Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 319 of 325
Found at i:100574284 original size:45 final size:45
Alignment explanation
Indices: 100574221--100574308 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
100574211 TCTCTACCTA
* *
100574221 TTTATTTCATTCATCATGGATATCAAACACCTTTACCCTAAGTAT
1 TTTATTTCATTCAACATGGATATCAAACACCTTTACCCCAAGTAT
* * *
100574266 TTTA-TTCTATTCAACATGGTTATCAAATACTTTTACCCCAAGT
1 TTTATTTC-ATTCAACATGGATATCAAACACCTTTACCCCAAGT
100574309 CTATATTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 3 0.08
45 34 0.92
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (45 bp):
TTTATTTCATTCAACATGGATATCAAACACCTTTACCCCAAGTAT
Found at i:100575022 original size:66 final size:66
Alignment explanation
Indices: 100574939--100575070 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
100574929 TTTGAAGCTA
* * *
100574939 TAGCTGGAGTTCGTCATATTTTC-TTGTTGCCTTTGCTTCCCTTAT-TGTTGCCTCCACTTTAAG
1 TAGCTGGAGTTCATCATATTTTCTTTG-AGCCTTTGCTT-CCTTATATGCTGCCTCCACTTTAAG
100575002 TTG
64 TTG
* * *
100575005 TAGCTGGAGTTCATCATATTTTCTTTGAGCCTTTGCTTCTTTCTATGCTGCCTCCGCTTTAAGTT
1 TAGCTGGAGTTCATCATATTTTCTTTGAGCCTTTGCTTCCTTATATGCTGCCTCCACTTTAAGTT
100575070 G
66 G
100575071 AGCAATTTGT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 4 0.07
66 51 0.88
67 3 0.05
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (66 bp):
TAGCTGGAGTTCATCATATTTTCTTTGAGCCTTTGCTTCCTTATATGCTGCCTCCACTTTAAGTT
G
Found at i:100577098 original size:41 final size:40
Alignment explanation
Indices: 100577053--100577129 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
100577043 CAATTATGAG
* *
100577053 AAAAACACCGCTA-TAGGTTTAACCTTTTGTGGCGTTTATGC
1 AAAAACACCGCTACT-GCTTT-ACCTTTTGCGGCGTTTATGC
*
100577094 AAAAACGCCGCTACTGCTTTACCTTTTGCGGCGTTT
1 AAAAACACCGCTACTGCTTTACCTTTTGCGGCGTTT
100577130 TTCTCATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 15 0.47
41 16 0.50
42 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (40 bp):
AAAAACACCGCTACTGCTTTACCTTTTGCGGCGTTTATGC
Found at i:100582293 original size:19 final size:19
Alignment explanation
Indices: 100582269--100582356 Score: 146
Period size: 19 Copynumber: 4.8 Consensus size: 19
100582259 ATCTTCAATT
100582269 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
100582288 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
100582307 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
100582324 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
100582342 ACATGCAATCTTAGA
1 ATATGCAATCTTAGA
100582357 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
17 16 0.25
18 15 0.23
19 34 0.52
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:100582337 original size:35 final size:37
Alignment explanation
Indices: 100582274--100582363 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 37
100582264 CAATTATATG
100582274 CAATCTTAGATATGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
*
100582310 CAATCTTAGATATGAT-TGCAATCTTAGATATGACATG
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
100582347 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
100582364 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 19 0.38
36 19 0.38
37 12 0.24
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:100582669 original size:17 final size:17
Alignment explanation
Indices: 100582645--100582679 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
100582635 ATGTTTCCCG
*
100582645 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
100582663 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
100582680 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:100601315 original size:78 final size:78
Alignment explanation
Indices: 100601216--100601520 Score: 378
Period size: 78 Copynumber: 3.7 Consensus size: 78
100601206 GTGTTTATGC
* * *
100601216 TGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGACACAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGACATAGCAG
100601281 ATTTGACCTTCAT
66 ATTTGACCTTCAT
* * *
100601294 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGACATAACAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGACATAGCAG
*
100601359 ATTGGACCTTCAT
66 ATTTGACCTTCAT
* *
100601372 TGAAGCAGATCCAAGATGATTTGGTATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGACATAGCAG
*
100601437 ATCTGACCTTCATGTGTTT
66 ATTTGACCTTCA------T
100601456 ACATCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGAC-AGGGAGCAAATCGAAG
1 ---T-GAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGA-GGAGCAAATCGAAG
100601520 A
57 A
100601521 TAACAAATTT
Statistics
Matches: 198, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
78 143 0.72
84 1 0.01
87 1 0.01
88 16 0.08
91 1 0.01
92 36 0.18
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGACATAGCAG
ATTTGACCTTCAT
Found at i:100601536 original size:45 final size:45
Alignment explanation
Indices: 100601389--100601662 Score: 277
Period size: 45 Copynumber: 6.1 Consensus size: 45
100601379 GATCCAAGAT
* * *
100601389 GATTTGGTATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
100601436 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
100601481 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
100601526 AATTTGGCATCTCTATATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
100601570 GATTTGGCGTCCCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
100601615 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
100601660 GAT
1 GAT
100601663 ATCGCCTTCC
Statistics
Matches: 186, Mismatches: 34, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 42 0.23
45 113 0.61
46 4 0.02
47 21 0.11
48 4 0.02
49 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:100601598 original size:89 final size:90
Alignment explanation
Indices: 100601463--100601662 Score: 287
Period size: 89 Copynumber: 2.2 Consensus size: 90
100601453 TTTACATCGA
* *
100601463 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACAA
1 AGCAGATCAAAGATAG-CAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAA
100601527 ATTTGGCATCTCTATATTAGACGGGG
65 ATTTGGCATCTCTATATTAGACGGGG
** * * * *
100601553 AGCAGATTGAAGA-AGCAGATTTGGCGTCCCTGTATTAGACGGGGAGCAGATCGAAGATAACAGA
1 AGCAGATCAAAGATAGCAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAAA
* *
100601617 TTTGGCGTCTCTGTATTAGACGGGG
66 TTTGGCATCTCTATATTAGACGGGG
100601642 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
100601663 ATCGCCTTCC
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
89 78 0.80
90 19 0.20
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAAA
TTTGGCATCTCTATATTAGACGGGG
Found at i:100602045 original size:36 final size:35
Alignment explanation
Indices: 100602005--100602084 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 35
100601995 ATGGAAATAT
100602005 AATCTTCAATGATATGCAATCTTAGATATGATATGC
1 AATCTT-AATGATATGCAATCTTAGATATGATATGC
*
100602041 AATCTTAGAT-ATGATACAATCTTAGATATGATATGC
1 AATCTTA-ATGAT-ATGCAATCTTAGATATGATATGC
100602077 AATCTTAA
1 AATCTTAA
100602085 AGGATATGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (35 bp):
AATCTTAATGATATGCAATCTTAGATATGATATGC
Found at i:100602092 original size:17 final size:19
Alignment explanation
Indices: 100602013--100602083 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
100602003 ATAATCTTCA
100602013 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100602032 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100602051 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
100602068 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
100602084 AAGGATATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:100602399 original size:17 final size:17
Alignment explanation
Indices: 100602375--100602409 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
100602365 TGTTTCCCGG
*
100602375 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
100602393 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
100602410 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:100605786 original size:15 final size:15
Alignment explanation
Indices: 100605766--100605796 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
100605756 ATCCCTTTGA
100605766 TTTTCTAACAAAATT
1 TTTTCTAACAAAATT
100605781 TTTTCTAACAAAATT
1 TTTTCTAACAAAATT
100605796 T
1 T
100605797 GGTCCCACTT
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:0.13, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTCTAACAAAATT
Found at i:100610741 original size:10 final size:9
Alignment explanation
Indices: 100610715--100610750 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
100610705 GCCTAGGTGA
100610715 TTTATAATT
1 TTTATAATT
100610724 TTTATAATT
1 TTTATAATT
100610733 TTTATTAATT
1 TTTA-TAATT
100610743 TTATATAA
1 TT-TATAA
100610751 AAATAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.52
10 10 0.40
11 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:100612318 original size:19 final size:22
Alignment explanation
Indices: 100612277--100612320 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
100612267 ATTTTGATTG
*
100612277 ATTGAATTTATTTTTAATATCA
1 ATTGAATTTATTTTAAATATCA
100612299 ATTG-ATTT-TTTTAAAT-TCA
1 ATTGAATTTATTTTAAATATCA
100612318 ATT
1 ATT
100612321 CACTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 4 0.19
22 4 0.19
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTGAATTTATTTTAAATATCA
Found at i:100626400 original size:44 final size:44
Alignment explanation
Indices: 100626339--100626429 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
100626329 GCAACACATT
* * *
100626339 ATAGCATATCAACTTTCATAACGAAGCATAACTTATAAGATATC
1 ATAGCATATCAACTTTCATAACGAAACATAACTTATAACATAAC
* ** *
100626383 ATAGCATATTAGA-TTTCATATGGAAACATATCTTATAACATAAC
1 ATAGCATATCA-ACTTTCATAACGAAACATAACTTATAACATAAC
100626427 ATA
1 ATA
100626430 TCCTACCCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (44 bp):
ATAGCATATCAACTTTCATAACGAAACATAACTTATAACATAAC
Found at i:100631591 original size:17 final size:17
Alignment explanation
Indices: 100631565--100631598 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
100631555 GGGTTTAGTC
100631565 TTTATCTTCA-TCTTTT
1 TTTATCTTCATTCTTTT
100631581 TTTACTCTTCATTCTTTT
1 TTTA-TCTTCATTCTTTT
100631599 GCCATTATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATCTTCATTCTTTT
Found at i:100632176 original size:22 final size:21
Alignment explanation
Indices: 100632137--100632177 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
100632127 CATCAAAAAT
100632137 TATTTTTTATTAACATTTATA
1 TATTTTTTATTAACATTTATA
100632158 TATTTTTATGATTAA-ATTTA
1 TATTTTT-T-ATTAACATTTA
100632178 AGTGAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTTTTTATTAACATTTATA
Found at i:100635372 original size:22 final size:21
Alignment explanation
Indices: 100635337--100635394 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
100635327 AAAAGGTATC
* * *
100635337 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAAAT
100635358 TACAAAATCATATCTTCTAAAAT
1 TAC-AAATCATATC-TCTAAAAT
* *
100635381 TGCATATCATATCT
1 TACAAATCATATCT
100635395 AAGATTGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:100635388 original size:17 final size:19
Alignment explanation
Indices: 100635373--100635444 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
100635363 AATCATATCT
*
100635373 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
100635392 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
100635410 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
100635427 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
100635445 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 17 0.35
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:100635442 original size:14 final size:15
Alignment explanation
Indices: 100635387--100635442 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
100635377 AAATTGCATA
100635387 TCATATCTAAGATTG
1 TCATATCTAAGATTG
100635402 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
100635420 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
100635437 -CATATC
1 TCATATC
100635443 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:100635839 original size:45 final size:45
Alignment explanation
Indices: 100635773--100635972 Score: 240
Period size: 45 Copynumber: 4.5 Consensus size: 45
100635763 GGAAGGCGAT
* * * * *
100635773 ATCTGCTATCTTTGATTTGCTCACCGTCTAATACAGGGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
100635818 ATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
100635863 ATCTGCT-CCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
100635907 ATCTGTTATCTCCAATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
100635952 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
100635973 TCGATGTAAA
Statistics
Matches: 135, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 39 0.29
45 96 0.71
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:100635906 original size:89 final size:89
Alignment explanation
Indices: 100635790--100635956 Score: 253
Period size: 89 Copynumber: 1.9 Consensus size: 89
100635780 ATCTTTGATT
* *** *
100635790 TGCTCACCGTCTAATACAGGGACGCCAAATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCTCCCCGTCTAATACAAA
100635855 GACGCCAAATCTGCTCCTTCAATC
66 GACGCCAAATCTGCTCCTTCAATC
* * *
100635879 TGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCAATTTGCTCCCCGTCTAATACAAA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCTCCCCGTCTAATACAAA
*
100635944 GATGCCAAATCTG
66 GACGCCAAATCTG
100635957 TCATCTTGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (89 bp):
TGCTCACCGTCTAATACAGAGACGCCAAATCTGTTATCTCCAATCTGCTCCCCGTCTAATACAAA
GACGCCAAATCTGCTCCTTCAATC
Found at i:100636124 original size:78 final size:77
Alignment explanation
Indices: 100635989--100636280 Score: 406
Period size: 78 Copynumber: 3.7 Consensus size: 77
100635979 TAAACACATA
* *
100635989 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGTGATGCTAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGC-AAATCATCTTGG
100636054 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * *
100636067 AAGGTCTA-ATATGTTATGTCTTTGATCTGCTCCCCATCTAATACAGAGATGTCAAATCATCTTG
1 AAGGTC-AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTG
*
100636131 AATCTGCTTCAATG
64 GATCTGCTTCAATG
*
100636145 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGG
*
100636210 ATCTACTTCAATG
65 ATCTGCTTCAATG
* * * **
100636223 AAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATC
100636281 TATTTTTTCG
Statistics
Matches: 190, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
77 1 0.01
78 187 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (77 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCAAATCATCTTGGA
TCTGCTTCAATG
Found at i:100636484 original size:78 final size:78
Alignment explanation
Indices: 100636354--100636645 Score: 451
Period size: 78 Copynumber: 3.7 Consensus size: 78
100636344 TAAACATGTA
100636354 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
100636419 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * *
100636432 AAGGTCCA-ATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
100636496 GATCTGCTTCAATG
65 GATCTGCTTCAATG
* * * *
100636510 AAGGTCAGATCTGTTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
100636575 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * * * **
100636588 AAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
100636646 TATTTCTTCG
Statistics
Matches: 196, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
77 2 0.01
78 192 0.98
79 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (78 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATG
Found at i:100636627 original size:365 final size:365
Alignment explanation
Indices: 100635957--100636978 Score: 1767
Period size: 365 Copynumber: 2.8 Consensus size: 365
100635947 GCCAAATCTG
* * *
100635957 TCATCTTGGATCTGCTTC-GATGTAAACACATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTC
1 TCATCTTAGATCTGCTTCAG-CGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTC
* * * * *
100636021 TCCGTCTAATACAGTGATGCTAAATCATCTTGGATCTGCTTCAATGAAGGTCTAATATGTTATGT
65 CCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGT
* * * *
100636086 CTTTGATCTGCTCCCCATCTAATACAGAGATGTCAAATCATCTTGAATCTGCTTCAATGAAGGTC
130 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
*
100636151 AGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTAC
195 AGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC
100636216 TTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
260 TTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
* *
100636281 TATTTTTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAA
325 TATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
*
100636322 TCATCTTAGATCTGCTTCAGCGTAAACATGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
1 TCATCTTAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
*
100636387 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTC
66 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
* *
100636452 TTCGATTTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCA
131 TTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCA
* * *
100636517 GATCTGTTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGGATCTGCT
196 GATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
100636582 TCAATGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT
261 TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT
100636647 ATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
326 ATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
*
100636687 TCATCTTAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTTGATCTGCTCC
1 TCATCTTAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
100636752 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
66 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
* * *
100636817 TTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATTTGCTTTAATGAAGGTCA
131 TTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCA
*
100636882 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
196 GATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
100636947 TCAATGAAGGTTAGATCTGCTATGTCTTCGAT
261 TCAATGAAGGTCAGATCTGCTATGTCTTCGAT
100636979 TTGTTCTCTG
Statistics
Matches: 620, Mismatches: 36, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
365 619 1.00
366 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (365 bp):
TCATCTTAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
TTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCA
GATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT
ATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
Found at i:100636848 original size:78 final size:78
Alignment explanation
Indices: 100636719--100637026 Score: 465
Period size: 78 Copynumber: 4.0 Consensus size: 78
100636709 TAAACACGTA
*
100636719 AAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
100636784 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * *
100636797 AAGGTCAAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* *
100636862 ATTTGCTTTAATG
66 ATCTGCTTCAATG
* *
100636875 AAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
100636940 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * * * * * * *
100636953 AAGGTTAGATCTGCTATGTCTTCGATTTGTTCTCTGAC-AGTACAGAGATGCCAAATCATCTTAG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
100637017 ATCTGCTTCA
66 ATCTGCTTCA
100637027 GTGTAAACAC
Statistics
Matches: 207, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
77 34 0.16
78 173 0.84
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATG
Found at i:100636926 original size:287 final size:277
Alignment explanation
Indices: 100636081--100636932 Score: 914
Period size: 287 Copynumber: 3.0 Consensus size: 277
100636071 TCTAATATGT
* *
100636081 TATGTCTTTGATCTGCTCCCC-ATCTAATACAGAGATGTCAAATCATCTT-GAATCTGCTTCAAT
1 TATGTCTTCGATCTGCTCCCCGA-CTAATACAGAGATGCCAAATCATCTTAG-ATCTGCTTCAAT
* *
100636144 GAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
64 AAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
* * * * * *
100636209 GATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATG
129 GATCTGCTTCAATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATG
* * * * * **
100636274 CCAAATCTATTTTTTCGATTTG-TTCT-CTGACA-GTACAGAGATGCCAAATCATCTTAGATCTG
194 CCAAATC-A--TCTTGGATTTGCTT-TAATGA-AGGT-C--AGAT--CTACTTGTCTTAGATCTG
* * * * *
100636336 CT-TCAG-CGTAA-ACATGTAAAGGTCAGATCTGC
249 CTCTCCGTC-TAATACA-G-AGATGCCA-A-AT-C
* * *
100636368 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGACTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATAA
* * *
100636433 AGGTCCA-ATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTGG
66 AGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* * * *
100636497 ATCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATAC
130 ATCTGCTTCAATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGC
* * * * * *
100636562 CAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCG
195 CAAATCATCTTGGATTTGCTTTAATGAAGGTCAGATCTACT-TGTCTTAGATCTGCTCTCCGTCT
**
100636627 AATATGGAGATGCCAAATC
259 AATACAGAGATGCCAAATC
* * * * *
100636646 TATTTCTTCGATTTGTTCTCTGAC-AATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGT
1 TATGTCTTCGATCTGCTCCCCGACTAATACAGAGATGCCAAATCATCTTAGATCTGCTT---C--
*
100636710 AAACACGTAAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
61 --A-A--TAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
*
100636775 TCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATA
121 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATA
*
100636840 TAGAGATGCCAAATCATCTTGGATTTGCTTTAATGAAGGTCAGATCTACTGTGTCTTCGATCTGC
186 TAGAGATGCCAAATCATCTTGGATTTGCTTTAATGAAGGTCAGATCTACT-TGTCTTAGATCTGC
*
100636905 TCCCCGTCTAATACAGAGATGCCAAATC
250 TCTCCGTCTAATACAGAGATGCCAAATC
100636933 ATCTTGGATC
Statistics
Matches: 480, Mismatches: 64, Indels: 42
0.82 0.11 0.07
Matches are distributed among these distances:
277 33 0.07
278 19 0.04
279 1 0.00
280 4 0.01
281 16 0.03
282 10 0.02
283 2 0.00
284 11 0.02
285 8 0.02
286 3 0.01
287 370 0.77
288 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (277 bp):
TATGTCTTCGATCTGCTCCCCGACTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATAA
AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCC
AAATCATCTTGGATTTGCTTTAATGAAGGTCAGATCTACTTGTCTTAGATCTGCTCTCCGTCTAA
TACAGAGATGCCAAATC
Found at i:100637107 original size:87 final size:89
Alignment explanation
Indices: 100636999--100637160 Score: 222
Period size: 89 Copynumber: 1.8 Consensus size: 89
100636989 ACAGTACAGA
* * *
100636999 GATGCCAAATCATCTTAGATCTGCTTC-A-GTGTAAACA-CGTGAAAGCCAAATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATC-CGAAAGCCAAATCTGCTATGTCT
100637061 TCGATCTGCTCCTTGTCAACGCAAG
65 TCGATCTGCTCCTTGTCAACGCAAG
* * ** *
100637086 GATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
100637151 CGATCTGCTC
66 CGATCTGCTC
100637161 TCCGTCGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 25 0.39
88 1 0.02
89 37 0.58
90 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
CGATCTGCTCCTTGTCAACGCAAG
Found at i:100637152 original size:89 final size:88
Alignment explanation
Indices: 100636952--100637160 Score: 230
Period size: 87 Copynumber: 2.4 Consensus size: 88
100636942 CTGCTTCAAT
* * *
100636952 GAAGGTTAGATCTGCTATGTCTTCGATTTG-TTCTCTGACAGTACAGAGATGCCAAATCATCTTA
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTGACAGCACAGAGATGCCAAATCATCTTA
* * *
100637016 GATCTGCTTCAGTGTAAACACGT
66 GATCTACTTCAGTGAAAACACGC
* ** * *
100637039 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCT-TGTCAACGCA-AG-GATGCCAAATCATCT
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTGAC-A-GCACAGAGATGCCAAATCATCT
*
100637101 TGGATCTACTTCGATGTGAAAACATC-C
64 TAGATCTACTTC-A-GTGAAAACA-CGC
100637128 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
100637161 TCCGTCGAAT
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
87 53 0.53
88 7 0.07
89 39 0.39
90 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (88 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTGACAGCACAGAGATGCCAAATCATCTTA
GATCTACTTCAGTGAAAACACGC
Found at i:100645589 original size:22 final size:21
Alignment explanation
Indices: 100645554--100645648 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 21
100645544 AAAAGGTATC
* *
100645554 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
100645575 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
100645598 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
100645617 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
100645635 TGCATATCATATCT
1 TACAAATCATATCT
100645649 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
18 17 0.27
19 17 0.27
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:100645597 original size:23 final size:22
Alignment explanation
Indices: 100645554--100645611 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
100645544 AAAAGGTATC
* *
100645554 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
100645575 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
100645598 TGCATATCATATCT
1 TACAAATCATATCT
100645612 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:100645614 original size:19 final size:19
Alignment explanation
Indices: 100645590--100645663 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
100645580 AATCATATCT
100645590 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
100645609 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
100645627 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
100645646 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
100645664 TGAAGATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:100645636 original size:37 final size:38
Alignment explanation
Indices: 100645583--100645663 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 38
100645573 ATTACAAAAT
100645583 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
100645619 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
100645656 CATATCAT
1 CATATCAT
100645664 TGAAGATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 31 0.74
38 5 0.12
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:100645683 original size:37 final size:37
Alignment explanation
Indices: 100645593--100645672 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
100645583 CATATCTTCT
* *
100645593 AAGATTGCATATCATATCTAAGATTGCAATCATATCT
1 AAGATTACATATCATATCTAAGATTGCAATCATATCG
*
100645630 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTACATATCATATCTAAGATTGCA-ATCATATCG
100645666 AAGATTA
1 AAGATTA
100645673 TATTTCCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 6 0.15
37 29 0.73
38 5 0.12
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (37 bp):
AAGATTACATATCATATCTAAGATTGCAATCATATCG
Found at i:100646927 original size:38 final size:38
Alignment explanation
Indices: 100646847--100646929 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
100646837 CTACTTTTAT
** * *
100646847 TATTTTTTTAAAATTTTTAAATAATTTTATAATATTTT
1 TATTTTTACAAAAGTTTTAAATAATTTTATAATATTTC
100646885 TATTTTTACAAAAGTTTTAAATAA-TTTA-AATAACTTTC
1 TATTTTTACAAAAGTTTTAAATAATTTTATAAT-A-TTTC
100646923 TATTTTT
1 TATTTTT
100646930 TAGATTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 3 0.08
37 5 0.13
38 31 0.79
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (38 bp):
TATTTTTACAAAAGTTTTAAATAATTTTATAATATTTC
Found at i:100647740 original size:14 final size:14
Alignment explanation
Indices: 100647718--100647749 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
100647708 ACCCATTATT
*
100647718 TATATATATATAGA
1 TATAGATATATAGA
100647732 TATAGATATATAGA
1 TATAGATATATAGA
100647746 TATA
1 TATA
100647750 AAAAGCTTTT
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:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (14 bp):
TATAGATATATAGA
Found at i:100647773 original size:7 final size:8
Alignment explanation
Indices: 100647756--100647783 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
100647746 TATAAAAAGC
100647756 TTTTTCTT
1 TTTTTCTT
100647764 TTTTTCTT
1 TTTTTCTT
100647772 TTTTTCTT
1 TTTTTCTT
100647780 TTTT
1 TTTT
100647784 GTGGCATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:100648688 original size:17 final size:17
Alignment explanation
Indices: 100648648--100648690 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
100648638 TTCCTCTTCA
* *
100648648 TCCTCTATTTATTTTCT
1 TCCTCTTTTTATTTTCC
*
100648665 TCCTCTTTTTCTTTTCC
1 TCCTCTTTTTATTTTCC
100648682 TCCTCTTTT
1 TCCTCTTTT
100648691 CTCTCATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (17 bp):
TCCTCTTTTTATTTTCC
Found at i:100650279 original size:32 final size:32
Alignment explanation
Indices: 100650238--100650309 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
100650228 TCACACTGAG
100650238 CTTTATAGGTCATGCCCCTATTCTATTTCCAT
1 CTTTATAGGTCATGCCCCTATTCTATTTCCAT
*
100650270 CTTTATAGGTCATGCGCCTATTCTATTTCCAT
1 CTTTATAGGTCATGCCCCTATTCTATTTCCAT
100650302 CTTTATAG
1 CTTTATAG
100650310 ATAACCTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.44
Consensus pattern (32 bp):
CTTTATAGGTCATGCCCCTATTCTATTTCCAT
Found at i:100652019 original size:18 final size:18
Alignment explanation
Indices: 100651996--100652031 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
100651986 GATATGATAC
100651996 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
100652014 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
100652032 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:100652320 original size:22 final size:21
Alignment explanation
Indices: 100652285--100652360 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
100652275 AAAATGTATC
* * *
100652285 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
100652306 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
100652329 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
100652348 TGC-AATCATATCT
1 TACAAATCATATCT
100652361 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 9 0.20
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:100652377 original size:35 final size:37
Alignment explanation
Indices: 100652314--100652392 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
100652304 ATTACAAAAT
100652314 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
100652350 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
100652385 CATATCAT
1 CATATCAT
100652393 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:100652390 original size:14 final size:15
Alignment explanation
Indices: 100652335--100652390 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
100652325 AGATTGCATA
100652335 TCATATCTAAGATTG
1 TCATATCTAAGATTG
100652350 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
100652368 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
100652385 -CATATC
1 TCATATC
100652391 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:100652400 original size:17 final size:19
Alignment explanation
Indices: 100652321--100652392 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
100652311 AATCATATCT
100652321 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
100652340 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
100652358 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
100652375 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
100652393 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:100652867 original size:44 final size:45
Alignment explanation
Indices: 100652743--100652939 Score: 238
Period size: 45 Copynumber: 4.4 Consensus size: 45
100652733 GGAAGGCGAT
* * * *
100652743 ATCTGCTATCTTTC-ATCTCCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATC-TTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
100652788 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
* * *
100652833 ATCTACTT-T-TTCAACCTGCTCCCCATCTAATACAGAGATGCCAA
1 ATCT-GTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
* * * *
100652877 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
* *
100652922 ATCTGTCATCTTGGATCT
1 ATCTGTTATCTTCGATCT
100652940 ATTTCGATGT
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.02
44 41 0.32
45 85 0.65
46 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
Found at i:100652876 original size:89 final size:89
Alignment explanation
Indices: 100652762--100652925 Score: 274
Period size: 89 Copynumber: 1.8 Consensus size: 89
100652752 CTTTCATCTC
* * *
100652762 CTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGA
1 CTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCATCTAATACAAAGA
100652827 TGCCAAATCTACTTTTTCAACCTG
66 TGCCAAATCTACTTTTTCAACCTG
* * *
100652851 CTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGA
1 CTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCATCTAATACAAAGA
100652916 TGCCAAATCT
66 TGCCAAATCT
100652926 GTCATCTTGG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (89 bp):
CTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGCTCCCCATCTAATACAAAGA
TGCCAAATCTACTTTTTCAACCTG
Found at i:100653085 original size:78 final size:77
Alignment explanation
Indices: 100652956--100653405 Score: 598
Period size: 78 Copynumber: 5.8 Consensus size: 77
100652946 ATGTAAACAC
* * * *
100652956 ATGAAGGTCAAACCTGCTATGTCTACGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCT
*
100653021 TGGATCTGCTTCA
65 TGGATCTACTTCA
* *
100653034 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCC-GTCTAATACAGAGATGCCAAATCATC
*
100653098 TTGGATCTGCTTCA
64 TTGGATCTACTTCA
* * * **
100653112 ATGAAGGTTAGATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATTTCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCT
*
100653177 TAGATCTACTTCA
65 TGGATCTACTTCA
* * * **
100653190 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTCCATCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCGTCTAATACAGAGATGCCAAATCATCT
100653255 TGGATCTACTTCA
65 TGGATCTACTTCA
* *
100653268 ATGAAGGTCCA-ATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATC
100653332 TTGGATCTACTTCA
64 TTGGATCTACTTCA
* **
100653346 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTC-CCGTCTAATACAGAGATGCCAAAT
100653406 TTGTTTCTTC
Statistics
Matches: 328, Mismatches: 35, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
77 8 0.02
78 312 0.95
79 8 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (77 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTACTTCA
Found at i:100653242 original size:156 final size:156
Alignment explanation
Indices: 100652956--100653405 Score: 672
Period size: 156 Copynumber: 2.9 Consensus size: 156
100652946 ATGTAAACAC
* * * * *
100652956 ATGAAGGTCAAACCTGCTATGTCTACGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * * * **
100653021 TGGATCTGCTTCAATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTC-CCTGTCTAATACAGA
66 TGGATCTACTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCTCC-GTCGAATATGGA
*
100653084 GATGCCAAATCATCTTGGATCTGCTTCA
129 GATGCCAAATCATCTTGGATCTACTTCA
* * **
100653112 ATGAAGGT-TAGATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATTTCAAATCATC
1 ATGAAGGTCCA-ATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
* * *
100653176 TTAGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTCCATCGAATATGGAG
65 TTGGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAG
100653241 ATGCCAAATCATCTTGGATCTACTTCA
130 ATGCCAAATCATCTTGGATCTACTTCA
*
100653268 ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
100653333 TGGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGA
66 TGGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGA
100653398 TGCCAAAT
131 TGCCAAAT
100653406 TTGTTTCTTC
Statistics
Matches: 264, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
155 3 0.01
156 258 0.98
157 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (156 bp):
ATGAAGGTCCAATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGA
TGCCAAATCATCTTGGATCTACTTCA
Found at i:100653378 original size:234 final size:234
Alignment explanation
Indices: 100652956--100653391 Score: 701
Period size: 234 Copynumber: 1.9 Consensus size: 234
100652946 ATGTAAACAC
* * *
100652956 ATGAAGGTCAAACCTGCTATGTCTACGATCTGCTCCCCTTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAAACCTGCTATGTCTACGATCTACTCCCCATCGAATACAGAGATGCCAAATCATCT
* * *
100653021 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCTGTCTAATACAGAGA
66 TGGATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
* * * *
100653086 TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTTAGATCTGCTGTGTCTTTGATCTGCTCCCCG
131 TGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCG
*
100653151 TCTAATACAGAGATTTCAAATCATCTTAGATCTACTTCA
196 TCGAATACAGAGATTTCAAATCATCTTAGATCTACTTCA
* * * * **
100653190 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTCCATCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAAACCTGCTATGTCTACGATCTACTCCCCATCGAATACAGAGATGCCAAATCATCT
*
100653255 TGGATCTACTTCAATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
66 TGGATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
*
100653320 TGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCG
131 TGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCG
100653385 TCGAATA
196 TCGAATA
100653392 TGGAGATGCC
Statistics
Matches: 183, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
234 183 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (234 bp):
ATGAAGGTCAAACCTGCTATGTCTACGATCTACTCCCCATCGAATACAGAGATGCCAAATCATCT
TGGATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
TGCCAAATCATCTTGGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCG
TCGAATACAGAGATTTCAAATCATCTTAGATCTACTTCA
Found at i:100653747 original size:220 final size:220
Alignment explanation
Indices: 100653348--100653937 Score: 993
Period size: 220 Copynumber: 2.7 Consensus size: 220
100653338 CTACTTCAAT
* *
100653348 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATTTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
*
100653413 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAAACATCTTAGATCTGCTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
* * *
100653478 TGAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTATAAATGCAAGGATGCCAAATCATCTTG
131 TGAAAGGCAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTG
100653543 GATCTACTTCGATGTGAAAACATCC
196 GATCTACTTCGATGTGAAAACATCC
* *
100653568 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCAAATATGAAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
*
100653633 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
* *
100653698 TGAAAGGCAAATCTGCTATGTCTTCGATCTACTCCTTGTCAACGCAAGGATGCCAAATCATCTTG
131 TGAAAGGCAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTG
*
100653763 GATCTACTTTGATGTGAAAACATCC
196 GATCTACTTCGATGTGAAAACATCC
100653788 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * ** * * *
100653853 TTCGATTTGTTCTTTGACAATACAGAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACC
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
100653918 TG-AAGGTCAAATCTGCTATG
131 TGAAAGG-CAAATCTGCTATG
100653938 CTTTAGCCTG
Statistics
Matches: 347, Mismatches: 22, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
219 4 0.01
220 343 0.99
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (220 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
TGAAAGGCAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTG
GATCTACTTCGATGTGAAAACATCC
Found at i:100654872 original size:7 final size:8
Alignment explanation
Indices: 100654857--100654889 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
100654847 TTGGCCTCTC
100654857 TATTTTTT
1 TATTTTTT
100654865 TATTTTTTT
1 TA-TTTTTT
100654874 TATTTTTT
1 TATTTTTT
100654882 TATTTTTT
1 TATTTTTT
100654890 GAAAACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:100654873 original size:9 final size:9
Alignment explanation
Indices: 100654859--100654889 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
100654849 GGCCTCTCTA
100654859 TTTTTTTAT
1 TTTTTTTAT
100654868 TTTTTTTA-
1 TTTTTTTAT
100654876 TTTTTTTAT
1 TTTTTTTAT
100654885 TTTTT
1 TTTTT
100654890 GAAAACTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:100654879 original size:17 final size:17
Alignment explanation
Indices: 100654857--100654889 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
100654847 TTGGCCTCTC
100654857 TATTTTTTTATTTTTTT
1 TATTTTTTTATTTTTTT
100654874 TATTTTTTTATTTTTT
1 TATTTTTTTATTTTTT
100654890 GAAAACTCAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (17 bp):
TATTTTTTTATTTTTTT
Found at i:100660113 original size:17 final size:18
Alignment explanation
Indices: 100660091--100660125 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
100660081 GATATGATAC
*
100660091 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
100660108 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
100660126 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:100660414 original size:22 final size:22
Alignment explanation
Indices: 100660379--100660436 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
100660369 AAAAGGTATC
* *
100660379 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
100660400 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
100660423 TGCATATCATATCT
1 TACAAATCATATCT
100660437 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:100660471 original size:35 final size:37
Alignment explanation
Indices: 100660415--100660505 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
100660405 AATCATATCT
*
100660415 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATACCATA
100660452 TCTAAGATTG-TATCATATCTAAGATTGCATACCATA
1 TCTAAGATTGATATCATATCTAAGATTGCATACCATA
100660488 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
100660506 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATACCATA
Found at i:100660513 original size:17 final size:19
Alignment explanation
Indices: 100660415--100660505 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
100660405 AATCATATCT
100660415 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
100660434 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
100660452 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
100660469 TCTAAGATTGCATACCATA
1 TCTAAGATTGCATATCATA
100660488 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
100660506 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:100661151 original size:21 final size:21
Alignment explanation
Indices: 100661121--100661173 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
100661111 TCGAATCTTC
*
100661121 GACGTTGCAACATCCTTCCAT
1 GACGTCGCAACATCCTTCCAT
*
100661142 GACGTCGCAACATCTTTCCAT
1 GACGTCGCAACATCCTTCCAT
100661163 GACGTCGCAAC
1 GACGTCGCAAC
100661174 CTTACATGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.25
Consensus pattern (21 bp):
GACGTCGCAACATCCTTCCAT
Found at i:100670735 original size:13 final size:13
Alignment explanation
Indices: 100670717--100670761 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
100670707 ATTTGCTTTC
100670717 AATTAAAATTATA
1 AATTAAAATTATA
*
100670730 AATTAAAA-AATA
1 AATTAAAATTATA
* *
100670742 ATTTAAAATTATC
1 AATTAAAATTATA
100670755 AATTAAA
1 AATTAAA
100670762 TTTTATTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:100671234 original size:20 final size:21
Alignment explanation
Indices: 100671194--100671245 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
100671184 AGCGCGGTTT
*
100671194 TTAATAA-TTTTTTATTTTTC
1 TTAATAATTTTTTTATTATTC
100671214 TTAATAATTTTTTTA-TATTC
1 TTAATAATTTTTTTATTATTC
*
100671234 TT-ATTATTTTTT
1 TTAATAATTTTTT
100671246 AAATAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 9 0.31
20 13 0.45
21 7 0.24
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
TTAATAATTTTTTTATTATTC
Found at i:100671260 original size:19 final size:19
Alignment explanation
Indices: 100671238--100671277 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
100671228 ATATTCTTAT
100671238 TATTTTT-TAAATAATTTTA
1 TATTTTTCTAAA-AATTTTA
*
100671257 TATTTTTCTATAAATTTTA
1 TATTTTTCTAAAAATTTTA
100671276 TA
1 TA
100671278 ATAGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTTCTAAAAATTTTA
Found at i:100687612 original size:33 final size:33
Alignment explanation
Indices: 100687575--100687665 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
100687565 CTCTGTTTCA
*
100687575 GGTTGCTGGACAGGAGCTGGGATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
100687608 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
100687641 GGTTACTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
100687666 CAAGAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.19, C:0.10, G:0.42, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:100695232 original size:19 final size:20
Alignment explanation
Indices: 100695180--100695233 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
100695170 ATAAGAATCA
100695180 TAAAAA-ATTATAAAATATAT
1 TAAAAATATTA-AAAATATAT
**
100695200 TAAAAATAAAAAAAATAT-T
1 TAAAAATATTAAAAATATAT
*
100695219 TAAACATATTAAAAA
1 TAAAAATATTAAAAA
100695234 CCATTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.46
20 13 0.46
21 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAATATTAAAAATATAT
Found at i:100696255 original size:43 final size:43
Alignment explanation
Indices: 100696196--100696281 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
100696186 ATGCGTCGTA
100696196 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
1 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
100696239 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
1 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
100696282 CCTTTGAGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (43 bp):
ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
Found at i:100697576 original size:23 final size:20
Alignment explanation
Indices: 100697550--100697597 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 20
100697540 CTATTTTAGA
100697550 TTATAGTAATAATTTACTATATT
1 TTATAGTAATAA-TTA-TA-ATT
* *
100697573 TTATATTATTAATTATAATT
1 TTATAGTAATAATTATAATT
100697593 TTATA
1 TTATA
100697598 ATTATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
22 3 0.13
23 10 0.43
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATAGTAATAATTATAATT
Found at i:100699833 original size:21 final size:23
Alignment explanation
Indices: 100699791--100699834 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
100699781 TATTAATCAC
* *
100699791 TTATATTTTATTTAGTTTATTTT
1 TTATATTTTATTCAGTTAATTTT
100699814 TTAT-TTTTATTCAG-TAATTTT
1 TTATATTTTATTCAGTTAATTTT
100699835 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (23 bp):
TTATATTTTATTCAGTTAATTTT
Found at i:100709510 original size:16 final size:16
Alignment explanation
Indices: 100709486--100709522 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
100709476 AAATTTTCAA
*
100709486 TTCATTTAAATTATTT
1 TTCAATTAAATTATTT
100709502 TTCAATTAAATTATTT
1 TTCAATTAAATTATTT
100709518 TTCAA
1 TTCAA
100709523 AATTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (16 bp):
TTCAATTAAATTATTT
Found at i:100717957 original size:21 final size:21
Alignment explanation
Indices: 100717931--100717983 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
100717921 ACCAGGTCTT
100717931 GGAGGTGGAGCAGCATACTGC
1 GGAGGTGGAGCAGCATACTGC
* *
100717952 GGAGGTGGAGCAGCATATTGT
1 GGAGGTGGAGCAGCATACTGC
100717973 GGAGGTGGAGC
1 GGAGGTGGAGC
100717984 CATGACTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.13, G:0.47, T:0.17
Consensus pattern (21 bp):
GGAGGTGGAGCAGCATACTGC
Found at i:100725994 original size:3 final size:3
Alignment explanation
Indices: 100725986--100726214 Score: 232
Period size: 3 Copynumber: 76.7 Consensus size: 3
100725976 TTAATTCATT
* * * *
100725986 TTA TTA TTA TT- TTA CTA TTA TTTA TTA TCA TCA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
100726031 TTA TTA TT- TTT TTA CTA TTA CTA TTA TTT TCTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * *
100726076 TAA TTA CTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
100726123 TTG CTA TTA TTA TTA TTA TTG TTA TTA TTA CTA TTA CGA TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
100726168 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
100726215 TTTTAAACCA
Statistics
Matches: 185, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
2 7 0.04
3 172 0.93
4 6 0.03
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:100726357 original size:23 final size:23
Alignment explanation
Indices: 100726327--100726387 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
100726317 TATTCCGTTA
100726327 TTTTATTTATTTATTTATT-TCAT
1 TTTTATTTATTTATTT-TTCTCAT
100726350 TTTTATTTTATTT-TTTTTCTCAT
1 TTTTA-TTTATTTATTTTTCTCAT
*
100726373 TATTA-TTATCTTATT
1 TTTTATTTAT-TTATT
100726388 ATATATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 18 0.55
24 7 0.21
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTATTTATTTATTTTTCTCAT
Found at i:100730636 original size:12 final size:12
Alignment explanation
Indices: 100730594--100730645 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
100730584 AATTGAAAAG
*
100730594 TTTTAATTTAAT
1 TTTTATTTTAAT
*
100730606 TTAATTTTTTTAAT
1 TT--TTATTTTAAT
* *
100730620 ATTTATTTTTAT
1 TTTTATTTTAAT
100730632 TTTTATTTTAAT
1 TTTTATTTTAAT
100730644 TT
1 TT
100730646 AAAAGTATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
12 22 0.71
14 9 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTTTAAT
Found at i:100745368 original size:12 final size:12
Alignment explanation
Indices: 100745351--100745380 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
100745341 ATTTATCAAG
100745351 ATAAATATTAGA
1 ATAAATATTAGA
100745363 ATAAATATTAGA
1 ATAAATATTAGA
*
100745375 TTAAAT
1 ATAAAT
100745381 TTAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
ATAAATATTAGA
Found at i:100745478 original size:20 final size:19
Alignment explanation
Indices: 100745428--100745479 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
100745418 CTACAAGATA
100745428 AATATTAAATT-A-ACTTT
1 AATATTAAATTAATACTTT
100745445 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-ACTTT
100745465 AATATTAAATTAATA
1 AATATTAAATTAATA
100745480 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.30
18 2 0.07
19 2 0.07
20 17 0.57
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTAAATTAATACTTT
Found at i:100747168 original size:16 final size:16
Alignment explanation
Indices: 100747147--100747177 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100747137 CTATGCATGC
*
100747147 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
100747163 AAAATACAAAAGACA
1 AAAATACAAAAGACA
100747178 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:100754266 original size:16 final size:17
Alignment explanation
Indices: 100754235--100754267 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100754225 TCTTTTTTTC
*
100754235 ATTATTTTTTCATTTAT
1 ATTATTTTCTCATTTAT
100754252 ATTATTTTCTC-TTTAT
1 ATTATTTTCTCATTTAT
100754268 TTTTTCTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTATTTTCTCATTTAT
Found at i:100755580 original size:2 final size:2
Alignment explanation
Indices: 100755573--100755597 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
100755563 TAATTCCACC
100755573 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
100755598 ATTTTCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100761041 original size:27 final size:27
Alignment explanation
Indices: 100761003--100761056 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
100760993 AACATAAAGC
100761003 AATACTATGATAAAAGTTCCACTATCA
1 AATACTATGATAAAAGTTCCACTATCA
*
100761030 AATACTATGATAAAATTTCCACTATCA
1 AATACTATGATAAAAGTTCCACTATCA
100761057 TAACTTCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (27 bp):
AATACTATGATAAAAGTTCCACTATCA
Found at i:100765240 original size:227 final size:227
Alignment explanation
Indices: 100764845--100765279 Score: 809
Period size: 227 Copynumber: 1.9 Consensus size: 227
100764835 AGAATTTTAT
100764845 GATTTGTTAAGATTAGTCCATGATTGTTTCACGACCTATTTTTAGTGTTAAATTTATTCAATTAA
1 GATTTGTTAAGATTAGTCCATGATTGTTTCACGACCTATTTTTAGTGTTAAATTTATTCAATTAA
*
100764910 TCCATTATCTAAATGACTGAAATAATATTATACTTATATATATTTTTATGAATTGTGAATAAATA
66 TCCATTATCTAAATGACTGAAATAATATTATACTTATATATATTTGTATGAATTGTGAATAAATA
*
100764975 TGTTTAATGTATCGTATTTGTGATTGTTCGTATAACATACTTTATGATA-CAGCTAAATTGGATC
131 TGTTTAATGTATCGTATTTGTGATTGTTCGTATAACATACTTTATGATATC-GCTAAATTAGATC
*
100765039 CTTTGGAAAACATATGTGTTAGGCTACCGTATC
195 CTTTAGAAAACATATGTGTTAGGCTACCGTATC
*
100765072 GATTTGTTTAGATTAGTCCATGATTGTTTCACGACCTATTTTTAGTGTTAAATTTATTCAATTAA
1 GATTTGTTAAGATTAGTCCATGATTGTTTCACGACCTATTTTTAGTGTTAAATTTATTCAATTAA
100765137 TCCATTATCTAAATGACTGAAATAATATTATACTTATATATATTTGTATGAATTGTGAATAAATA
66 TCCATTATCTAAATGACTGAAATAATATTATACTTATATATATTTGTATGAATTGTGAATAAATA
100765202 TGTTTAATGTATCGTATTTGTGATTGTTCGTATAACATACTTTATGATATCGCTAAATTAGATCC
131 TGTTTAATGTATCGTATTTGTGATTGTTCGTATAACATACTTTATGATATCGCTAAATTAGATCC
*
100765267 TTTAGAAAGCATA
196 TTTAGAAAACATA
100765280 ATTATTGCTG
Statistics
Matches: 202, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
227 201 1.00
228 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.43
Consensus pattern (227 bp):
GATTTGTTAAGATTAGTCCATGATTGTTTCACGACCTATTTTTAGTGTTAAATTTATTCAATTAA
TCCATTATCTAAATGACTGAAATAATATTATACTTATATATATTTGTATGAATTGTGAATAAATA
TGTTTAATGTATCGTATTTGTGATTGTTCGTATAACATACTTTATGATATCGCTAAATTAGATCC
TTTAGAAAACATATGTGTTAGGCTACCGTATC
Found at i:100766535 original size:22 final size:23
Alignment explanation
Indices: 100766476--100766526 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
100766466 TAACTCGGGT
100766476 GTTTTTTTATGAAAACTTGTCAA
1 GTTTTTTTATGAAAACTTGTCAA
*
100766499 GTTTTTTTATGAAAACTTGTTAA
1 GTTTTTTTATGAAAACTTGTCAA
100766522 GTTTT
1 GTTTT
100766527 CTTTTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.06, G:0.14, T:0.53
Consensus pattern (23 bp):
GTTTTTTTATGAAAACTTGTCAA
Found at i:100767530 original size:24 final size:24
Alignment explanation
Indices: 100767485--100767531 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
100767475 AGTATGGTGT
*
100767485 TGGAAATATATACATGGGATAATA
1 TGGAAATATATACATAGGATAATA
* *
100767509 TGGAAATATGTACATAGTATAAT
1 TGGAAATATATACATAGGATAAT
100767532 GTTAAGAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (24 bp):
TGGAAATATATACATAGGATAATA
Found at i:100767993 original size:24 final size:23
Alignment explanation
Indices: 100767939--100767995 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
100767929 AAACAGTAAA
*
100767939 AGAAATATATTAACAAATAATAT
1 AGAAATATATTAACAAATAACAT
100767962 A-AAGATATATATATA-AAATAACAT
1 AGAA-ATATAT-TA-ACAAATAACAT
100767986 AGAAATATAT
1 AGAAATATAT
100767996 GAATAGTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 2 0.07
23 7 0.24
24 17 0.59
25 3 0.10
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (23 bp):
AGAAATATATTAACAAATAACAT
Found at i:100768905 original size:23 final size:23
Alignment explanation
Indices: 100768875--100768921 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
100768865 AAAAAGAAAA
*
100768875 AAAAGAGAGAAGGGAGAAGGGAG
1 AAAAGAGAGAAGGGAGAAAGGAG
*
100768898 AAAAGAGAGAGGGGAGAAAGGAG
1 AAAAGAGAGAAGGGAGAAAGGAG
100768921 A
1 A
100768922 GAGGAATTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (23 bp):
AAAAGAGAGAAGGGAGAAAGGAG
Found at i:100768924 original size:16 final size:16
Alignment explanation
Indices: 100768879--100768925 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
100768869 AGAAAAAAAA
*
100768879 GAGAGAAGG-GAGAAGG
1 GAGA-AAGGAGAGAGGG
*
100768895 GAGAAAAGAGAGAGGG
1 GAGAAAGGAGAGAGGG
100768911 GAGAAAGGAGAGAGG
1 GAGAAAGGAGAGAGG
100768926 AATTCCGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 3 0.11
16 24 0.89
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (16 bp):
GAGAAAGGAGAGAGGG
Found at i:100770529 original size:89 final size:88
Alignment explanation
Indices: 100770259--100770580 Score: 378
Period size: 89 Copynumber: 3.6 Consensus size: 88
100770249 TGAACTCACA
* * * * *
100770259 GCTCAACTCACCTCTCGCAATATGAGTTTATCTTTGAAAAATATAAATTGAAAAAAACAAAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-GAAAAACAAAAATT
*
100770324 GAAAATACCTTAGCATGTGAGCC-GAG
65 GAAAATACCTCAGCATGT---CCTGAG
* * *** *
100770350 GCTCAACTCACCTCTAGCAATATGAGTTGGTTTTTTTTTTGAAAAGTGGAAATT-GAAAAACAGA
1 GCTCAACTCACCTCTCGCAATATGAGTT-G----ATTTTTGAAAAACAGAAATTGGAAAAACAAA
* *
100770414 AATTGAAAATACCTCAGCGTGCCCTGAG
61 AATTGAAAATACCTCAGCATGTCCTGAG
* *
100770442 GCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAACATAAATTGGAGAAAACAAAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGGA-AAAACAAAAATT
*
100770507 GAAATTACCTCAGCATGTCCTGAG
65 GAAAATACCTCAGCATGTCCTGAG
*
100770531 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG
100770581 AAATTACCTC
Statistics
Matches: 197, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
87 15 0.08
88 2 0.01
89 79 0.40
91 30 0.15
92 29 0.15
94 27 0.14
96 15 0.08
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (88 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGGAAAAACAAAAATTG
AAAATACCTCAGCATGTCCTGAG
Found at i:100770613 original size:73 final size:74
Alignment explanation
Indices: 100770495--100770809 Score: 452
Period size: 74 Copynumber: 4.2 Consensus size: 74
100770485 TAAATTGGAG
* * *
100770495 AAAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
100770560 A-TTTTTGA
66 ATTTTTTGA
100770568 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
100770633 ATTTTTTGA
66 ATTTTTTGA
* * * * * *
100770642 ATAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
100770707 ATTTTTTTTTTGA
66 A----TTTTTTGA
* * * *
100770720 CAAACATAAATTGAAATCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
100770785 ATTTTTTGG
66 ATTTTTTGA
*
100770794 AAAGCAGAAATTGAAA
1 AAAACAGAAATTGAAA
100770810 AGCAGAAATT
Statistics
Matches: 214, Mismatches: 23, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
73 63 0.29
74 87 0.41
78 64 0.30
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (74 bp):
AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGA
Found at i:100770813 original size:14 final size:14
Alignment explanation
Indices: 100770794--100770824 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
100770784 GATTTTTTGG
100770794 AAAGCAGAAATTGA
1 AAAGCAGAAATTGA
100770808 AAAGCAGAAATTGA
1 AAAGCAGAAATTGA
100770822 AAA
1 AAA
100770825 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.19, T:0.13
Consensus pattern (14 bp):
AAAGCAGAAATTGA
Found at i:100770876 original size:88 final size:87
Alignment explanation
Indices: 100770727--100770897 Score: 265
Period size: 88 Copynumber: 2.0 Consensus size: 87
100770717 TGACAAACAT
* *
100770727 AAATTGAAATCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
1 AAATTGAAATCACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGA-TTTTT
100770792 GGAAAG-CAGAAATTGAAAAGCAG
65 -GAAAGACAGAAATTGAAAAGCAG
*
100770815 AAATTGAAAAT-ACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AAATTG-AAATCACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTT
*
100770879 GAAAGACATAAATTGAAAA
65 GAAAGACAGAAATTGAAAA
100770898 TGCCTCAGCG
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
86 5 0.06
87 17 0.22
88 51 0.66
89 4 0.05
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (87 bp):
AAATTGAAATCACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTG
AAAGACAGAAATTGAAAAGCAG
Found at i:100783369 original size:24 final size:24
Alignment explanation
Indices: 100783324--100783370 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
100783314 AGTATGGTGT
*
100783324 TGGAAATATATACATGGGATAATA
1 TGGAAATATATACATAGGATAATA
* *
100783348 TGGAAATATGTACATAGTATAAT
1 TGGAAATATATACATAGGATAAT
100783371 GTTAAGAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (24 bp):
TGGAAATATATACATAGGATAATA
Found at i:100783526 original size:22 final size:22
Alignment explanation
Indices: 100783474--100783526 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
100783464 CGCACACAAA
* *
100783474 AATACAATACTAAAAAATACAT
1 AATATAATACTAAAAAAAACAT
*
100783496 ATATGTAATA-TAAAAAAAAGCAT
1 A-ATATAATACTAAAAAAAA-CAT
100783519 AATATAAT
1 AATATAAT
100783527 GTTTAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.26
Consensus pattern (22 bp):
AATATAATACTAAAAAAAACAT
Found at i:100784746 original size:16 final size:16
Alignment explanation
Indices: 100784727--100784772 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
100784717 AAGAAAAAAA
100784727 AAAAGAGAGAAGGGAG
1 AAAAGAGAGAAGGGAG
*
100784743 AAAAGAGAGATGGGAG
1 AAAAGAGAGAAGGGAG
*
100784759 AAAGGAGAG-AGGGA
1 AAAAGAGAGAAGGGA
100784773 TTCCGGCCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.02
Consensus pattern (16 bp):
AAAAGAGAGAAGGGAG
Found at i:100786693 original size:18 final size:18
Alignment explanation
Indices: 100786657--100786699 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
100786647 AACAAAATAA
* *
100786657 TTTTAATAATTTTTTTAT
1 TTTTAATAATTTATATAT
100786675 TTTTAATAATTTATATAT
1 TTTTAATAATTTATATAT
*
100786693 TTCTAAT
1 TTTTAAT
100786700 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAATAATTTATATAT
Found at i:100791312 original size:18 final size:18
Alignment explanation
Indices: 100791289--100791323 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
100791279 ACCAAATATT
*
100791289 TATTTTAATTTTTTTATA
1 TATTTTAATTTTATTATA
100791307 TATTTTAATTTTATTAT
1 TATTTTAATTTTATTAT
100791324 GCGCATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTAATTTTATTATA
Found at i:100793442 original size:4 final size:4
Alignment explanation
Indices: 100793433--100793469 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
100793423 AAAGAATACC
*
100793433 TTTA TTTA TTTA TTTA TTT- TTTA GTTA -TTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
100793470 GTAGTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
3 6 0.20
4 24 0.80
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:100798764 original size:46 final size:46
Alignment explanation
Indices: 100798712--100798979 Score: 367
Period size: 46 Copynumber: 5.8 Consensus size: 46
100798702 AGTGTGCTCT
* *
100798712 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100798758 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
100798804 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
100798850 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
100798896 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
100798943 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
100798980 TATGACATCG
Statistics
Matches: 205, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 163 0.80
47 42 0.20
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:100802496 original size:3 final size:3
Alignment explanation
Indices: 100802490--100802519 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
100802480 TTTTTTAAAA
100802490 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
100802520 CGATTAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:100804385 original size:10 final size:10
Alignment explanation
Indices: 100804347--100804398 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
100804337 GATTAAAAAA
*
100804347 ATATAAAAAT
1 ATATATAAAT
*
100804357 ATGATATATAT
1 AT-ATATAAAT
100804368 ATATATAAAT
1 ATATATAAAT
*
100804378 ATATATAATT
1 ATATATAAAT
100804388 GA-ATATAAAT
1 -ATATATAAAT
100804398 A
1 A
100804399 CATCAATTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.03
10 25 0.71
11 9 0.26
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (10 bp):
ATATATAAAT
Found at i:100812247 original size:43 final size:43
Alignment explanation
Indices: 100812192--100812413 Score: 317
Period size: 43 Copynumber: 5.2 Consensus size: 43
100812182 GGTTCCTACA
*
100812192 TTATATACTTCAAATTATTATATCTTGTTTATTTTGAAATTAT
1 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
*
100812235 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAC
1 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
* *
100812278 TTATATACTTCAAACTATTATATCTTATTTCTTTTGAAATTAT
1 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
* *
100812321 TTATATACTTTAAACTT-TTATATATTATTTATTTTGAAATTAT
1 TTATATACTTCAAA-TTATTATATCTTATTTATTTTGAAATTAT
* *
100812364 TTATATACTTTAAACTT-TTATA-CATTATTTATTTTG-GATTAT
1 TTATATACTTCAAA-TTATTATATC-TTATTTATTTTGAAATTAT
100812406 TTATATAC
1 TTATATAC
100812414 ATATGTTTTT
Statistics
Matches: 166, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
42 13 0.08
43 152 0.92
44 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.55
Consensus pattern (43 bp):
TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
Found at i:100812529 original size:26 final size:26
Alignment explanation
Indices: 100812491--100812575 Score: 86
Period size: 24 Copynumber: 3.4 Consensus size: 26
100812481 TTCTAATTAT
* *
100812491 TTTTATACGTTATTTATGTTAAACCA
1 TTTTATATGTTATTTATGTTATACCA
* * **
100812517 TTTTATATATTATCTAT-TT-TACGT
1 TTTTATATGTTATTTATGTTATACCA
*
100812541 TTTTATATGTTATTT-TGTTATACTA
1 TTTTATATGTTATTTATGTTATACCA
100812566 TTTTATATGT
1 TTTTATATGT
100812576 GAATAATTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.02
24 17 0.36
25 15 0.32
26 14 0.30
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (26 bp):
TTTTATATGTTATTTATGTTATACCA
Found at i:100812585 original size:49 final size:50
Alignment explanation
Indices: 100812490--100812586 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 50
100812480 ATTCTAATTA
* *
100812490 TTTTTATACGTTATTTATGTTAAACCATTTTATATATTATCTATTTTACG
1 TTTTTATACGTTATTTATGTTAAACCATTTTATATATAATCAATTTTACG
* * * *
100812540 TTTTTATATGTTATTT-TGTTATACTATTTTATATGTGAAT-AATTTTA
1 TTTTTATACGTTATTTATGTTAAACCATTTTATATAT-AATCAATTTTA
100812587 AATTCTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
49 23 0.57
50 17 0.43
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (50 bp):
TTTTTATACGTTATTTATGTTAAACCATTTTATATATAATCAATTTTACG
Found at i:100815081 original size:2 final size:2
Alignment explanation
Indices: 100815074--100815099 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
100815064 ATACTCATTT
100815074 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
100815100 ATGATTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100815729 original size:131 final size:131
Alignment explanation
Indices: 100815487--100815769 Score: 372
Period size: 131 Copynumber: 2.2 Consensus size: 131
100815477 GTATTCATTC
* * * **
100815487 AAAAATTCTTCAAAACGAAGATGAGATTCGATGTTTTGTGATTCGAGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGGAATCGTGCCCTAACGTG
* * * *
100815552 TTGGGTTGCAATTTCGTATTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTT
66 TTGGGTTGCAATTTCG-ATCTGCTCAAAATAATCGAATACCACTTCAAAATTCCACTCATATCTT
100815617 -T
130 CT
* * *
100815618 TAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGTGGAATTGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGGAATCGTGCCCTAACGTG
* * *
100815683 TTGGTTTGCAATTTTACG-TCTGCTTAAAATAATCGAATACCCCTTCAAAATTCCACTCATATCT
66 TTGGGTTGCAA-TTT-CGATCTGCTCAAAATAATCGAATACCACTTCAAAATTCCACTCATATCT
100815747 TCT
129 TCT
* *
100815750 AAAAATTATTTAAAACGAAG
1 AAAAATTCTTCAAAACGAAG
100815770 GTAACATTTG
Statistics
Matches: 131, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
131 108 0.82
132 21 0.16
133 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (131 bp):
AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGAGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGATCTGCTCAAAATAATCGAATACCACTTCAAAATTCCACTCATATCTTC
T
Found at i:100815806 original size:131 final size:129
Alignment explanation
Indices: 100815527--100815808 Score: 298
Period size: 131 Copynumber: 2.1 Consensus size: 129
100815517 ATGTTTTGTG
* *
100815527 ATTCGAGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTATTTGCTCAAAATAATCGAATAT
1 ATTCGA-GAATCGTGCCCTAACGTGTTGGGTTGCAATTTCG-ATCTGCTCAAAATAATCGAATAC
* * * * * * *
100815592 CACTTCAAAATTTCACTCATGTCTTTTAAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGC
64 CACTTCAAAATTCCACTCATATCTTTAAAAATTATTCAAAACGAAGACAACATTCGACATTTAGC
100815657 A
129 A
* * * *
100815658 ATTCGTGGAATTGTGCCCTAACGTGTTGGTTTGCAATTTTACG-TCTGCTTAAAATAATCGAATA
1 ATTCG-AGAATCGTGCCCTAACGTGTTGGGTTGCAA-TTT-CGATCTGCTCAAAATAATCGAATA
* * ** * * *
100815722 CCCCTTCAAAATTCCACTCATATCTTCTAAAAATTATTTAAAACGAAGGTAACATTTGGCGTTT-
63 CCACTTCAAAATTCCACTCATATCTT-TAAAAATTATTCAAAACGAAGACAACATTCGACATTTA
100815786 GACA
127 G-CA
*
100815790 ATTCGAGAATCATGCCCTA
1 ATTCGAGAATCGTGCCCTA
100815809 TTGTGCTGGG
Statistics
Matches: 123, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
131 85 0.69
132 36 0.29
133 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (129 bp):
ATTCGAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGATCTGCTCAAAATAATCGAATACCA
CTTCAAAATTCCACTCATATCTTTAAAAATTATTCAAAACGAAGACAACATTCGACATTTAGCA
Found at i:100826279 original size:45 final size:45
Alignment explanation
Indices: 100826215--100826304 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
100826205 ATGATTTAAT
100826215 CAAAAGCTGCTTGTTTCGGACAAAGATAGATTGCTTTAAAAACTG
1 CAAAAGCTGCTTGTTTCGGACAAAGATAGATTGCTTTAAAAACTG
100826260 CAAAAGCTGCTTGTTTCGGACAAAGATAGATTGCTTTAAAAACTG
1 CAAAAGCTGCTTGTTTCGGACAAAGATAGATTGCTTTAAAAACTG
100826305 ATTTAGGATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (45 bp):
CAAAAGCTGCTTGTTTCGGACAAAGATAGATTGCTTTAAAAACTG
Found at i:100827827 original size:4 final size:4
Alignment explanation
Indices: 100827818--100827852 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
100827808 TTCAAACTTC
100827818 AATT AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
100827853 TAAAAAACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:100841014 original size:26 final size:26
Alignment explanation
Indices: 100840978--100841061 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
100840968 CATGAAATTC
100840978 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100841004 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100841030 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100841056 TTATCA
1 TTATCA
100841062 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100841924 original size:22 final size:22
Alignment explanation
Indices: 100841899--100841950 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
100841889 AATGTTTTTG
* * * *
100841899 TGTCTCGAGACATTGGGGTTTA
1 TGTCTCAAAACATTGAGCTTTA
100841921 TGTCTCAAAACATTGAGCTTTA
1 TGTCTCAAAACATTGAGCTTTA
100841943 TGTCTCAA
1 TGTCTCAA
100841951 CTCGAGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (22 bp):
TGTCTCAAAACATTGAGCTTTA
Found at i:100849973 original size:28 final size:28
Alignment explanation
Indices: 100849941--100849994 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
100849931 TTAATTGTCT
*
100849941 ATTTAATTATAAATTA-TTATATAATAAA
1 ATTTAATT-TAAACTATTTATATAATAAA
*
100849969 ATTTAATTTAAACTATTTTTATAATA
1 ATTTAATTTAAACTATTTATATAATA
100849995 GTTAAATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTAATTTAAACTATTTATATAATAAA
Found at i:100852914 original size:13 final size:13
Alignment explanation
Indices: 100852896--100852939 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
100852886 ATGCTTGTAT
100852896 TTATTATTAATAA
1 TTATTATTAATAA
*
100852909 TTATTATTTATAAA
1 TTATTATTAAT-AA
*
100852923 TTTATTATTAAAAA
1 -TTATTATTAATAA
100852937 TTA
1 TTA
100852940 AATAAAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 13 0.50
14 4 0.15
15 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTATTAATAA
Found at i:100853051 original size:21 final size:21
Alignment explanation
Indices: 100853027--100853070 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
100853017 ATATTTACTT
100853027 ATTATATAAGTA-TATTATTAA
1 ATTATAT-AGTATTATTATTAA
*
100853048 ATTATATATTATTATTATTAA
1 ATTATATAGTATTATTATTAA
100853069 AT
1 AT
100853071 AAAAGATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTATATAGTATTATTATTAA
Found at i:100853307 original size:19 final size:19
Alignment explanation
Indices: 100853276--100853316 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
100853266 AAAAGCAGGG
100853276 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGA-A
100853296 AAAGAAAG-AAGAAAGGAA
1 AAAGAAAGAAAGAAAGGAA
100853314 AAA
1 AAA
100853317 TTGAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAGAAAGGAA
Found at i:100855447 original size:20 final size:20
Alignment explanation
Indices: 100855422--100855468 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
100855412 GGGTTGAGGA
100855422 CACGGGCGTGTCCCATGCCG
1 CACGGGCGTGTCCCATGCCG
*
100855442 CACGGGCGTGTCCTATGCCG
1 CACGGGCGTGTCCCATGCCG
*
100855462 TACGGGC
1 CACGGGC
100855469 ATGTTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.36, G:0.36, T:0.17
Consensus pattern (20 bp):
CACGGGCGTGTCCCATGCCG
Found at i:100855877 original size:23 final size:23
Alignment explanation
Indices: 100855842--100855885 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
100855832 TTTAGGCAAT
100855842 AGAAGAAGAAGAAGAGAAAAAGA
1 AGAAGAAGAAGAAGAGAAAAAGA
* *
100855865 AGAAGGAGGAGAAGAGAAAAA
1 AGAAGAAGAAGAAGAGAAAAA
100855886 ATAGATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (23 bp):
AGAAGAAGAAGAAGAGAAAAAGA
Found at i:100861025 original size:17 final size:16
Alignment explanation
Indices: 100861003--100861045 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
100860993 TTTAGGGCCT
100861003 AAATTGAATAAATTGCA
1 AAATTGAATAAATTG-A
*
100861020 AAATTGGTATAAATTGA
1 AAATT-GAATAAATTGA
*
100861037 TAATTGAAT
1 AAATTGAAT
100861046 GTGAAATGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 9 0.41
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (16 bp):
AAATTGAATAAATTGA
Found at i:100867142 original size:4 final size:4
Alignment explanation
Indices: 100867133--100867160 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
100867123 AATTTTTATT
100867133 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
100867161 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:100872080 original size:33 final size:33
Alignment explanation
Indices: 100872035--100872101 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
100872025 TCCTTCGGGT
*
100872035 TAGCTCCTACCCGTTAAGATTTCTTTATGGAAG
1 TAGCTCCAACCCGTTAAGATTTCTTTATGGAAG
100872068 TAGCTCCAACCCGTTAAGATTTCTTTATGGAAG
1 TAGCTCCAACCCGTTAAGATTTCTTTATGGAAG
100872101 T
1 T
100872102 GGGAATGAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (33 bp):
TAGCTCCAACCCGTTAAGATTTCTTTATGGAAG
Found at i:100877752 original size:13 final size:13
Alignment explanation
Indices: 100877736--100877768 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
100877726 TTTAATTAAA
*
100877736 TTAGTTAATTAGT
1 TTAGATAATTAGT
100877749 TTAGATAATTAGT
1 TTAGATAATTAGT
100877762 TTA-ATAA
1 TTAGATAA
100877769 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:100881080 original size:22 final size:23
Alignment explanation
Indices: 100881049--100881091 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
100881039 GGGTGAACTT
*
100881049 GATAGGAAAAACACGGGCGTGGG
1 GATAGGAAAAACACGGACGTGGG
*
100881072 GATA-GAAAACCACGGACGTG
1 GATAGGAAAAACACGGACGTG
100881092 CCACGGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.16, G:0.37, T:0.09
Consensus pattern (23 bp):
GATAGGAAAAACACGGACGTGGG
Found at i:100883142 original size:19 final size:19
Alignment explanation
Indices: 100883118--100883194 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 19
100883108 ATCCTCTTAT
100883118 TTTTTTTATCTA-TTTATTA
1 TTTTTTTAT-TATTTTATTA
*
100883137 TTTTTTTATTATTTTTTTA
1 TTTTTTTATTATTTTATTA
100883156 TTTTTCTT-TTGATTTTTATT-
1 TTTTT-TTATT-A-TTTTATTA
*
100883176 TCTATTTTATTATTTTATT
1 T-TTTTTTATTATTTTATT
100883195 TTCAAAGAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
18 2 0.04
19 29 0.59
20 7 0.14
21 11 0.22
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (19 bp):
TTTTTTTATTATTTTATTA
Found at i:100883144 original size:11 final size:11
Alignment explanation
Indices: 100883117--100883157 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
100883107 AATCCTCTTA
100883117 TTTTTT-TTAT
1 TTTTTTATTAT
* *
100883127 CTATTTATTAT
1 TTTTTTATTAT
100883138 TTTTTTATTAT
1 TTTTTTATTAT
100883149 TTTTTTATT
1 TTTTTTATT
100883158 TTTCTTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 4 0.15
11 22 0.85
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTATTAT
Done.