT
1 ACTGATTATACTAAATGGGCTCAAATGAACAATATCTAATGAATA-TACTGAACGTGCTCAAAAG
*
11669820 AGT-AATGTATACTGATTATATTGAAAGTTGCTCAGACGAGCGATATCC
65 A-TCAATGTATACTGATTATATTGAAAGTTGCTCAAACGAGCGATATCC
*
11669868 ACTGATTATACTAAATGGGCTCAAATGAGCAATATCTAATGAATATACTGAACGTGCTCAAAAGA
1 ACTGATTATACTAAATGGGCTCAAATGAACAATATCTAATGAATATACTGAACGTGCTCAAAAGA
* * * *
11669933 TCAATGTGTATTGATTATATTGAAAGTTTCTCAAACGAGCGATATCT
66 TCAATGTATACTGATTATATTGAAAGTTGCTCAAACGAGCGATATCC
11669980 ACTGATTATACTAAATGGGCTCAAA
1 ACTGATTATACTAAATGGGCTCAAA
11670005 CAAGCGATAT
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
111 1 0.01
112 120 0.98
113 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (112 bp):
ACTGATTATACTAAATGGGCTCAAATGAACAATATCTAATGAATATACTGAACGTGCTCAAAAGA
TCAATGTATACTGATTATATTGAAAGTTGCTCAAACGAGCGATATCC
Found at i:11669925 original size:149 final size:149
Alignment explanation
Indices: 11669643--11670027 Score: 391
Period size: 149 Copynumber: 2.6 Consensus size: 149
11669633 AAAAAATGAA
*
11669643 TACTGAATATACTGAACATGCTCAAAAGAACAATGTCTACTGATTATACTGAAAGTTGCTCAAAC
1 TACTGAATATACTGAACATGCTCAAAAGAACAATGTATACTGATTATACTGAAAGTTGCTCAAAC
* * * * * *
11669708 GAGCGATATCCACTGATTATACTAAATGGGCTCGAACAAAAAATGTCTACTGATTATATTGAATG
66 GAGCGATATCCACTGATTATACTAAATGGGCTCAAACAAAAAATATCTAATGAATATACTGAACG
11669773 TGCTTAAATGAACAATATC
131 TGCTTAAATGAACAATATC
** * ** * *
11669792 TACTGAA-ACTACTGAATGTGCTCAAAATAGTAATGTATACTGATTATATTGAAAGTTGCTCAGA
1 TACTGAATA-TACTGAACATGCTCAAAAGAACAATGTATACTGATTATACTGAAAGTTGCTCAAA
** **
11669856 CGAGCGATATCCACTGATTATACTAAATGGGCTCAAATGAGCAATATCTAATGAATATACTGAAC
65 CGAGCGATATCCACTGATTATACTAAATGGGCTCAAACAAAAAATATCTAATGAATATACTGAAC
* * * * *
11669921 GTGCTCAAAAGATCAATGTG
130 GTGCTTAAATGAACAATATC
* * * * * * * * * *
11669941 TATTGATTATATTGAA-AGTTTCTCAAACGAGCGATATCTACTGATTATACT-AAA-TGGGCTCA
1 TACTGAATATACTGAACA--TGCTCAAAAGAACAATGTATACTGATTATACTGAAAGT-TGCTCA
* *
11670003 AACAAGCGATATCTACTGATTATAC
63 AACGAGCGATATCCACTGATTATAC
11670028 AGAATACATG
Statistics
Matches: 192, Mismatches: 39, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
148 2 0.01
149 165 0.86
150 25 0.13
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (149 bp):
TACTGAATATACTGAACATGCTCAAAAGAACAATGTATACTGATTATACTGAAAGTTGCTCAAAC
GAGCGATATCCACTGATTATACTAAATGGGCTCAAACAAAAAATATCTAATGAATATACTGAACG
TGCTTAAATGAACAATATC
Found at i:11673446 original size:17 final size:16
Alignment explanation
Indices: 11673419--11673450 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11673409 CTAGCTTAAG
11673419 TACATTTTATTTTCTT
1 TACATTTTATTTTCTT
11673435 TACATGTTTATTTTCT
1 TACAT-TTTATTTTCT
11673451 GTTTTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.12, G:0.03, T:0.66
Consensus pattern (16 bp):
TACATTTTATTTTCTT
Found at i:11686209 original size:13 final size:14
Alignment explanation
Indices: 11686190--11686227 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
11686180 AAATGGCATA
11686190 GAAATAATATAAAC
1 GAAATAATATAAAC
11686204 -AAATAA-ATAAAC
1 GAAATAATATAAAC
11686216 GAAATTAATATA
1 GAAA-TAATATA
11686228 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:11694610 original size:15 final size:14
Alignment explanation
Indices: 11694584--11694614 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
11694574 GAATGCGCAC
11694584 CACACACAATCACT
1 CACACACAATCACT
11694598 CACACACCAATCACT
1 CACACA-CAATCACT
11694613 CA
1 CA
11694615 GAACTAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.13
Consensus pattern (14 bp):
CACACACAATCACT
Found at i:11695921 original size:19 final size:19
Alignment explanation
Indices: 11695889--11695934 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11695879 TCTCTCCCCC
11695889 AACTAAAATAAAAAAAATA
1 AACTAAAATAAAAAAAATA
*
11695908 AACTAGAAAT-AAAATAATA
1 AACTA-AAATAAAAAAAATA
11695927 AAC-AAAAT
1 AACTAAAAT
11695935 CTATTATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 1 0.04
19 16 0.64
20 4 0.16
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (19 bp):
AACTAAAATAAAAAAAATA
Found at i:11696531 original size:35 final size:35
Alignment explanation
Indices: 11696475--11696650 Score: 219
Period size: 35 Copynumber: 5.1 Consensus size: 35
11696465 AAACACACCA
* * * *
11696475 AATGCTTACAAGAGCTAGTCCAATCAAAACACGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
* *
11696510 AATACTCATAAGAGCTGGTCCAACCAAAA-ATGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
* * *
11696544 AATGCGCATAAGATCTAGTCCAGCCAAAACATGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
* * * *
11696579 AATGCTCATAAGAGCTTGTCCAGCCGAAACACGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
*
11696614 AATGCTCATAAGAGCTAGTCCAACCGAAACATGCC
1 AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
11696649 AA
1 AA
11696651 ACATAGAGTA
Statistics
Matches: 121, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
34 28 0.23
35 93 0.77
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.17
Consensus pattern (35 bp):
AATGCTCATAAGAGCTAGTCCAACCAAAACATGCC
Found at i:11696572 original size:69 final size:70
Alignment explanation
Indices: 11696484--11696650 Score: 228
Period size: 69 Copynumber: 2.4 Consensus size: 70
11696474 AAATGCTTAC
* * *
11696484 AAGAGCTAGTCCAATCAAAACACGCCAATACTCATAAGAGCTGGTCCAACC-AAAAATGCCAATG
1 AAGAGCTAGTCCAACCAAAACATGCCAATACTCATAAGAGCTGGTCCAACCGAAAAACGCCAATG
11696548 CGCAT
66 CGCAT
* * * * * *
11696553 AAGATCTAGTCCAGCCAAAACATGCCAATGCTCATAAGAGCTTGTCCAGCCGAAACACGCCAATG
1 AAGAGCTAGTCCAACCAAAACATGCCAATACTCATAAGAGCTGGTCCAACCGAAAAACGCCAATG
*
11696618 CTCAT
66 CGCAT
*
11696623 AAGAGCTAGTCCAACCGAAACATGCCAA
1 AAGAGCTAGTCCAACCAAAACATGCCAA
11696651 ACATAGAGTA
Statistics
Matches: 84, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
69 44 0.52
70 40 0.48
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.16
Consensus pattern (70 bp):
AAGAGCTAGTCCAACCAAAACATGCCAATACTCATAAGAGCTGGTCCAACCGAAAAACGCCAATG
CGCAT
Found at i:11707657 original size:45 final size:44
Alignment explanation
Indices: 11707512--11707658 Score: 136
Period size: 45 Copynumber: 3.3 Consensus size: 44
11707502 TATCGTTGGA
* * * * *
11707512 AATAT-AGGTGGATGCTATGTGTTGATTCCACCTGA-AATTAATG
1 AATATAAGGTGGTTGCTATGTGCTGATTTCACC-GAGTACTAATG
* * * * *
11707555 AAAATAAAGGTGGTTGCTATGTGCTTATTTCACCCAGTACCATTG
1 AATAT-AAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTAATG
*
11707600 AGTATACAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTAATG
1 AATATA-AGGTGGTTGCTATGTGCTGATTTCACCGAGTACTAATG
*
11707645 ACTATAAGGGTGGT
1 AATATAA-GGTGGT
11707659 GCTGAGTGCT
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
43 4 0.05
44 3 0.04
45 75 0.91
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (44 bp):
AATATAAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTAATG
Found at i:11714444 original size:8 final size:8
Alignment explanation
Indices: 11714421--11714486 Score: 73
Period size: 8 Copynumber: 8.5 Consensus size: 8
11714411 TTCTATCTAC
11714421 TATTATAT
1 TATTATAT
11714429 TA-TATAT
1 TATTATAT
11714436 TATTATAT
1 TATTATAT
*
11714444 TATTATAA
1 TATTATAT
*
11714452 TATTATAA
1 TATTATAT
*
11714460 TATTATAA
1 TATTATAT
*
11714468 TATAAT-T
1 TATTATAT
*
11714475 TATTATTT
1 TATTATAT
11714483 TATT
1 TATT
11714487 TAAATTAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
7 12 0.23
8 40 0.77
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:11714464 original size:39 final size:37
Alignment explanation
Indices: 11714421--11714493 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
11714411 TTCTATCTAC
*
11714421 TATTATATTAT-ATATTATTATATTATTATAATATTATAA
1 TATTATAATATAAT-TTATTATATTATT-TAA-ATTATAA
*
11714460 TATTATAATATAATTTATTATTTTATTTAAATTA
1 TATTATAATATAATTTATTATATTATTTAAATTA
11714494 ATATTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 4 0.13
38 3 0.10
39 22 0.71
40 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (37 bp):
TATTATAATATAATTTATTATATTATTTAAATTATAA
Found at i:11727752 original size:19 final size:19
Alignment explanation
Indices: 11727728--11727771 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11727718 TAAAAGTAAC
11727728 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
11727747 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
11727766 ACAACA
1 ACAACA
11727772 AAAATAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.27, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:11729704 original size:29 final size:29
Alignment explanation
Indices: 11729672--11729730 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
11729662 TAATTTTTAA
*
11729672 ATGTAGTGTTTTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
*
11729701 ATGTGGTGTATTTTAAAAATAAAAAATAT
1 ATGTAGTGTATTTTAAAAATAAAAAATAT
11729730 A
1 A
11729731 GTTTATATTC
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:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (29 bp):
ATGTAGTGTATTTTAAAAATAAAAAATAT
Found at i:11729748 original size:9 final size:9
Alignment explanation
Indices: 11729736--11729763 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11729726 ATATAGTTTA
11729736 TATTCGAAT
1 TATTCGAAT
11729745 TATTCGAAT
1 TATTCGAAT
11729754 TATTCGAAT
1 TATTCGAAT
11729763 T
1 T
11729764 TGAAAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11748083 original size:28 final size:30
Alignment explanation
Indices: 11748052--11748110 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
11748042 TAAAAGAATG
*
11748052 TGTAT-GA-TGAATCACAATTAAAGTTTCA
1 TGTATAGATTGAACCACAATTAAAGTTTCA
*
11748080 TGTATATATTTGAACCACAATTAAAGTTTCA
1 TGTATAGA-TTGAACCACAATTAAAGTTTCA
11748111 AGTGTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.19
29 1 0.04
31 20 0.77
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (30 bp):
TGTATAGATTGAACCACAATTAAAGTTTCA
Found at i:11751546 original size:100 final size:100
Alignment explanation
Indices: 11751403--11751807 Score: 668
Period size: 100 Copynumber: 4.1 Consensus size: 100
11751393 ATCAGGAAGG
** * * *
11751403 TAAGATTCGCTGTTACAGCTTTAATCTATTCAACTACAATGTCGGGGAAGCAAGATTCACCGATG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
* *
11751468 TGGCTTTAATCTATTCCACTGCATCGCCAGGGAAA
66 TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
11751503 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
11751568 TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
66 TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
11751603 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
* * *
11751668 TGGCTTTAATCTGTTCCACTGCACTGCCTGGGAAG
66 TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
* * *
11751703 TAAGATTCG-TGTAGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGTTG
1 TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
* *
11751767 TGGCGTTAATCTGTTCCACTGCACCACCAGGGAAA
66 TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
11751802 TAAGAT
1 TAAGAT
11751808 CTGTAATTCT
Statistics
Matches: 287, Mismatches: 18, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
99 88 0.31
100 199 0.69
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (100 bp):
TAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATG
TGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAA
Found at i:11751788 original size:50 final size:50
Alignment explanation
Indices: 11751420--11751789 Score: 339
Period size: 50 Copynumber: 7.4 Consensus size: 50
11751410 CGCTGTTACA
* * *
11751420 GCTTTAATCTATTCAACTACAATGTCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTG
* * * * ** * * *
11751470 GCTTTAATCTATTCCACTGC-ATCGCCAGGGAAATAAGATTCGCTGTTGTA
1 GCTTTAATCTGTTCAACTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTG
* * *
11751520 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTG
* ** * * ** * * *
11751570 GCTTTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTCGCTGTTGTA
1 GCTTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTG
* * *
11751620 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTG
* * * * * ** * *
11751670 GCTTTAATCTGTTCCACTGCACTGCCTGGGAAGTAAGATTC-GTGTAGTA
1 GCTTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTG
* * *
11751719 GCTTTAATCTTTTTAACTGCAATGTCGGGGAAACAAGATTCACCGTTGTG
1 GCTTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTG
* *
11751769 GCGTTAATCTGTTCCACTGCA
1 GCTTTAATCTGTTCAACTGCA
11751790 CCACCAGGGA
Statistics
Matches: 242, Mismatches: 75, Indels: 6
0.75 0.23 0.02
Matches are distributed among these distances:
49 38 0.16
50 202 0.83
51 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
GCTTTAATCTGTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTG
Found at i:11752180 original size:219 final size:219
Alignment explanation
Indices: 11751794--11752254 Score: 805
Period size: 219 Copynumber: 2.1 Consensus size: 219
11751784 ACTGCACCAC
* * *
11751794 CAGGGAAATAAGATCTGTAATTCTTCGGTCTATTCCATTGTAATCTCAGGGAGATAAGACCTGAT
1 CAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT
* * *
11751859 GCAATCTACTCTACTGTATCTTCAAATAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATC
66 GCAATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
11751924 TCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTCACCA
131 TCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTCACCA
11751989 TTTTCGATTAGCTCCACAATTGCT
196 TTTTCGATTAGCTCCACAATTGCT
* *
11752013 TAGGGAGATAAGATCTGGAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT
1 CAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT
* * *
11752078 GCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCCCTGTAATC
66 GCAATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
*
11752143 TCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCACCA
131 TCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTCACCA
*
11752208 TTTTCGATTAGCTCCACTATTGCT
196 TTTTCGATTAGCTCCACAATTGCT
11752232 CAGGGAGATAAGATCTGGAATTC
1 CAGGGAGATAAGATCTGGAATTC
11752255 ACTGATCTGT
Statistics
Matches: 228, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
219 228 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (219 bp):
CAGGGAGATAAGATCTGGAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAT
GCAATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
TCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAAGGAGATAAGATTCACCA
TTTTCGATTAGCTCCACAATTGCT
Found at i:11753499 original size:14 final size:14
Alignment explanation
Indices: 11753480--11753520 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
11753470 TTAGCCTCTC
11753480 CATTTTTACTTTTT
1 CATTTTTACTTTTT
*
11753494 CATTTTTTCCTTTTT
1 CA-TTTTTACTTTTT
*
11753509 CATTTTGACTTT
1 CATTTTTACTTT
11753521 GATTTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.68
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:11753506 original size:15 final size:15
Alignment explanation
Indices: 11753482--11753514 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11753472 AGCCTCTCCA
11753482 TTTTTACTTTTTCAT
1 TTTTTACTTTTTCAT
*
11753497 TTTTTCCTTTTTCAT
1 TTTTTACTTTTTCAT
11753512 TTT
1 TTT
11753515 GACTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTACTTTTTCAT
Found at i:11779858 original size:13 final size:13
Alignment explanation
Indices: 11779840--11779865 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11779830 CTAGCTCTCT
11779840 TTTTTTTTCACAA
1 TTTTTTTTCACAA
11779853 TTTTTTTTCACAA
1 TTTTTTTTCACAA
11779866 CTTGATATCC
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:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTTTTCACAA
Found at i:11786881 original size:21 final size:21
Alignment explanation
Indices: 11786836--11786898 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
11786826 TTTGAACCAT
* *
11786836 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
11786858 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
11786879 TACCATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
11786899 CAAATACCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 25 0.66
22 13 0.34
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.29
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:11787214 original size:14 final size:13
Alignment explanation
Indices: 11787197--11787254 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
11787187 ATAGGTACGT
*
11787197 AAAAAAAGTTCGA
1 AAAAAAAATTCGA
*
11787210 AAAAAAAATTTGA
1 AAAAAAAATTCGA
*
11787223 AAAAAAAA--CAA
1 AAAAAAAATTCGA
11787234 AAAAAAAATT-GA
1 AAAAAAAATTCGA
11787246 AAGAAAAAA
1 AA-AAAAAA
11787255 AATTGTATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
11 9 0.24
12 3 0.08
13 25 0.68
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:11787236 original size:24 final size:24
Alignment explanation
Indices: 11787209--11787254 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
11787199 AAAAAGTTCG
*
11787209 AAAAAAAAATTTGAAA-AAAAAAC
1 AAAAAAAAAATTGAAAGAAAAAAC
11787232 AAAAAAAAAATTGAAAGAAAAAA
1 AAAAAAAAAATTGAAAGAAAAAA
11787255 AATTGTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (24 bp):
AAAAAAAAAATTGAAAGAAAAAAC
Found at i:11800196 original size:21 final size:21
Alignment explanation
Indices: 11800151--11800213 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
11800141 TTTGAACCAT
* *
11800151 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
11800173 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
11800194 TACCATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
11800214 CAAATACCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 25 0.66
22 13 0.34
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.29
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:11801451 original size:28 final size:27
Alignment explanation
Indices: 11801394--11801454 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
11801384 TTTAACTTGA
* *
11801394 TTTTTTTTGCTCACCTTTTTTTTTCTTT
1 TTTTTTTTGCTCA-CTTTTTTTGTCCTT
11801422 TTTTTTTTGCTCGA-TTTTTTTGTCACTT
1 TTTTTTTTGCTC-ACTTTTTTTGTC-CTT
11801450 TTTTT
1 TTTTT
11801455 GAATATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 9 0.31
28 19 0.66
29 1 0.03
ACGTcount: A:0.05, C:0.15, G:0.07, T:0.74
Consensus pattern (27 bp):
TTTTTTTTGCTCACTTTTTTTGTCCTT
Found at i:11806989 original size:11 final size:13
Alignment explanation
Indices: 11806973--11807062 Score: 62
Period size: 12 Copynumber: 6.7 Consensus size: 13
11806963 TTGGAGTAAC
11806973 AAAAAAAA-TC-A
1 AAAAAAAATTCGA
11806984 AAAAAAAATTCGAA
1 AAAAAAAATTCG-A
*
11806998 AAAAAAAATTGATTGAA
1 AAAAAAAA-T--TCG-A
11807015 AAAAAAAATTC-A
1 AAAAAAAATTCGA
*
11807027 AAAAAAAAGT-GA
1 AAAAAAAATTCGA
*
11807039 AAAAAAAAATCGA
1 AAAAAAAATTCGA
11807052 GCAAAAAAAAT
1 --AAAAAAAAT
11807063 CAAGTTAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
11 8 0.12
12 22 0.34
13 2 0.03
14 10 0.16
15 9 0.14
16 1 0.02
17 12 0.19
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.13
Consensus pattern (13 bp):
AAAAAAAATTCGA
Found at i:11807000 original size:14 final size:14
Alignment explanation
Indices: 11806983--11807062 Score: 69
Period size: 14 Copynumber: 5.7 Consensus size: 14
11806973 AAAAAAAATC
11806983 AAAAAAAAATTCGA
1 AAAAAAAAATTCGA
*
11806997 AAAAAAAAATTGATTGA
1 AAAAAAAAA-T--TCGA
11807014 AAAAAAAAATTC--
1 AAAAAAAAATTCGA
*
11807026 AAAAAAAAAGT-GA
1 AAAAAAAAATTCGA
11807039 AAAAAAAAA-TCGA
1 AAAAAAAAATTCGA
*
11807052 GCAAAAAAAAT
1 -AAAAAAAAAT
11807063 CAAGTTAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
12 11 0.20
13 11 0.20
14 18 0.33
15 1 0.02
16 1 0.02
17 12 0.22
ACGTcount: A:0.72, C:0.05, G:0.09, T:0.14
Consensus pattern (14 bp):
AAAAAAAAATTCGA
Found at i:11807059 original size:42 final size:42
Alignment explanation
Indices: 11806973--11807061 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
11806963 TTGGAGTAAC
* *
11806973 AAAAAAAATCAAAAAAAAATTCGAAAAAAAAAATTGATTG-AAA
1 AAAAAAAATCAAAAAAAAAGTCGAAAAAAAAAATCGA--GCAAA
*
11807016 AAAAAAATTCAAAAAAAAAGT-GAAAAAAAAAATCGAGCAAA
1 AAAAAAAATCAAAAAAAAAGTCGAAAAAAAAAATCGAGCAAA
11807057 AAAAA
1 AAAAA
11807062 TCAAGTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 1 0.02
41 8 0.19
42 14 0.33
43 19 0.45
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (42 bp):
AAAAAAAATCAAAAAAAAAGTCGAAAAAAAAAATCGAGCAAA
Found at i:11808011 original size:15 final size:16
Alignment explanation
Indices: 11807991--11808022 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11807981 AGAAAATGAA
11807991 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
11808006 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
11808022 A
1 A
11808023 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:11808137 original size:17 final size:18
Alignment explanation
Indices: 11808105--11808138 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11808095 AAAAGAGAGT
*
11808105 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
11808123 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
11808139 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:11814587 original size:31 final size:31
Alignment explanation
Indices: 11814552--11814617 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
11814542 TTATTTATGT
* *
11814552 AGGTTGGCCGAATGTGGGGATTCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATTCATTTAGCA
11814583 AGGTTAGCCGAATGTGGAGATTCATTTAGCA
1 AGGTTAGCCGAATGTGGAGATTCATTTAGCA
11814614 AGGT
1 AGGT
11814618 GCATGCATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.29
Consensus pattern (31 bp):
AGGTTAGCCGAATGTGGAGATTCATTTAGCA
Found at i:11815776 original size:12 final size:12
Alignment explanation
Indices: 11815759--11815783 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11815749 ATAGGTACGT
11815759 AAAAAATTTGAA
1 AAAAAATTTGAA
11815771 AAAAAATTTGAA
1 AAAAAATTTGAA
11815783 A
1 A
11815784 TTTGAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAAAATTTGAA
Found at i:11820375 original size:18 final size:18
Alignment explanation
Indices: 11820352--11820440 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 18
11820342 AACAAGTGAG
11820352 GAAAAAGAAAAAGAGAAT
1 GAAAAAGAAAAAGAGAAT
*
11820370 GAAAAAGAGCAAAAAGAGATT
1 G-AAAA-AG-AAAAAGAGAAT
**
11820391 GAAAGTGAAAAAGA-AATT
1 GAAAAAGAAAAAGAGAA-T
* *
11820409 GAAGAAAG-AAGAGAAAAT
1 GAA-AAAGAAAAAGAGAAT
**
11820427 GAATTAGAAAAAGA
1 GAAAAAGAAAAAGA
11820441 AACAAAAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
17 3 0.06
18 26 0.48
19 9 0.17
20 5 0.09
21 11 0.20
ACGTcount: A:0.65, C:0.01, G:0.24, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAGAGAAT
Found at i:11827459 original size:19 final size:21
Alignment explanation
Indices: 11827430--11827473 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
11827420 CAAATGAGAG
11827430 AAAAAGAAAAGAAAA-ATGAA
1 AAAAAGAAAAGAAAACATGAA
*
11827450 AAAAAG-AAAGAAAACTTGAA
1 AAAAAGAAAAGAAAACATGAA
11827470 AAAA
1 AAAA
11827474 GAGAGTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (21 bp):
AAAAAGAAAAGAAAACATGAA
Found at i:11829437 original size:15 final size:14
Alignment explanation
Indices: 11829417--11829445 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11829407 CGTAGCTTCG
11829417 AAAAAAAAAATTGC
1 AAAAAAAAAATTGC
11829431 AAAAAAAAAATTGC
1 AAAAAAAAAATTGC
11829445 A
1 A
11829446 TACGGTCTAG
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:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAAAAAAATTGC
Found at i:11831723 original size:24 final size:25
Alignment explanation
Indices: 11831696--11831752 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
11831686 ATGAGTGATA
*
11831696 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
11831720 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
11831744 AAAAAAGAA
1 AAAAAAGAA
11831753 TTTGTTGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 13 0.46
24 7 0.25
25 8 0.29
ACGTcount: A:0.63, C:0.04, G:0.23, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:11838074 original size:15 final size:15
Alignment explanation
Indices: 11838054--11838091 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
11838044 TGCACAATTC
11838054 AAGGTTTATGCGTAA
1 AAGGTTTATGCGTAA
11838069 AAGGTTTATGCGTAA
1 AAGGTTTATGCGTAA
*
11838084 AAGATTTA
1 AAGGTTTA
11838092 AAATGAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (15 bp):
AAGGTTTATGCGTAA
Found at i:11848787 original size:30 final size:30
Alignment explanation
Indices: 11848753--11848849 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
11848743 AGCTCACTCC
11848753 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
11848783 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
11848813 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
11848843 TAGCTCA
1 TAGCTCA
11848850 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:11850602 original size:12 final size:11
Alignment explanation
Indices: 11850577--11850601 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11850567 AAAGGAGAAG
11850577 AAATTCAAAAA
1 AAATTCAAAAA
11850588 AAATTCAAAAA
1 AAATTCAAAAA
11850599 AAA
1 AAA
11850602 AAATCGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:11851599 original size:37 final size:37
Alignment explanation
Indices: 11851548--11851618 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
11851538 CATTCTTGTA
11851548 AAGAGAAAACAAAG-AAAAGAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAAAG-AAAGAAAAAGAAAAAGC
*
11851585 AAGAGAAGAA-AAAGAAAAAGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAAAGAAAGAAAAAGAAAA
11851619 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 24 0.77
38 7 0.23
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.01
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAAAGAAAGAAAAAGAAAAAGC
Found at i:11851606 original size:15 final size:16
Alignment explanation
Indices: 11851547--11851618 Score: 67
Period size: 16 Copynumber: 4.5 Consensus size: 16
11851537 ACATTCTTGT
*
11851547 AAAGAGAAAACAAAG-A
1 AAAGA-AAAAGAAAGAA
*
11851563 AAAGAAAAGAAAAAGAA
1 AAAGAAAA-AGAAAGAA
* *
11851580 AAAGCAAGAG-AAGAA
1 AAAGAAAAAGAAAGAA
*
11851595 AAAGAAAAAGAAATAA
1 AAAGAAAAAGAAAGAA
11851611 AAAGAAAA
1 AAAGAAAA
11851619 GAGAGGCAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
15 16 0.35
16 23 0.50
17 7 0.15
ACGTcount: A:0.78, C:0.03, G:0.18, T:0.01
Consensus pattern (16 bp):
AAAGAAAAAGAAAGAA
Found at i:11851618 original size:6 final size:6
Alignment explanation
Indices: 11851558--11851607 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
11851548 AAGAGAAAAC
11851558 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
11851607 A
1 A
11851608 TAAAAAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
5 9 0.22
6 23 0.56
7 3 0.07
8 3 0.07
9 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:11851620 original size:21 final size:21
Alignment explanation
Indices: 11851558--11851618 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
11851548 AAGAGAAAAC
11851558 AAAGAAAAGAAAAGAAAAAGAA
1 AAAGAAAA-AAAAGAAAAAGAA
* * *
11851580 AAAGCAAGAGAAGAAAAAGAA
1 AAAGAAAAAAAAGAAAAAGAA
11851601 AAAGAAATAAAAAGAAAA
1 AAAGAAA-AAAAAGAAAA
11851619 GAGAGGCAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAAAGAAAAAGAA
Found at i:11851700 original size:11 final size:12
Alignment explanation
Indices: 11851668--11851698 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
11851658 TTGAGAGAAC
11851668 TTGAAAAAGCCT
1 TTGAAAAAGCCT
11851680 TTGAAAAAGCCT
1 TTGAAAAAGCCT
11851692 TTGAAAA
1 TTGAAAA
11851699 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:11853913 original size:30 final size:30
Alignment explanation
Indices: 11853879--11853975 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
11853869 AGCTCACTCC
11853879 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
11853909 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
11853939 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
11853969 TAGCTCA
1 TAGCTCA
11853976 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:11862102 original size:10 final size:10
Alignment explanation
Indices: 11862087--11862135 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
11862077 TTGGGTTAAG
11862087 ATTGAGCTGA
1 ATTGAGCTGA
11862097 ATTGAGCTCGA
1 ATTGAGCT-GA
11862108 A-TGAGCTGA
1 ATTGAGCTGA
* *
11862117 CTTGAGCTCA
1 ATTGAGCTGA
*
11862127 AGTGAGCTG
1 ATTGAGCTG
11862136 GAAACGAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:11862112 original size:20 final size:20
Alignment explanation
Indices: 11862089--11862135 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
11862079 GGGTTAAGAT
11862089 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
11862109 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
11862129 TGAGCTG
1 TGAGCTG
11862136 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:11870202 original size:424 final size:425
Alignment explanation
Indices: 11869414--11870260 Score: 1606
Period size: 424 Copynumber: 2.0 Consensus size: 425
11869404 ATAAATAATT
11869414 ATACGAGTCACAAAGGCCTTAGGATGCGTGCACGAAAGAAAGAGAAAATCAAGATTCACTTTCTT
1 ATACGAGTCACAAAGGCCTTAGGATGCGTGCACGAAAGAAAGAGAAAATCAAGATTCACTTTCTT
*
11869479 TTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCGATTTCAAGAAT
66 TTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCAATTTCAAGAAT
11869544 CAAGGAAATCAAGATTTCAAATCTTGGAAATCTTGGTCTAAGAAACCAAATCTTGCAGCCAAAGC
131 CAAGGAAATCAAGATTTCAAATCTTGGAAATCTTGGTCTAAGAAACCAAATCTTGCAGCCAAAGC
11869609 GCATTGGATCTCCGTTACGAGCATTAACAAACCAATTTCGGTAGAAGATAGAATACAAGCCCAAG
196 GCATTGGATCTCCGTTACGAGCATTAACAAACCAATTTCGGTAGAAGATAGAATACAAGCCCAAG
11869674 TTCTTGAAGGCAAGGCCCAATAAGATGATTCCAAGCCCAAAAAAGAAGACAAACCATACTTACTT
261 TTCTTGAAGGCAAGGCCCAATAAGATGATTCCAAGCCCAAAAAAGAAGACAAACCATACTTACTT
* *
11869739 GAAAATCAGGCCAAATTGTCAAAGTGGCCCAATTTGTAAAGTTTTA-TTTTTTAAATACTTAGTT
326 GAAAATCAGACCAAATTGTCAAAGTGACCCAATTTGTAAAGTTTTATTTTTTTAAATACTTAGTT
11869803 TAAATTTTTATGTAGATATTCAGTCCAAGAGGCTG
391 TAAATTTTTATGTAGATATTCAGTCCAAGAGGCTG
*
11869838 ATACGAGTCACAAAGGCCTTAGGATGCGTGCACGAAAGAAAGAGAAAATCAAGATTGACTTTCTT
1 ATACGAGTCACAAAGGCCTTAGGATGCGTGCACGAAAGAAAGAGAAAATCAAGATTCACTTTCTT
11869903 TTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCAATTTCAAGAAT
66 TTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCAATTTCAAGAAT
*
11869968 CAAGGAAATTAAGATTTCAAATCTTGGAAATCTTGGTCTAAGAAACCAAATCTTGCAGCCAAAGC
131 CAAGGAAATCAAGATTTCAAATCTTGGAAATCTTGGTCTAAGAAACCAAATCTTGCAGCCAAAGC
*
11870033 GCATTGGATCTCCGTTACGAGCATTAACGAACCAATTTCGGTAGAAGATAGAATACAAGCCCAAG
196 GCATTGGATCTCCGTTACGAGCATTAACAAACCAATTTCGGTAGAAGATAGAATACAAGCCCAAG
* *
11870098 TTCTTGAAGGCAAGGCCCAATAAGATGATTCCAAGTCCAAACAAGAAGACAAACCATACTTACTT
261 TTCTTGAAGGCAAGGCCCAATAAGATGATTCCAAGCCCAAAAAAGAAGACAAACCATACTTACTT
*
11870163 GAAAATCAGACCAAATTGTCAAAGTGACCCAATTTGTAAAGTTTTATTTTTTTCAATACTTAGTT
326 GAAAATCAGACCAAATTGTCAAAGTGACCCAATTTGTAAAGTTTTATTTTTTTAAATACTTAGTT
11870228 TAAATTTTTATGTAGATATTCAGTCCAAGAGGC
391 TAAATTTTTATGTAGATATTCAGTCCAAGAGGC
11870261 CCAATTAAAA
Statistics
Matches: 413, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
424 363 0.88
425 50 0.12
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (425 bp):
ATACGAGTCACAAAGGCCTTAGGATGCGTGCACGAAAGAAAGAGAAAATCAAGATTCACTTTCTT
TTTTTCAAGAAAATCAAGAAACCGAATCTTGGCCCAATCTTGCTGTTTGGAGCAATTTCAAGAAT
CAAGGAAATCAAGATTTCAAATCTTGGAAATCTTGGTCTAAGAAACCAAATCTTGCAGCCAAAGC
GCATTGGATCTCCGTTACGAGCATTAACAAACCAATTTCGGTAGAAGATAGAATACAAGCCCAAG
TTCTTGAAGGCAAGGCCCAATAAGATGATTCCAAGCCCAAAAAAGAAGACAAACCATACTTACTT
GAAAATCAGACCAAATTGTCAAAGTGACCCAATTTGTAAAGTTTTATTTTTTTAAATACTTAGTT
TAAATTTTTATGTAGATATTCAGTCCAAGAGGCTG
Found at i:11872335 original size:18 final size:20
Alignment explanation
Indices: 11872314--11872363 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
11872304 AAAGAAAGAC
11872314 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
11872332 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
11872352 AGAAAAAAGAGA
1 AG-AAAAAGAGA
11872364 TTGAGAGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:11877854 original size:10 final size:10
Alignment explanation
Indices: 11877839--11877887 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
11877829 ACGACCTCAA
11877839 TGAGCTGAAT
1 TGAGCTGAAT
11877849 TGAGCTCGAA-
1 TGAGCT-GAAT
*
11877859 TGAGCTGACT
1 TGAGCTGAAT
* *
11877869 TGAGCTCAAG
1 TGAGCTGAAT
11877879 TGAGCTGAA
1 TGAGCTGAA
11877888 CCACATGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.84
11 3 0.09
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:11877860 original size:20 final size:19
Alignment explanation
Indices: 11877834--11877887 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 19
11877824 TAATAACGAC
11877834 CTCAATGAGCTGAATTGAG
1 CTCAATGAGCTGAATTGAG
*
11877853 CTCGAATGAGCTGACTTGAG
1 CTC-AATGAGCTGAATTGAG
11877873 CTCAAGTGAGCTGAA
1 CTCAA-TGAGCTGAA
11877888 CCACATGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (19 bp):
CTCAATGAGCTGAATTGAG
Found at i:11880836 original size:23 final size:22
Alignment explanation
Indices: 11880785--11880836 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
11880775 CCTCGTCTTT
*
11880785 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
11880807 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
11880830 TTCTTTT
1 TTCTTTT
11880837 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:11883820 original size:414 final size:414
Alignment explanation
Indices: 11883050--11883881 Score: 1637
Period size: 414 Copynumber: 2.0 Consensus size: 414
11883040 AAGATCCTTG
* *
11883050 AAATCCCGAAAGATTTCACAAATCTCTTCAAACGGCTCTAATCTCCCCTCCAAAGAATATCGATG
1 AAATCCCAAAAGATTTCACAAATCTCTTCAAACAGCTCTAATCTCCCCTCCAAAGAATATCGATG
11883115 GCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAGC
66 GCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAGC
*
11883180 TCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCTAACAAACTGAAATTTAAT
131 TCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCTAACAAACTGAAATGTAAT
11883245 GTATTGAATGATAATAAGATGTTTACAAAGGGTGGCTGGCCAATGCTTATATAGGCCTCCAAGAA
196 GTATTGAATGATAATAAGATGTTTACAAAGGGTGGCTGGCCAATGCTTATATAGGCCTCCAAGAA
11883310 ATCCTAATCTAATTAGAAAACTTAAAAAATTTAAACTTAATTAAAAAAACAAAGGAAAATTCGGC
261 ATCCTAATCTAATTAGAAAACTTAAAAAATTTAAACTTAATTAAAAAAACAAAGGAAAATTCGGC
11883375 CATGCATCCTATTGGGCTGTTTTGGGCCGAATTTAACATGTGATATTCCTAAAACTTAAAAAATT
326 CATGCATCCTATTGGGCTGTTTTGGGCCGAATTTAACATGTGATATTCCTAAAACTTAAAAAATT
11883440 AACTTAAACAACTAAAATGTTTAC
391 AACTTAAACAACTAAAATGTTTAC
11883464 AAATCCCAAAAGATTTCACAAATCTCTTCAAACAGCTCTAATCTCCCCTCCAAAGAATATCGATG
1 AAATCCCAAAAGATTTCACAAATCTCTTCAAACAGCTCTAATCTCCCCTCCAAAGAATATCGATG
11883529 GCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAGC
66 GCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAGC
11883594 TCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCTAACAAACTGAAATGTAAT
131 TCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCTAACAAACTGAAATGTAAT
11883659 GTATTGAATGATAATAAGATGTTTACAAAGGGTGGCTGGCCAATGCTTATATAGGCCTCCAAGAA
196 GTATTGAATGATAATAAGATGTTTACAAAGGGTGGCTGGCCAATGCTTATATAGGCCTCCAAGAA
11883724 ATCCTAATCTAATTAGAAAACTTAAAAAATTTAAACTTAATTAAAAAAACAAAGGAAAATTCGGC
261 ATCCTAATCTAATTAGAAAACTTAAAAAATTTAAACTTAATTAAAAAAACAAAGGAAAATTCGGC
11883789 CATGCATCCTATTGGGCTGTTTTGGGCCGAATTTAACATGTGATATTCCTAAAACTTAAAAAATT
326 CATGCATCCTATTGGGCTGTTTTGGGCCGAATTTAACATGTGATATTCCTAAAACTTAAAAAATT
11883854 AACTTAAACAACTAAAATGTTTAC
391 AACTTAAACAACTAAAATGTTTAC
11883878 AAAT
1 AAAT
11883882 TGGGCCCTTT
Statistics
Matches: 415, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
414 415 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (414 bp):
AAATCCCAAAAGATTTCACAAATCTCTTCAAACAGCTCTAATCTCCCCTCCAAAGAATATCGATG
GCAAGAAGAAGGTTGAAGATGGCTCCCACAATCAAAAGATTGTTAAAACAACTTCTAAAGAAAGC
TCAAGAGAGAATTCTTGGAGAAAACCCCAAAGAAAATTCTGCACTCTAACAAACTGAAATGTAAT
GTATTGAATGATAATAAGATGTTTACAAAGGGTGGCTGGCCAATGCTTATATAGGCCTCCAAGAA
ATCCTAATCTAATTAGAAAACTTAAAAAATTTAAACTTAATTAAAAAAACAAAGGAAAATTCGGC
CATGCATCCTATTGGGCTGTTTTGGGCCGAATTTAACATGTGATATTCCTAAAACTTAAAAAATT
AACTTAAACAACTAAAATGTTTAC
Found at i:11884973 original size:4 final size:4
Alignment explanation
Indices: 11884953--11884987 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
11884943 ATATCTAACT
*
11884953 TAAA -AAA TAAG TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
11884988 AATCATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:11887273 original size:21 final size:23
Alignment explanation
Indices: 11887228--11887274 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11887218 TCACCTGCAA
* *
11887228 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
11887251 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
11887272 TAA
1 TAA
11887275 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Done.