Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 315 of 345
Found at i:106325005 original size:131 final size:131
Alignment explanation
Indices: 106324786--106325040 Score: 377
Period size: 131 Copynumber: 1.9 Consensus size: 131
106324776 AAAATTCTCT
* *
106324786 AAAACGAAGGCAATACTTGATGTTTGACAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGAT
1 AAAACGAAGGCAATACTCGATGTTTGACAATTCAAGAATCATGCCCTATCGTGCTGGGTTGCGAT
* * * * *
106324851 TTCCCGTTTGTTTAAAACAATCGAATATTTCTTTGGAATTTCGCTCATG-TCTTTAAAAACCCTT
66 TTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGATCTTTAAAAACCCTT
106324915 C
131 C
* * *
106324916 AAAACGAAGGTAATACTCGATGTTTGGCAATTCAAGGAATCGTGCCCTATCGTGCTGGGTTGCGA
1 AAAACGAAGGCAATACTCGATGTTTGACAATTCAA-GAATCATGCCCTATCGTGCTGGGTTGCGA
* *
106324981 TTTCCTATTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGATTCTTTAAA
65 TTTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGA-TCTTTAAA
106325041 TTCTAAAATA
Statistics
Matches: 110, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
130 31 0.28
131 71 0.65
133 8 0.07
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
AAAACGAAGGCAATACTCGATGTTTGACAATTCAAGAATCATGCCCTATCGTGCTGGGTTGCGAT
TTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGATCTTTAAAAACCCTT
C
Found at i:106338485 original size:60 final size:60
Alignment explanation
Indices: 106338415--106338538 Score: 248
Period size: 60 Copynumber: 2.1 Consensus size: 60
106338405 ACTTTTTTGG
106338415 ATTTTTATATGGGTTTTATTTATTTTAGATTTATTATTTATTGTAATTAGGCTGGCTATT
1 ATTTTTATATGGGTTTTATTTATTTTAGATTTATTATTTATTGTAATTAGGCTGGCTATT
106338475 ATTTTTATATGGGTTTTATTTATTTTAGATTTATTATTTATTGTAATTAGGCTGGCTATT
1 ATTTTTATATGGGTTTTATTTATTTTAGATTTATTATTTATTGTAATTAGGCTGGCTATT
106338535 ATTT
1 ATTT
106338539 GTAAATGGAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.59
Consensus pattern (60 bp):
ATTTTTATATGGGTTTTATTTATTTTAGATTTATTATTTATTGTAATTAGGCTGGCTATT
Found at i:106339081 original size:176 final size:174
Alignment explanation
Indices: 106338778--106339436 Score: 859
Period size: 176 Copynumber: 3.7 Consensus size: 174
106338768 GCATATTGAG
* * * *
106338778 CCTGCTCCACTGCAACTTCAGAGGAGTAAGGCTGGTGGCTAAAATCTGCTCCATAGCTGATACAT
1 CCTGCT-CTCTGCAACTTCAGAAGA-TAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACAT
* * * * *
106338843 GGAGATAAGACTCACCATCTTCGATCTGCTCTATAGCCAATACATAGAGATAAGATCTGTAATCT
64 GGAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTT
** * * * * *
106338908 TCGGTTTGCTTCTTACAACTCTAGGAAGACAAGATTTGTATCTTCAA
129 TTAGTCTGCTTCCTGCAACT-TAGGAAGATAAGACTTGTATCTTCAA
* *
106338955 CCTGCTCTCTGCAACTTCAGATAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATA
1 CCTGCTCTCTGCAACTTCAGA-AGATAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACATG
** *
106339020 GAGATAAGACTCGTCATTTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTT
65 GAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTT
* * *
106339085 TAGTCTGTTTCCTGTAACTTTAGGAAGATAAGACTTGCATCTTCAA
130 TAGTCTGCTTCCTGCAAC-TTAGGAAGATAAGACTTGTATCTTCAA
* * * *
106339131 TCTGCTCTCTGCAACTTCAAAAAGATAAAGTTGGTGGCTAAAATCTACTCCATAGCCGATACATG
1 CCTGCTCTCTGCAACTTC-AGAAGATAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACATG
** ** * *
106339196 GAGATAAGACTCGTCATTTTTTATTTGCTCGATAGCCGATACATGGAGATAAGATCTGTAATTTT
65 GAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTT
106339261 TAGTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTATCTTCAA
130 TAGTCTGCTTCCTGCAACTT-AGGAAGATAAGACTTGTATCTTCAA
* * * * * * *
106339307 CCTGCTCTCCGTAAGTTCAGAGAAATAAGGTTGGTAGCTAAAATCTACTCCATAACCGATACATG
1 CCTGCTCTCTGCAACTTCAGA-AGATAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACATG
* *
106339372 GAGATAAGACTCACCATTTTCGATCTACTCCATAACCGATACATGGAGATAAGATCTGTAATTTT
65 GAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTT
106339437 CACCGATGTC
Statistics
Matches: 426, Mismatches: 51, Indels: 11
0.87 0.10 0.02
Matches are distributed among these distances:
175 4 0.01
176 411 0.96
177 11 0.03
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (174 bp):
CCTGCTCTCTGCAACTTCAGAAGATAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACATGG
AGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTT
AGTCTGCTTCCTGCAACTTAGGAAGATAAGACTTGTATCTTCAA
Found at i:106339084 original size:45 final size:45
Alignment explanation
Indices: 106338997--106339085 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
106338987 GGTGGCTAAA
*
106338997 ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTCATTTTTG
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTTG
*
106339042 ATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAATTTTT
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTC-GTAATTTTT
106339086 AGTCTGTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 2 0.05
45 39 0.95
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTTG
Found at i:106353556 original size:45 final size:44
Alignment explanation
Indices: 106353373--106353576 Score: 139
Period size: 45 Copynumber: 4.6 Consensus size: 44
106353363 TGAATTTACA
* * * * * *
106353373 AATCTCGTCTCCCTAAAATTACAGTGGAGTAGATCGAAGACGGCG
1 AATCTTGTCTTCCTAAAGTTGCAGTGGAGCAGATCGAAGACGG-T
* * **
106353418 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG-C--T
1 AATCTTGTCTTCCTAAAGTTGCAGTGGAGCAGATCGAAGACGGT
* * * * * **
106353459 ACCACCCTATCTTCCTAAAATTGCAGTGGAGCAG-GCTGAAGATTGT
1 A--ATCTTGTCTTCCTAAAGTTGCAGTGGAGCAGATC-GAAGACGGT
106353505 AGATCTTGTC-TCTCTAAAGTTGCAGTGGAGCAGATCGAAGACGGT
1 A-ATCTTGTCTTC-CTAAAGTTGCAGTGGAGCAGATCGAAGACGGT
* *
106353550 GAATCTTGCCTTCCTGAAGTTGCAGTG
1 -AATCTTGTCTTCCTAAAGTTGCAGTG
106353577 AAGTAGATTT
Statistics
Matches: 119, Mismatches: 30, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
41 1 0.01
43 28 0.24
44 3 0.03
45 81 0.68
46 6 0.05
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (44 bp):
AATCTTGTCTTCCTAAAGTTGCAGTGGAGCAGATCGAAGACGGT
Found at i:106353769 original size:45 final size:43
Alignment explanation
Indices: 106353696--106353814 Score: 121
Period size: 45 Copynumber: 2.7 Consensus size: 43
106353686 AAATTGCAAG
* * * * ***
106353696 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAAGATTGTAGA
1 TCTTATCTCTCTGAAGTTACAGTAGAGCAGACCGAAG-TCACA-A
* **
106353741 TCTTATCTCTCTGAAGTTACAATAGAGCAGATTGAAGTCACAA
1 TCTTATCTCTCTGAAGTTACAGTAGAGCAGACCGAAGTCACAA
106353784 TCATTATCTCTCTGAAGTTACAGTAGAGCAG
1 TC-TTATCTCTCTGAAGTTACAGTAGAGCAG
106353815 GATAAAAATT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.05
44 29 0.47
45 30 0.48
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (43 bp):
TCTTATCTCTCTGAAGTTACAGTAGAGCAGACCGAAGTCACAA
Found at i:106356612 original size:129 final size:128
Alignment explanation
Indices: 106356396--106356631 Score: 364
Period size: 129 Copynumber: 1.8 Consensus size: 128
106356386 AAAATTCTCT
* * *
106356396 AAAACAAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCATGCTGGGTTGTGAT
1 AAAACAAAGGCAATACTCGATGTTTGACAATTCAGGAATCGTGCCCTATCATGCTGGGTTGCGAT
*
106356461 TTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCGCTCGTCTTTAAAAACCCTTC
66 TTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCGCTCGTCTTTAAAAACCCTTC
* * * *
106356524 AAAACGAAGGTAATACTCGATGTTTGACAATTCAAGGAATCGTGCCCTATCGTTCTGGGTTGCGA
1 AAAACAAAGGCAATACTCGATGTTTGACAATTC-AGGAATCGTGCCCTATCATGCTGGGTTGCGA
* * *
106356589 TTTCCTGTTTGTTCAAAATAATCGAATATTTCTTTAGAATTTC
65 TTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTC
106356632 ACGTATGATT
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
128 30 0.31
129 66 0.69
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (128 bp):
AAAACAAAGGCAATACTCGATGTTTGACAATTCAGGAATCGTGCCCTATCATGCTGGGTTGCGAT
TTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCGCTCGTCTTTAAAAACCCTTC
Found at i:106359476 original size:30 final size:30
Alignment explanation
Indices: 106359440--106359499 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
106359430 ACTTAACAAG
106359440 CAAATGTCTCTAAAATAATAAAAAAATTAA
1 CAAATGTCTCTAAAATAATAAAAAAATTAA
* *
106359470 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAAAAAAATTAA
106359500 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.28
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAAAAAAATTAA
Found at i:106362202 original size:46 final size:45
Alignment explanation
Indices: 106362050--106362270 Score: 234
Period size: 46 Copynumber: 4.8 Consensus size: 45
106362040 GGTTATTGTG
* * *
106362050 AGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCAC-ATTATGA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGA
* * * *
106362095 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAA
1 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATG-A
*
106362144 AGCTAGTGTAAGACATGTTTGGGACATGCAGT-GGCCTCGAGATGTA
1 AGCTAGTGTAAGACATGTCTGGGACATGCA-TCGGCCTCGAGATG-A
*
106362190 AGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGATG-
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
*
106362234 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
106362271 ATCCTACCCC
Statistics
Matches: 149, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
44 12 0.08
45 17 0.11
46 69 0.46
47 28 0.19
48 21 0.14
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:106363453 original size:20 final size:19
Alignment explanation
Indices: 106363428--106363465 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
106363418 TTAAAATGGT
106363428 CACACGGGCGTGTTGCCCCC
1 CACACGGGCGTG-TGCCCCC
106363448 CACACGGGCGTGTGCCCC
1 CACACGGGCGTGTGCCCC
106363466 TGTATTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.11, C:0.45, G:0.32, T:0.13
Consensus pattern (19 bp):
CACACGGGCGTGTGCCCCC
Found at i:106365188 original size:31 final size:28
Alignment explanation
Indices: 106365143--106365222 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
106365133 CAGCTCATAC
*
106365143 TATATTTTTTATTTTTAAAAAATATATTTA
1 TATATTTTTAATTTTTAAAAAATA-A-TTA
**
106365173 TATTATTTTTAA-TTTTAATTTAATAATTA
1 TA-TATTTTTAATTTTTAA-AAAATAATTA
106365202 TATATTTTTAATTTATTAAAA
1 TATATTTTTAATTT-TTAAAA
106365223 TTTAATATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
28 9 0.22
29 7 0.17
30 13 0.32
31 12 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TATATTTTTAATTTTTAAAAAATAATTA
Found at i:106365433 original size:30 final size:30
Alignment explanation
Indices: 106365399--106365456 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
106365389 TTAAACGAAC
* *
106365399 TTAATTTTTTTA-CTTAAATTTTTTTAAAAT
1 TTAATATTTTTATC-TAAATTTCTTTAAAAT
106365429 TTAATATTTTTATCTAAATTTCTTTAAA
1 TTAATATTTTTATCTAAATTTCTTTAAA
106365457 TTTGGAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (30 bp):
TTAATATTTTTATCTAAATTTCTTTAAAAT
Found at i:106367638 original size:12 final size:11
Alignment explanation
Indices: 106367613--106367647 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
106367603 TAATCCCAAA
106367613 TTTTAAATTTT
1 TTTTAAATTTT
106367624 TTTTAAATATTT
1 TTTTAAAT-TTT
106367636 TTTTATAATTTT
1 TTTTA-AATTTT
106367648 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.36
12 11 0.50
13 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTAAATTTT
Found at i:106371256 original size:14 final size:15
Alignment explanation
Indices: 106371226--106371277 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 15
106371216 CGCGATAATG
106371226 AAATATCATAAAATTAA
1 AAATAT-AT-AAATTAA
106371243 AAATATAT-AATTAA
1 AAATATATAAATTAA
*
106371257 AGATAT-TAAATT-A
1 AAATATATAAATTAA
106371270 AAATATAT
1 AAATATAT
106371278 TTTTGATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 7 0.23
14 16 0.52
16 2 0.06
17 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATATATAAATTAA
Found at i:106379858 original size:120 final size:121
Alignment explanation
Indices: 106379710--106379957 Score: 426
Period size: 120 Copynumber: 2.1 Consensus size: 121
106379700 ACCGTGCCCT
**
106379710 ATCGTGCAGGGTTGCGATTTTTCGTTCGTTCAAAACAATCGAATATTTCTTTGGAATTTCACCCA
1 ATCGTGCAGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTTCTTTGGAATTTCACCCA
* *
106379775 TTTCTTTAAAGATTCTATAAAACGAAGGTAATGTTCGATGTTTGGCAATTC-AGGA
66 TGTCTTTAAAGATTCTATAAAACGAAGGTAATATTCGATGTTTGGCAATTCGAGGA
*
106379830 ATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTTCTTTGGAATTTCACCCA
1 ATCGTGCAGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTTCTTTGGAATTTCACCCA
* *
106379895 TGTCTTTAAAGATTTTATAAAACGAAGGTAATATTCGATGTTTGGCAATTCGGGGA
66 TGTCTTTAAAGATTCTATAAAACGAAGGTAATATTCGATGTTTGGCAATTCGAGGA
106379951 ATCGTGC
1 ATCGTGC
106379958 CCTATCATGC
Statistics
Matches: 120, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 110 0.92
121 10 0.08
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (121 bp):
ATCGTGCAGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTTCTTTGGAATTTCACCCA
TGTCTTTAAAGATTCTATAAAACGAAGGTAATATTCGATGTTTGGCAATTCGAGGA
Found at i:106380102 original size:129 final size:131
Alignment explanation
Indices: 106379830--106380109 Score: 300
Period size: 129 Copynumber: 2.2 Consensus size: 131
106379820 CAATTCAGGA
** *
106379830 ATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATTTCTTTGGAATTTCACCCA
1 ATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATCCCTTTAGAATTTCACCCA
* * * * * * * *
106379895 TGTCTTTAAAGATTTTATAAAACGAAGGTAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCC
66 TGTCTTTAAAGATTTCATAAAAAGAAGGCAATATCCGATGTTTAGAAACTCGAGGAATCGTGCCC
106379960 T
131 T
* ** * * *
106379961 ATCATGCTGGGTTGCGATTT-CTTTTGGTTCAAAATAATCGAATATCCCCTTTAGAATTTCACTC
1 ATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATAT-CCCTTTAGAATTTCACCC
* * * *
106380025 ATGTTTTTTAAA-A-TTCA-AAAAATAGGGCAATGTCCGATGTTTAGAAACTCGAGGAATCGTGC
65 ATG-TCTTTAAAGATTTCATAAAAAGAAGGCAATATCCGATGTTTAGAAACTCGAGGAATCGTGC
106380087 CCT
129 CCT
*
106380090 A-CTGTGCTGGGTTTCGATTT
1 ATC-GTGCTGGGTTGCGATTT
106380110 TTTCGTTGGA
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
128 1 0.01
129 54 0.44
130 24 0.20
131 37 0.30
132 7 0.06
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (131 bp):
ATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATATCCCTTTAGAATTTCACCCA
TGTCTTTAAAGATTTCATAAAAAGAAGGCAATATCCGATGTTTAGAAACTCGAGGAATCGTGCCC
T
Found at i:106382059 original size:22 final size:20
Alignment explanation
Indices: 106382022--106382061 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
106382012 AACACATAAA
*
106382022 AATAAATTATTCAAAATTTG
1 AATAAATTATTAAAAATTTG
106382042 AATAAATTATATTAAAAATT
1 AATAAA-T-TATTAAAAATT
106382062 CTATTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (20 bp):
AATAAATTATTAAAAATTTG
Found at i:106383390 original size:24 final size:22
Alignment explanation
Indices: 106383363--106383410 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
106383353 AGCAAAATTG
*
106383363 AATTCTATTTTTTATTGAATATAA
1 AATTCTAATTTTTA-TG-ATATAA
*
106383387 AATTTTAATTTTTATGATATAA
1 AATTCTAATTTTTATGATATAA
106383409 AA
1 AA
106383411 ATAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 2 0.09
24 12 0.55
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (22 bp):
AATTCTAATTTTTATGATATAA
Found at i:106388032 original size:163 final size:164
Alignment explanation
Indices: 106387762--106388090 Score: 642
Period size: 163 Copynumber: 2.0 Consensus size: 164
106387752 ACTTGTAATG
106387762 TAGTTGTCAAATAACAGTAGATTATTACAGCAAATTTGCTTCAACACAAAAGAATCTTTATTCAA
1 TAGTTGTCAAATAACAGTAGATTATTACAGCAAATTTGCTTCAACACAAAAGAATCTTTATTCAA
106387827 TGATGGCTGACAGGTTGAGAATCAAAGAATTTATTTTATGAATTCTACAAGCGGCAATTACTGCT
66 TGATGGCTGACAGGTTGAGAATCAAAGAATTTATTTTATGAATTCTACAAGCGGCAATTACTGCT
106387892 TATTGAGGTCATG-TATTGAAGTACATATAGCTC
131 TATTGAGGTCATGATATTGAAGTACATATAGCTC
106387925 TAGTTGTCAAATAACAGTAGATTATTACAGCAAATTTGCTTCAACACAAAAGAATCTTTATTCAA
1 TAGTTGTCAAATAACAGTAGATTATTACAGCAAATTTGCTTCAACACAAAAGAATCTTTATTCAA
106387990 TGATGGCTGACAGGTTGAGAATCAAAGAATTTATTTTATGAATTCTACAAGCGGCAATTACTGCT
66 TGATGGCTGACAGGTTGAGAATCAAAGAATTTATTTTATGAATTCTACAAGCGGCAATTACTGCT
106388055 TATTGAGGTCATGAATATTGAAGTACATATAGCTC
131 TATTGAGGTCATG-ATATTGAAGTACATATAGCTC
106388090 T
1 T
106388091 TTTCGTTGGA
Statistics
Matches: 164, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
163 143 0.87
165 21 0.13
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (164 bp):
TAGTTGTCAAATAACAGTAGATTATTACAGCAAATTTGCTTCAACACAAAAGAATCTTTATTCAA
TGATGGCTGACAGGTTGAGAATCAAAGAATTTATTTTATGAATTCTACAAGCGGCAATTACTGCT
TATTGAGGTCATGATATTGAAGTACATATAGCTC
Found at i:106399092 original size:28 final size:30
Alignment explanation
Indices: 106399033--106399093 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
106399023 CTCATTAACT
* * *
106399033 ATATAAAATATTATTTAATAAACTTCACAA
1 ATATAAAATATCATTAAACAAACTTCACAA
*
106399063 ATATAATATATCATTAAACAAAC-TCA-AA
1 ATATAAAATATCATTAAACAAACTTCACAA
106399091 ATA
1 ATA
106399094 AACAAACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.19
29 3 0.11
30 19 0.70
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (30 bp):
ATATAAAATATCATTAAACAAACTTCACAA
Found at i:106410123 original size:14 final size:14
Alignment explanation
Indices: 106410104--106410130 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106410094 TGGACTTCTA
106410104 TCAATAAAATTGGC
1 TCAATAAAATTGGC
106410118 TCAATAAAATTGG
1 TCAATAAAATTGG
106410131 GTTTTGTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (14 bp):
TCAATAAAATTGGC
Found at i:106411544 original size:20 final size:20
Alignment explanation
Indices: 106411520--106411580 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
106411510 AAAATATTAT
106411520 AAAAT-TTTATAAAATTAAA
1 AAAATATTTATAAAATTAAA
* *
106411539 AGAAATCA-TTATAAAAATATA
1 A-AAAT-ATTTATAAAATTAAA
*
106411560 AAAATATTTGTAAAATTAAA
1 AAAATATTTATAAAATTAAA
106411580 A
1 A
106411581 TATATGATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 2 0.06
20 19 0.58
21 12 0.36
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATATTTATAAAATTAAA
Found at i:106411556 original size:32 final size:30
Alignment explanation
Indices: 106411489--106411554 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 30
106411479 ATATTATTTT
106411489 AAATTTTACAAAATTAAGTTAAAAATATTATA
1 AAATTTTACAAAATTAA--TAAAAATATTATA
*
106411521 AAATTTTATAAAATTAA-AAGAAATCATTATA
1 AAATTTTACAAAATTAATAA-AAAT-ATTATA
106411552 AAA
1 AAA
106411555 ATATAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 2 0.06
30 4 0.13
31 9 0.29
32 16 0.52
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (30 bp):
AAATTTTACAAAATTAATAAAAATATTATA
Found at i:106413027 original size:19 final size:20
Alignment explanation
Indices: 106412993--106413042 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
106412983 AGGGTTTGGA
** *
106412993 AGAAAGTAAATTTTTTTAGG
1 AGAAAGTAAAAGTTTTGAGG
106413013 AG-AAGTAAAAGTTTTGAGG
1 AGAAAGTAAAAGTTTTGAGG
*
106413032 GGAAAGTAAAA
1 AGAAAGTAAAA
106413043 AGAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (20 bp):
AGAAAGTAAAAGTTTTGAGG
Found at i:106421773 original size:3 final size:3
Alignment explanation
Indices: 106421765--106421810 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
106421755 TTTAGCAATT
*
106421765 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
106421811 AATTGTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:106422133 original size:22 final size:22
Alignment explanation
Indices: 106422076--106422133 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
106422066 ATATATGTAC
*
106422076 ATATTTTAACCTTTGTAAATACAT
1 ATATTTTAA--TTTATAAATACAT
* *
106422100 ATA-TATATATTTATATATACAT
1 ATATTTTA-ATTTATAAATACAT
106422122 ATATTTTAATTT
1 ATATTTTAATTT
106422134 TTGCCTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
22 18 0.64
23 6 0.21
24 4 0.14
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTTTAATTTATAAATACAT
Found at i:106434606 original size:44 final size:44
Alignment explanation
Indices: 106434386--106434925 Score: 259
Period size: 44 Copynumber: 12.6 Consensus size: 44
106434376 AAAGAATTTC
* ** *
106434386 AGATCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAG-CTAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGAC-AG
* * * * *
106434430 TA-ATCCTATCTCCCTGAGATTACAGT-GAGC-GAATT-AAAATAA
1 -AGATCTTATCTCCCTGAGGTTACAGTGGAGCAG-ATTGAAGACAG
* * ** * * * *
106434472 ATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * ** *
106434516 -G-TCTTA--TCCCTGAGGTTACATTGGAGTAGACCGAAGA-ATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACA---G
*
106434558 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * ** *
106434602 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * * * *
106434646 TA-ATCCTATCT-CTTGAGATTACAATGGAGCGGATT--A-A-AG
1 -AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * * * * *
106434685 -GATCTTATCTCTCTGAAGTTACAGTAGAGAAGA-TCACA-TCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGA-AGACAG
* * ** * *
106434727 -G-TCTTATTTCCCTGAGGTTACAGTGGA-TAGACCGGAGA-ATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACA---G
*
106434770 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * *
106434814 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
** * * * * * *
106434857 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
*
106434900 AGGATCTTATCTCTCTGAGGTTACAG
1 A-GATCTTATCTCCCTGAGGTTACAG
106434926 CAGAGTAGAT
Statistics
Matches: 370, Mismatches: 91, Indels: 69
0.70 0.17 0.13
Matches are distributed among these distances:
38 9 0.02
39 39 0.11
40 6 0.02
41 30 0.08
42 12 0.03
43 73 0.20
44 138 0.37
45 29 0.08
46 32 0.09
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
Found at i:106434793 original size:212 final size:215
Alignment explanation
Indices: 106434386--106434976 Score: 874
Period size: 212 Copynumber: 2.7 Consensus size: 215
106434376 AAAGAATTTC
* * * *
106434386 AGATCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATT
* *
106434451 ACAGT-GAGCGAATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATT---ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
*
106434515 GGTCTTA-TCCCTGAGGTTACATTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
128 GGTCTTATTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
106434579 ACAGTGGAGCAGATTGAAGCCAG
193 ACAGTGGAGCAGATTGAAGCCAG
* *
106434602 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCT-CTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATT
* * * *
106434666 ACAATGGAGCGGA-T-TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGT
66 ACAGTGGAGCGGATTATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGT
*
106434729 CTTATTTCCCTGAGGTTACAGTGGA-TAGACCGGAGAATTTCAGATCTTATCTCCCTGAGGTTAC
131 CTTA-TTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAC
106434793 AGTGGAGCAGATTGAAGCCAG
195 AGTGGAGCAGATTGAAGCCAG
* *
106434814 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGA-T
*
106434877 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATC
65 TACAGTGGAGCGGATT---ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
**
106434942 AGGTCTTATCTCCCTGATATTACAGTGGAGTAGAC
127 AGGTCTTAT-TCCCTGAGGTTACAGTGGAGTAGAC
106434977 TTAAACCAAA
Statistics
Matches: 338, Mismatches: 25, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
211 59 0.17
212 119 0.35
213 19 0.06
215 13 0.04
216 57 0.17
217 66 0.20
218 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (215 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGT
CTTATTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACA
GTGGAGCAGATTGAAGCCAG
Found at i:106434883 original size:87 final size:87
Alignment explanation
Indices: 106434776--106434937 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
106434766 TTTCAGATCT
* * * *
106434776 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
106434840 GGAGCAGATCGAAGACACTATCC
65 AGAGCAGATCGAAGACACTATCC
* * * *
106434863 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
106434928 GAGTAGATCG
66 GAGCAGATCG
106434938 CATCAGGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:106436560 original size:3 final size:3
Alignment explanation
Indices: 106436552--106436591 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
106436542 TTTAGCAATT
* *
106436552 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
106436592 AATTGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:106436596 original size:15 final size:15
Alignment explanation
Indices: 106436548--106436603 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
106436538 ATATTTTAGC
106436548 AATT-TTATTATTAT
1 AATTGTTATTATTAT
* * *
106436562 TATTATTATTATTGT
1 AATTGTTATTATTAT
*
106436577 TATTGTTATTATTAT
1 AATTGTTATTATTAT
*
106436592 AATTGTTTTTAT
1 AATTGTTATTAT
106436604 GCATATACGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
14 3 0.09
15 32 0.91
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
AATTGTTATTATTAT
Found at i:106441303 original size:11 final size:11
Alignment explanation
Indices: 106441289--106441344 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
106441279 AGATAAATAT
106441289 TATTTTATTAA
1 TATTTTATTAA
106441300 TATTTTATTAA
1 TATTTTATTAA
*
106441311 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
106441324 TATTTTATTAT
1 TATTTTATTAA
106441335 TATTTTATTA
1 TATTTTATTA
106441345 GTATATAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
11 27 0.68
12 6 0.15
13 7 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:106441350 original size:24 final size:23
Alignment explanation
Indices: 106441257--106441350 Score: 90
Period size: 24 Copynumber: 4.2 Consensus size: 23
106441247 GAGATATTTT
* *
106441257 GATATTTTATAATTATTTAATTA
1 GATATTTTATTATTATTTTATTA
*
106441280 GATA----AATATTATTTTATTA
1 GATATTTTATTATTATTTTATTA
* *
106441299 -ATATTTTATTAATATTTTAATAA
1 GATATTTTATTATTATTTT-ATTA
106441322 GATATTTTATTATTATTTTATTA
1 GATATTTTATTATTATTTTATTA
106441345 GTATAT
1 G-ATAT
106441351 AAAGAAAGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
18 3 0.05
19 12 0.21
22 9 0.16
23 11 0.20
24 21 0.38
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
GATATTTTATTATTATTTTATTA
Found at i:106443212 original size:46 final size:46
Alignment explanation
Indices: 106443159--106443432 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
106443149 GCTTTTTGAA
** * * *
106443159 ATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGTAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
106443205 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
106443251 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
106443297 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
106443343 ATGAAATAAACAAGACCATGGTTGAAAGATACCATGGTAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
106443389 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
106443433 TCAAAGATAA
Statistics
Matches: 203, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 202 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:106446440 original size:3 final size:3
Alignment explanation
Indices: 106446432--106446458 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
106446422 GTCTATGCCA
106446432 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
106446459 TGCAATCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:106449209 original size:13 final size:13
Alignment explanation
Indices: 106449191--106449216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106449181 AAAATTACAA
106449191 ATATATTTTAAAT
1 ATATATTTTAAAT
106449204 ATATATTTTAAAT
1 ATATATTTTAAAT
106449217 TTTTTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATATTTTAAAT
Found at i:106452048 original size:34 final size:33
Alignment explanation
Indices: 106451985--106452048 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
106451975 GATTCTTCTC
*
106451985 TCTTTTTTCAAATAGTCTTGGTTTCAAGATTCA
1 TCTTTTTTCAAATAGTATTGGTTTCAAGATTCA
*
106452018 TCTTTTCTT-AAATTAGTATTGGTTTTAAGAT
1 TCTTTT-TTCAAA-TAGTATTGGTTTCAAGAT
106452049 CTGTGTCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (33 bp):
TCTTTTTTCAAATAGTATTGGTTTCAAGATTCA
Found at i:106453263 original size:96 final size:97
Alignment explanation
Indices: 106453123--106453311 Score: 256
Period size: 96 Copynumber: 2.0 Consensus size: 97
106453113 ACCTTGTGCA
* *
106453123 GCAGGTTTTATTAACTATTGGAATATTTTTATCTTATGATGTGAATTTGTAGTCGAATATAGATA
1 GCAGGTTTTATTAACTATTGGAATATTTATATCTTATGATGTGAATTTGTAGCCGAATATAGATA
* *
106453188 TTGTATCTGTAGCAGCATTGTTTGATGGGACT
66 TCGTATCTGGAGCAGCATTGTTTGATGGGACT
* * * * * *
106453220 GCAGGATTTTA-TAATTTTTGGAATA-TTATATCTTATTATGTGAATTTGTGGCCGAATATTGGT
1 GCAGG-TTTTATTAACTATTGGAATATTTATATCTTATGATGTGAATTTGTAGCCGAATATAGAT
*
106453283 ATCGTATTTGGAGCAGCATTGTTTGATGG
65 ATCGTATCTGGAGCAGCATTGTTTGATGG
106453312 TGATTATTGA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
96 58 0.73
97 17 0.21
98 5 0.06
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (97 bp):
GCAGGTTTTATTAACTATTGGAATATTTATATCTTATGATGTGAATTTGTAGCCGAATATAGATA
TCGTATCTGGAGCAGCATTGTTTGATGGGACT
Found at i:106482363 original size:42 final size:42
Alignment explanation
Indices: 106482317--106482512 Score: 243
Period size: 42 Copynumber: 4.6 Consensus size: 42
106482307 TGAGATTCCG
*
106482317 TGTAAGACCATATCTGGGATATGACATCGATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * *
106482359 TGTAAGAACATATTTGGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
** *
106482401 TGTAAGATTATATCTAGGATATGGCATCGATATGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
* * * **
106482443 TGTAAGACCATAGCTGGGCCAT-TCGCATCGGTACAAGA-TTACA
1 TGTAAGACCATATCTGGG--ATATGGCATCGATATGAGACTT-CA
106482486 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
106482513 TGGTACGGTA
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.02
42 96 0.73
43 31 0.24
44 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCA
Found at i:106487635 original size:18 final size:18
Alignment explanation
Indices: 106487612--106487647 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
106487602 TTTTTACTTA
106487612 ATTCAATAATGTTATGTT
1 ATTCAATAATGTTATGTT
106487630 ATTCAATAATGTTATGTT
1 ATTCAATAATGTTATGTT
106487648 TAAACATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTCAATAATGTTATGTT
Found at i:106491053 original size:21 final size:19
Alignment explanation
Indices: 106491028--106491088 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
106491018 TAAATAAATT
106491028 AACTTATAA-AAATATTTGAAA
1 AACTTA-AATAAAT-TTT-AAA
106491049 AACTTAAATAAATTTTAAA
1 AACTTAAATAAATTTTAAA
* * *
106491068 AAGTTAATTTAAATTTGAAA
1 AACTTAA-ATAAATTTTAAA
106491088 A
1 A
106491089 GGTTAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 9 0.26
20 16 0.46
21 10 0.29
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (19 bp):
AACTTAAATAAATTTTAAA
Found at i:106491063 original size:19 final size:20
Alignment explanation
Indices: 106491041--106491088 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
106491031 TTATAAAAAT
106491041 ATTTGAAAAACTTAA-ATAA
1 ATTTGAAAAACTTAATATAA
* * *
106491060 ATTTTAAAAAGTTAATTTAA
1 ATTTGAAAAACTTAATATAA
106491080 ATTTGAAAA
1 ATTTGAAAA
106491089 GGTTAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (20 bp):
ATTTGAAAAACTTAATATAA
Found at i:106491080 original size:20 final size:20
Alignment explanation
Indices: 106491041--106491102 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
106491031 TTATAAAAAT
* *
106491041 ATTTGAAAAACTTAA-ATAA
1 ATTTGAAAAAGTTAATTTAA
*
106491060 ATTTTAAAAAGTTAATTTAA
1 ATTTGAAAAAGTTAATTTAA
* *
106491080 ATTTGAAAAGGTTAATTAAA
1 ATTTGAAAAAGTTAATTTAA
106491100 ATT
1 ATT
106491103 GAATGGAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 13 0.36
20 23 0.64
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (20 bp):
ATTTGAAAAAGTTAATTTAA
Found at i:106491104 original size:19 final size:20
Alignment explanation
Indices: 106491043--106491105 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
106491033 ATAAAAATAT
* * *
106491043 TTGAAAAACTTAA-ATAAAT
1 TTGAAAAAGTTAATTTAAAA
* *
106491062 TTTAAAAAGTTAATTTAAAT
1 TTGAAAAAGTTAATTTAAAA
*
106491082 TTGAAAAGGTTAA-TTAAAA
1 TTGAAAAAGTTAATTTAAAA
106491101 TTGAA
1 TTGAA
106491106 TGGAAAATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
19 21 0.57
20 16 0.43
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (20 bp):
TTGAAAAAGTTAATTTAAAA
Found at i:106491837 original size:4 final size:4
Alignment explanation
Indices: 106491830--106491869 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
106491820 ATATGCATGC
* *
106491830 CTAT CTAT TTAT CTAT CTAT CTAT CTAT CTAT CTTT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
106491870 ACAGTAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (4 bp):
CTAT
Found at i:106494266 original size:13 final size:13
Alignment explanation
Indices: 106494248--106494272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106494238 TGATTTTGAA
106494248 ACTAACAATAAAT
1 ACTAACAATAAAT
106494261 ACTAACAATAAA
1 ACTAACAATAAA
106494273 CATTTGGTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (13 bp):
ACTAACAATAAAT
Found at i:106496180 original size:43 final size:42
Alignment explanation
Indices: 106496126--106496421 Score: 317
Period size: 43 Copynumber: 6.9 Consensus size: 42
106496116 GTTTATTTGA
* *
106496126 AAAAATGCCGCTATAGAACATGACCTTTAGTGGCG-TTTCTCAC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTT-T-AC
* *
106496169 AAAAACGCCGCTATAGAACATGACCTTTAACGGCACTTTTAC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTAC
* * * **
106496211 AACTAACGCCGTTATAGAACATGAACTTTAGCGGCG-TTTGTTG
1 AA-AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTT-TAC
* * *
106496254 AGAAACACCGCTATAGAACATGACCTTTAGCGGAGCTTTTAC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTAC
* * ** *
106496296 ATCAAACGCCACTATAGAATGTTACCTTTAGCGGCGCTTTTACC
1 A-AAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTA-C
*
106496340 ACAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTAC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTAC
* * * *
106496382 TACAAACGCCGCAATAGAACATTACCTTTAGCGGTGCTTT
1 -AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTT
106496422 AGTGAAAAAC
Statistics
Matches: 213, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
42 38 0.18
43 170 0.80
44 5 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTAC
Found at i:106496361 original size:128 final size:129
Alignment explanation
Indices: 106496133--106496421 Score: 345
Period size: 128 Copynumber: 2.2 Consensus size: 129
106496123 TGAAAAAATG
* * *
106496133 CCGCTATAGAACATGACCTTTAGTGGCG-TTTCTCACAAAAACGCCGCTATAGAACATGACCTTT
1 CCGCTATAGAACATGACCTTTAGCGGAGCTTTCTCACAAAAACGCCACTATAGAACATGACCTTT
* * *
106496197 AACGGCACTTTTACAACTAACGCCGTTATAGAACATGAACTTTAGCGGCG-TTTGT-TGAGAAAC
66 AACGGCACTTTTACAACAAACGCCGCTATAGAACATGAACTTTAGCGGCGCTTT-TAT-ACAAAC
106496260 A
129 A
* ** *
106496261 CCGCTATAGAACATGACCTTTAGCGGAGCTTT-T-ACATCAAACGCCACTATAGAATGTTACCTT
1 CCGCTATAGAACATGACCTTTAGCGGAGCTTTCTCACA-AAAACGCCACTATAGAACATGACCTT
* * * *
106496324 TAGCGGCGCTTTTACCACAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTACTACAAAC
65 TAACGGCACTTTTACAACAAACGCCGCTATAGAACATGAACTTTAGCGGCGCTTTTA-TACAAAC
*
106496389 G
129 A
* * *
106496390 CCGCAATAGAACATTACCTTTAGCGGTGCTTT
1 CCGCTATAGAACATGACCTTTAGCGGAGCTTT
106496422 AGTGAAAAAC
Statistics
Matches: 138, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
127 3 0.02
128 94 0.68
129 40 0.29
130 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (129 bp):
CCGCTATAGAACATGACCTTTAGCGGAGCTTTCTCACAAAAACGCCACTATAGAACATGACCTTT
AACGGCACTTTTACAACAAACGCCGCTATAGAACATGAACTTTAGCGGCGCTTTTATACAAACA
Found at i:106496457 original size:129 final size:126
Alignment explanation
Indices: 106496133--106496465 Score: 282
Period size: 128 Copynumber: 2.6 Consensus size: 126
106496123 TGAAAAAATG
* * * * * * * * *
106496133 CCGCTATAGAACATGACCTTTAGTGGCG-TTTCTCACAAAAACGCCGCTATAGAACATGACCTTT
1 CCGCAATAGAACATGACCTTTAGCGGAGCTTT-T-ACACAAACGCCACTAAAGAACGTTA-CTAT
* * * *
106496197 AACGGCACTTTTACAACTAACGCCGTTATAGAACATGAACTTTAGCGGCGTTTGTTGAGAAACA
63 AGCGGCACTTTTACAACAAACGCCGCTATAGAACATGAACTTTAGCGGCGTTTGTTGACAAACA
* * * *
106496261 CCGCTATAGAACATGACCTTTAGCGGAGCTTTTACATCAAACGCCACTATAGAATGTTACCTTTA
1 CCGCAATAGAACATGACCTTTAGCGGAGCTTTTACA-CAAACGCCACTAAAGAACGTTA-CTATA
* * *
106496326 GCGGCGCTTTTACCACAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTT-TACT-ACAAAC
64 GCGGCACTTTTACAACAAACGCCGCTATAGAACATGAACTTTAGCGGCG-TTTGT--TGACAAAC
*
106496389 G
126 A
* * *
106496390 CCGCAATAGAACATTACCTTTAGCGGTGCTTTAGTGA-A-AAACGCCACTAAAGGTCACGTT-CT
1 CCGCAATAGAACATGACCTTTAGCGGAGCTTT--T-ACACAAACGCCACTAAA-G-AACGTTACT
*
106496452 ATAGCGGCATTTTT
61 ATAGCGGCACTTTT
106496466 CATGGAAGTG
Statistics
Matches: 171, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
127 3 0.02
128 94 0.55
129 65 0.38
130 2 0.01
131 6 0.04
132 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (126 bp):
CCGCAATAGAACATGACCTTTAGCGGAGCTTTTACACAAACGCCACTAAAGAACGTTACTATAGC
GGCACTTTTACAACAAACGCCGCTATAGAACATGAACTTTAGCGGCGTTTGTTGACAAACA
Found at i:106496637 original size:19 final size:19
Alignment explanation
Indices: 106496610--106496670 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
106496600 TTGTAACAAT
106496610 CAAAGCCAACCAGTAAATA
1 CAAAGCCAACCAGTAAATA
*
106496629 CAAAACCAACCAGTAAATA
1 CAAAGCCAACCAGTAAATA
106496648 CAAAGCCAACCAG-AAATA
1 CAAAGCCAACCAGTAAATA
106496666 GCAAA
1 -CAAA
106496671 TCTATATGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.13
19 34 0.87
ACGTcount: A:0.56, C:0.26, G:0.10, T:0.08
Consensus pattern (19 bp):
CAAAGCCAACCAGTAAATA
Found at i:106502407 original size:9 final size:9
Alignment explanation
Indices: 106502393--106502514 Score: 147
Period size: 9 Copynumber: 13.6 Consensus size: 9
106502383 TGATATATAT
106502393 TTATGTAAG
1 TTATGTAAG
*
106502402 TTATGTAAA
1 TTATGTAAG
*
106502411 TTACGTAAG
1 TTATGTAAG
106502420 TTATGTAAG
1 TTATGTAAG
*
106502429 TTATGATATG
1 TTATG-TAAG
* * *
106502439 ATAT-TTAT
1 TTATGTAAG
106502447 TTATGTAAG
1 TTATGTAAG
*
106502456 TTATGTAAA
1 TTATGTAAG
106502465 TTATGTAAG
1 TTATGTAAG
106502474 TTATGTAAG
1 TTATGTAAG
* *
106502483 TGATGTAAA
1 TTATGTAAG
106502492 TTATGTAAG
1 TTATGTAAG
106502501 TTATGTAAG
1 TTATGTAAG
106502510 TTATG
1 TTATG
106502515 ATATGGTATT
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
8 4 0.04
9 83 0.89
10 6 0.06
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:106502431 original size:27 final size:27
Alignment explanation
Indices: 106502393--106502514 Score: 167
Period size: 27 Copynumber: 4.5 Consensus size: 27
106502383 TGATATATAT
*
106502393 TTATGTAAGTTATGTAAATTACGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
* * *
106502420 TTATGTAAGTTATG-ATATGATAT-TTAT
1 TTATGTAAGTTATGTAAAT--TATGTAAG
106502447 TTATGTAAGTTATGTAAATTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
*
106502474 TTATGTAAGTGATGTAAATTATGTAAG
1 TTATGTAAGTTATGTAAATTATGTAAG
106502501 TTATGTAAGTTATG
1 TTATGTAAGTTATG
106502515 ATATGGTATT
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.07
27 71 0.87
28 5 0.06
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (27 bp):
TTATGTAAGTTATGTAAATTATGTAAG
Found at i:106502453 original size:54 final size:54
Alignment explanation
Indices: 106502381--106502514 Score: 189
Period size: 54 Copynumber: 2.5 Consensus size: 54
106502371 TTATGTAAGT
106502381 TATGATATATATTTATGTAAGTTATGTAAATTACGTAAGTTATGTAAGTTATGA
1 TATGATATATATTTATGTAAGTTATGTAAATTACGTAAGTTATGTAAGTTATGA
* * *
106502435 TATGATATTTATTTATGTAAGTTATGTAAATTATGTAAGTTATGTAAGTGATGTA
1 TATGATATATATTTATGTAAGTTATGTAAATTACGTAAGTTATGTAAGTTATG-A
* * * *
106502490 AATTATGTA-AGTTATGTAAGTTATG
1 TATGATATATATTTATGTAAGTTATG
106502515 ATATGGTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 65 0.92
55 6 0.08
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.46
Consensus pattern (54 bp):
TATGATATATATTTATGTAAGTTATGTAAATTACGTAAGTTATGTAAGTTATGA
Found at i:106502455 original size:36 final size:36
Alignment explanation
Indices: 106502415--106502550 Score: 132
Period size: 36 Copynumber: 3.6 Consensus size: 36
106502405 TGTAAATTAC
106502415 GTAAGTTATGTAAGTTATGATATGATATTTATTTAT
1 GTAAGTTATGTAAGTTATGATATGATATTTATTTAT
* * *
106502451 GTAAGTTATGTAAATTATGTAAGTTATGTAAGTGATGTAAATTAT
1 GTAAGTTATGTAAGTTATG--A--TATG--A-T-AT-TTATTTAT
*
106502496 GTAAGTTATGTAAGTTATGATATGGTATTTATTTAT
1 GTAAGTTATGTAAGTTATGATATGATATTTATTTAT
*
106502532 GT--TTTATGTAAGTTATGAT
1 GTAAGTTATGTAAGTTATGAT
106502551 TAGCATCTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
34 16 0.19
36 26 0.31
37 2 0.02
38 2 0.02
40 4 0.05
41 4 0.05
42 1 0.01
43 2 0.02
44 2 0.02
45 24 0.29
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (36 bp):
GTAAGTTATGTAAGTTATGATATGATATTTATTTAT
Found at i:106504633 original size:19 final size:19
Alignment explanation
Indices: 106504609--106504660 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
106504599 GCGATTTTTG
*
106504609 TTTGGGGAAATTTTAAGGT
1 TTTGGGGAAATTTTAAGGA
*
106504628 TTTGGGGAAATTTTAGGGA
1 TTTGGGGAAATTTTAAGGA
106504647 TTTGGGGAAATTTT
1 TTTGGGGAAATTTT
106504661 TTAAGGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (19 bp):
TTTGGGGAAATTTTAAGGA
Found at i:106505335 original size:14 final size:14
Alignment explanation
Indices: 106505312--106505606 Score: 61
Period size: 14 Copynumber: 20.7 Consensus size: 14
106505302 GTAACACTTA
*
106505312 AAACCTTAAACCCT
1 AAACCATAAACCCT
* *
106505326 AAACCCTAAACCAT
1 AAACCATAAACCCT
* * *
106505340 ATAACC-TTAGCCAT
1 A-AACCATAAACCCT
* * *
106505354 AAAACCCTAAATCTT
1 -AAACCATAAACCCT
*
106505369 AAACCACAAACCCT
1 AAACCATAAACCCT
* * *
106505383 AAACTATATAGCCATT
1 AAACCATA-AACC-CT
*
106505399 AAA-CATGAAACCAT
1 AAACCAT-AAACCCT
*
106505413 AAATCC-CAAACCCT
1 AAA-CCATAAACCCT
* *
106505427 ATAATCACTAAA-CAT
1 A-AACCA-TAAACCCT
*
106505442 AAAACCTTAAACCCT
1 A-AACCATAAACCCT
** *
106505457 AAGTCATAACCCCT
1 AAACCATAAACCCT
* *
106505471 AAACCATATATCCT
1 AAACCATAAACCCT
* * *
106505485 -AGCCTTAAAATCCT
1 AAACCAT-AAACCCT
*
106505499 AAATCATAAACCAC-
1 AAACCATAAACC-CT
*
106505513 AAACCTTAAATCCC-
1 AAACCATAAA-CCCT
*
106505527 AAACCATACAATCACT
1 AAACCATA-AA-CCCT
106505543 AAACACA-AAACCCT
1 AAAC-CATAAACCCT
*
106505557 -AACCCT-AACCCT
1 AAACCATAAACCCT
** **
106505569 AAACTTTAAACTTT
1 AAACCATAAACCCT
*
106505583 AAACCATAAACACT
1 AAACCATAAACCCT
*
106505597 AAACCTTAAA
1 AAACCATAAA
106505607 ATCATAACCA
Statistics
Matches: 200, Mismatches: 59, Indels: 44
0.66 0.19 0.15
Matches are distributed among these distances:
12 7 0.04
13 11 0.05
14 125 0.62
15 41 0.20
16 14 0.07
17 2 0.01
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.21
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:106505599 original size:21 final size:21
Alignment explanation
Indices: 106505575--106505636 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
106505565 CCCTAAACTT
*
106505575 TAAACTTTAAACCATAAACAC
1 TAAACTTTAAACCATAAACAA
* * *
106505596 TAAACCTTAAAATCATAACCAA
1 TAAA-CTTTAAACCATAAACAA
106505618 TAAA-TTTGAAACCATAAAC
1 TAAACTTT-AAACCATAAAC
106505637 CTTAAACCAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 13 0.41
22 17 0.53
ACGTcount: A:0.53, C:0.21, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAACTTTAAACCATAAACAA
Found at i:106506061 original size:84 final size:82
Alignment explanation
Indices: 106505965--106506608 Score: 495
Period size: 84 Copynumber: 7.7 Consensus size: 82
106505955 CATCGTCTAG
* * *
106505965 GGCAAATGGGTATTGCAATTTTGCGGCGTTTTTTAAAGACGCCACTAAAATTTTTATTCCTTGTT
1 GGCAAAT-GGTATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAATTTAATTCCTTGTT
***
106506030 CGGAAACGTTTTCGTTTGA
65 -GGAAACGACGTCGTTTGA
* * * * * *
106506049 GGCAAATGGGTATTGCGATTTTGTGGCGTTTTCTAAAAACGCCACTAAAATTTTAATGCTTTGTA
1 GGCAAAT-GGTATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAATTTAATTCCTTGT-
** * *
106506114 ACGAAACGACGCCGTTGGA
64 TGGAAACGACGTCGTTTGA
* * * * * * * * * * *
106506133 GTCGAATTGGTATTGTAAATTCGCGGCGTTTGTGAAAAACGCTAGTAAAAATTTTATTCCTTATT
1 GGC-AAATGGTATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAATTTAATTCCTTGTT
**
106506198 CTAAAACGTA-GTCGTTTGA
65 -GGAAACG-ACGTCGTTTGA
** * * *
106506217 GGCAAATGGTATTGCAATTTTGCGGCGTTTTTTTAAAAATTCCACTAAAAGTTTAATGCTTTGTA
1 GGCAAATGGTATTGCAATTTTGCGGCG-TTTTTTAAAAACGCCACTAAAAATTTAATTCCTTGT-
106506282 AT-GAAACGACG-C-TGTTGAA
64 -TGGAAACGACGTCGT-TTG-A
* * * * * * * * *
106506301 GACAAGTTGGTATGGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTAATTCCCTATT
1 GGCAA-ATGGTATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAATTTAATTCCTTGTT
* * *
106506366 GTGAAACGATGTTGTTTAA
65 G-GAAACGACGTCGTTTGA
** * * * * *
106506385 GGCAAATGGTATTGCAAACTTGCGGCATTTCTTAAAAACGCCACTAAAAGTTTAATGCTTTGTAT
1 GGCAAATGGTATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAATTTAATTCCTTGT-T
* * *
106506450 TGAAACGACGCCGTTAGA
65 GGAAACGACGTCGTTTGA
* * * * * * * *
106506468 GTCAAAATAGTATTGCAAGTTTGCGGCGTTTGTGAAAAACACCACTAAAAATTTAGTTCCATGTT
1 GGC-AAATGGTATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAATTTAATTCCTTGTT
* *
106506533 GTGAAACGACGTCCTTTAA
65 G-GAAACGACGTCGTTTGA
*
106506552 GGCAAATGGTTATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAGTTTAAT
1 GGCAAATGG-TATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAATTTAAT
106506609 GCTTTGTAAT
Statistics
Matches: 426, Mismatches: 115, Indels: 38
0.74 0.20 0.07
Matches are distributed among these distances:
82 2 0.00
83 91 0.21
84 307 0.72
85 24 0.06
86 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (82 bp):
GGCAAATGGTATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAATTTAATTCCTTGTTG
GAAACGACGTCGTTTGA
Found at i:106506190 original size:168 final size:167
Alignment explanation
Indices: 106505973--106506684 Score: 788
Period size: 168 Copynumber: 4.2 Consensus size: 167
106505963 AGGGCAAATG
* * * * * * *
106505973 GGTATTGCAATTTTGCGGCGTTTTTTAAAGACGCCACTAAAATTTTTATTCCTTGTTCG-GAAAC
1 GGTATTGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTTATTCCTTATT-GTGAAAC
** * * * *
106506037 GTTTTCGTTTGAGGCAAATGGGTATTGCGATTTTGTGGCGTTTTCTAAAAACGCCACTAAAATTT
65 GTAGTCGTTTAAGGCAAAT-GGTATTGCAATTTTGCGGCGTTTTCTAAAAACGCCACTAAAAGTT
*
106506102 TAATGCTTTGTAACGAAACGACGCCGTTGGAGTCGAATT
129 TAATGCTTTGTAATGAAACGACGCCGTTGGAGTCGAATT
* * * * *
106506141 GGTATTGTAAATTCGCGGCGTTTGTGAAAAACGCTAGTAAAAATTTTATTCCTTATTCTAAAACG
1 GGTATTGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTTATTCCTTATTGTGAAACG
* * **
106506206 TAGTCGTTTGAGGCAAATGGTATTGCAATTTTGCGGCGTTTTTTTAAAAATTCCACTAAAAGTTT
66 TAGTCGTTTAAGGCAAATGGTATTGCAATTTTGCGGCG-TTTTCTAAAAACGCCACTAAAAGTTT
* * *
106506271 AATGCTTTGTAATGAAACGACGCTGTTGAAGAC-AAGTT
130 AATGCTTTGTAATGAAACGACGCCGTTGGAGTCGAA-TT
* * *
106506309 GGTATGGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTAATTCCCTATTGTGAAACG
1 GGTATTGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTTATTCCTTATTGTGAAACG
* ** *
106506374 -ATGTTGTTTAAGGCAAATGGTATTGCAAACTTGCGGC-ATTTCTTAAAAACGCCACTAAAAGTT
66 TA-GTCGTTTAAGGCAAATGGTATTGCAATTTTGCGGCGTTTTC-TAAAAACGCCACTAAAAGTT
* * * *
106506437 TAATGCTTTGTATTGAAACGACGCCGTTAGAGTCAAAAT
129 TAATGCTTTGTAATGAAACGACGCCGTTGGAGTCGAATT
* * * * * *
106506476 AGTATTGCAAGTTTGCGGCGTTTGTGAAAAACACCACTAAAAA-TTTAGTTCCATGTTGTGAAAC
1 GGTATTGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTTA-TTCCTTATTGTGAAAC
* *
106506540 G-ACGTCCTTTAAGGCAAATGGTTATTGCAATTTTGCGGCGTTTTTTAAAAACGCCACTAAAAGT
65 GTA-GTCGTTTAAGGCAAATGG-TATTGCAATTTTGCGGCGTTTTCTAAAAACGCCACTAAAAGT
* * *
106506604 TTAATGCTTTGTAATGAAATGATGCCATTGGAGTCGAATTT
128 TTAATGCTTTGTAATGAAACGACGCCGTTGGAGTCGAA-TT
** * ** ** *
106506645 ATTATTGCAAATTTGCAACGTTTGTGGGAAACGCCGCTAA
1 GGTATTGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAA
106506685 TGCTGGACCT
Statistics
Matches: 458, Mismatches: 76, Indels: 19
0.83 0.14 0.03
Matches are distributed among these distances:
166 6 0.01
167 139 0.30
168 277 0.60
169 36 0.08
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (167 bp):
GGTATTGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTTATTCCTTATTGTGAAACG
TAGTCGTTTAAGGCAAATGGTATTGCAATTTTGCGGCGTTTTCTAAAAACGCCACTAAAAGTTTA
ATGCTTTGTAATGAAACGACGCCGTTGGAGTCGAATT
Found at i:106506599 original size:335 final size:336
Alignment explanation
Indices: 106505973--106506622 Score: 855
Period size: 335 Copynumber: 1.9 Consensus size: 336
106505963 AGGGCAAATG
* * * * * * * * * *
106505973 GGTATTGCAATTTTGCGGCGTTTTTTAAAGACGCCACTAAAATTTTTATTCCTTGTTCGGAAACG
1 GGTATGGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTAATTCCCTATTCGGAAACG
* * * ** * * *
106506038 TTTTCGTTTGAGGCAAATGGGTATTGCGATTTTGTGGCGTTTTCTAAAAACGCCACTAAAATTTT
66 TGTTCGTTTAAGGCAAATGGGTATTGCAAACTTGCGGCATTTTCTAAAAACGCCACTAAAAGTTT
* * * * *
106506103 AATGCTTTGTAACGAAACGACGCCGTTGGAGTCGAATTGGTATTGTAAATTCGCGGCGTTTGTGA
131 AATGCTTTGTAACGAAACGACGCCGTTAGAGTCAAAATAGTATTGCAAATTCGCGGCGTTTGTGA
* * * * * *
106506168 AAAACGCTAGTAAAAATTTTATTCCTTATTCTAAAACGTAGTCGTTTGAGGCAAATGGTATTGCA
196 AAAACACCACTAAAAATTTTATTCCATATTCTAAAACGTAGTCCTTTAAGGCAAATGGTATTGCA
**
106506233 ATTTTGCGGCGTTTTTTTAAAAATTCCACTAAAAGTTTAATGCTTTGTAATGAAACGACGCTGTT
261 ATTTTGCGGCGTTTTTTTAAAAACGCCACTAAAAGTTTAATGCTTTGTAATGAAACGACGCTGTT
106506298 GAAGACAAGTT
326 GAAGACAAGTT
106506309 GGTATGGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTAATTCCCTATT-GTGAAAC
1 GGTATGGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTAATTCCCTATTCG-GAAAC
106506373 GATGTT-GTTTAAGGCAAAT-GGTATTGCAAACTTGCGGCA-TTTCTTAAAAACGCCACTAAAAG
65 G-TGTTCGTTTAAGGCAAATGGGTATTGCAAACTTGCGGCATTTTC-TAAAAACGCCACTAAAAG
** * *
106506435 TTTAATGCTTTGTATTGAAACGACGCCGTTAGAGTCAAAATAGTATTGCAAGTTTGCGGCGTTTG
128 TTTAATGCTTTGTAACGAAACGACGCCGTTAGAGTCAAAATAGTATTGCAAATTCGCGGCGTTTG
* * *
106506500 TGAAAAACACCACTAAAAA-TTTAGTTCCATGTTGTGAAACG-ACGTCCTTTAAGGCAAATGGTT
193 TGAAAAACACCACTAAAAATTTTA-TTCCATATTCTAAAACGTA-GTCCTTTAAGGCAAATGG-T
106506563 ATTGCAATTTTGCGGCG-TTTTTTAAAAACGCCACTAAAAGTTTAATGCTTTGTAATGAAA
255 ATTGCAATTTTGCGGCGTTTTTTTAAAAACGCCACTAAAAGTTTAATGCTTTGTAATGAAA
106506623 TGATGCCATT
Statistics
Matches: 270, Mismatches: 38, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
334 9 0.03
335 175 0.65
336 83 0.31
337 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (336 bp):
GGTATGGCAAATTCGCGGCGTTTGTGAAAAACGCCACTAAAAATTTAATTCCCTATTCGGAAACG
TGTTCGTTTAAGGCAAATGGGTATTGCAAACTTGCGGCATTTTCTAAAAACGCCACTAAAAGTTT
AATGCTTTGTAACGAAACGACGCCGTTAGAGTCAAAATAGTATTGCAAATTCGCGGCGTTTGTGA
AAAACACCACTAAAAATTTTATTCCATATTCTAAAACGTAGTCCTTTAAGGCAAATGGTATTGCA
ATTTTGCGGCGTTTTTTTAAAAACGCCACTAAAAGTTTAATGCTTTGTAATGAAACGACGCTGTT
GAAGACAAGTT
Found at i:106507146 original size:22 final size:21
Alignment explanation
Indices: 106507117--106507172 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
106507107 ATTTTTTGTC
* *
106507117 AAAAAATATTTTTTTAAATGT
1 AAAAAATATTTTTTCAAATCT
106507138 ATAAAAATATATTTTTCAAATCT
1 A-AAAAATAT-TTTTTCAAATCT
*
106507161 AAAAATTATTTT
1 AAAAAATATTTT
106507173 AAGAACTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 15 0.50
23 11 0.37
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (21 bp):
AAAAAATATTTTTTCAAATCT
Found at i:106515994 original size:26 final size:26
Alignment explanation
Indices: 106515958--106516009 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
106515948 TAGCTCTAAC
*
106515958 CCATTAAGATTCTCTTATTGAAATGG
1 CCATTAAGATTCTCTTATGGAAATGG
*
106515984 CCATTAAGATTCTTTTATGGAAATGG
1 CCATTAAGATTCTCTTATGGAAATGG
106516010 GAACGAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (26 bp):
CCATTAAGATTCTCTTATGGAAATGG
Found at i:106524274 original size:46 final size:46
Alignment explanation
Indices: 106524110--106524280 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
106524100 GGTTGAGCAT
* * *
106524110 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-CGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * * *
106524155 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
106524200 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
106524248 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
106524281 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 2 0.02
45 30 0.29
46 32 0.30
47 28 0.27
48 5 0.05
50 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:106526116 original size:25 final size:25
Alignment explanation
Indices: 106526088--106526135 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
106526078 ATATATAGTA
**
106526088 TTAAAAATATGTACATAATATAGCG
1 TTAAAAATACATACATAATATAGCG
106526113 TTAAAAATACATACATAATATAG
1 TTAAAAATACATACATAATATAG
106526136 TTATTGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (25 bp):
TTAAAAATACATACATAATATAGCG
Found at i:106526409 original size:22 final size:22
Alignment explanation
Indices: 106526363--106526631 Score: 75
Period size: 22 Copynumber: 12.6 Consensus size: 22
106526353 CATAAGATAG
*
106526363 TATA-AAAATATATAACTAATGA
1 TATATAAAATATAT-ACTAATAA
*
106526385 TAT-TAAAATATATACGTCATAA
1 TATATAAAATATATAC-TAATAA
106526407 TATATAAAA-A-ATA-TAAT-A
1 TATATAAAATATATACTAATAA
* * * *
106526425 TTTAAAAAATATGTACATAACATA
1 TATATAAAATATATAC-TAATA-A
*
106526449 TATAAAAAATATATACATAAT-A
1 TATATAAAATATATAC-TAATAA
*
106526471 TAGTATTAAAATATTTAC--ATAA
1 TA-TA-TAAAATATATACTAATAA
* *
106526493 TATAT-ACATAT-TA-GAA-AA
1 TATATAAAATATATACTAATAA
*
106526511 TA-A-AAAACGACTAT--TAATAA
1 TATATAAAA-TA-TATACTAATAA
*
106526531 TACTACATAAATATATAC--ATATA
1 TA-TATA-AAATATATACTAATA-A
106526554 TATATTAAAA-ATATA-TACAT-A
1 TATA-TAAAATATATACTA-ATAA
* *
106526575 TATAAAAAATATACACTAAT-A
1 TATATAAAATATATACTAATAA
*
106526596 TATAATAATAATA-ATAATAATAA
1 TAT-ATAA-AATATATACTAATAA
106526619 TA-ATAATAATATA
1 TATATAA-AATATA
106526632 GAAATACAAA
Statistics
Matches: 188, Mismatches: 23, Indels: 72
0.66 0.08 0.25
Matches are distributed among these distances:
17 3 0.02
18 15 0.08
19 13 0.07
20 12 0.06
21 38 0.20
22 53 0.28
23 22 0.12
24 32 0.17
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (22 bp):
TATATAAAATATATACTAATAA
Found at i:106526422 original size:16 final size:16
Alignment explanation
Indices: 106526403--106526436 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
106526393 TATATACGTC
106526403 ATAATATATAAAAAAT
1 ATAATATATAAAAAAT
*
106526419 ATAATATTTAAAAAAT
1 ATAATATATAAAAAAT
106526435 AT
1 AT
106526437 GTACATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAATATATAAAAAAT
Found at i:106526454 original size:24 final size:24
Alignment explanation
Indices: 106526419--106526498 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
106526409 TATAAAAAAT
*
106526419 ATAATAT-T-TAAAAAATATGTAC
1 ATAATATATATAAAAAATATATAC
*
106526441 ATAACATATATAAAAAATATATAC
1 ATAATATATATAAAAAATATATAC
* *
106526465 ATAATATAGTAT-TAAAATATTTAC
1 ATAATATA-TATAAAAAATATATAC
106526489 ATAATATATA
1 ATAATATATA
106526499 CATATTAGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.12
23 3 0.06
24 38 0.76
25 3 0.06
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (24 bp):
ATAATATATATAAAAAATATATAC
Found at i:106526471 original size:35 final size:35
Alignment explanation
Indices: 106526432--106526502 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
106526422 ATATTTAAAA
*
106526432 AATAT-GTACATAACATATATAAAAAATATATACAT
1 AATATAGTA-ATAAAATATATAAAAAATATATACAT
* * * *
106526467 AATATAGTATTAAAATATTTACATAATATATACAT
1 AATATAGTAATAAAATATATAAAAAATATATACAT
106526502 A
1 A
106526503 TTAGAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (35 bp):
AATATAGTAATAAAATATATAAAAAATATATACAT
Found at i:106526567 original size:21 final size:21
Alignment explanation
Indices: 106526538--106526608 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 21
106526528 TAATACTACA
*
106526538 TAAATATATACATATATATAT
1 TAAAAATATACATATATATAT
*
106526559 TAAAAATAT--ATACATATAT
1 TAAAAATATACATATATATAT
* *
106526578 AAAAAATATACACTAATATATAA
1 TAAAAATATACA-T-ATATATAT
*
106526601 TAATAATA
1 TAAAAATA
106526609 ATAATAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 17 0.44
21 9 0.23
22 1 0.03
23 12 0.31
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAAATATACATATATATAT
Found at i:106526597 original size:19 final size:18
Alignment explanation
Indices: 106526549--106526589 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
106526539 AAATATATAC
*
106526549 ATATATATAT-TAAAAAT
1 ATATACATATATAAAAAT
106526566 ATATACATATATAAAAA-
1 ATATACATATATAAAAAT
106526583 ATATACA
1 ATATACA
106526590 CTAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATACATATATAAAAAT
Found at i:106526605 original size:3 final size:3
Alignment explanation
Indices: 106526591--106526629 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
106526581 AAATATACAC
106526591 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
106526630 TAGAAATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:106526889 original size:124 final size:126
Alignment explanation
Indices: 106526747--106526997 Score: 325
Period size: 124 Copynumber: 2.0 Consensus size: 126
106526737 TATAATAATG
* * *
106526747 ATAATAATACTAACAATAACAATGAAATAC-AAAAAAGTAAATATAATATAATAATGA-TACTAA
1 ATAATAATACCAACAATAACAATGAAATACAAAAAAAATAAACATAATATAATAAT-ATTA--AA
*
106526810 AATAAAGCAATTAAAAATAGTGTTATAT-T-TATATATAT-GTATATAATAAAAATATACACTA
63 AACAAAGCAATTAAAAATAGTGTTATATATATATATATATAGTATATAATAAAAATATACACTA
*
106526871 ATAATAATACCAGA-AATAATAATGAAATACAAAAAAAAATAAACATAATATAATAATATTAAAA
1 ATAATAATACCA-ACAATAACAATGAAATAC-AAAAAAAATAAACATAATATAATAATATTAAAA
* *
106526935 ACAAAGTAATTAAAAATAGTGTTATATATAAGTATATATATACGTATATAATAAGAATATACA
64 ACAAAGCAATTAAAAATAGTGTTATATAT-A-TATATATATA-GTATATAATAAAAATATACA
106526998 TGAATATATA
Statistics
Matches: 110, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
124 54 0.49
125 3 0.03
126 25 0.23
128 9 0.08
130 19 0.17
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (126 bp):
ATAATAATACCAACAATAACAATGAAATACAAAAAAAATAAACATAATATAATAATATTAAAAAC
AAAGCAATTAAAAATAGTGTTATATATATATATATATAGTATATAATAAAAATATACACTA
Found at i:106526974 original size:12 final size:12
Alignment explanation
Indices: 106526957--106526995 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
106526947 AAAATAGTGT
106526957 TATATATAAGTA
1 TATATATAAGTA
*
106526969 TATATATACGTA
1 TATATATAAGTA
*
106526981 TATA-ATAAGAA
1 TATATATAAGTA
106526992 TATA
1 TATA
106526996 CATGAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (12 bp):
TATATATAAGTA
Found at i:106533673 original size:26 final size:27
Alignment explanation
Indices: 106533617--106533682 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
106533607 ATTAACAAAT
* * *
106533617 TTAAAAATAATTATAATTAACTTATTT
1 TTAAAAATAAATATAATTAACTAATTA
106533644 TTAAAAATAAATATTAATT-AC-AATTA
1 TTAAAAATAAATA-TAATTAACTAATTA
*
106533670 TTAAACATAAATA
1 TTAAAAATAAATA
106533683 AATACAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.44
27 14 0.41
28 5 0.15
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (27 bp):
TTAAAAATAAATATAATTAACTAATTA
Found at i:106534576 original size:31 final size:31
Alignment explanation
Indices: 106534528--106534591 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
106534518 AATTGATCAC
* *
106534528 TGAATTATTTAAAAGTTTTCATTTAAGTTAT
1 TGAACTATTCAAAAGTTTTCATTTAAGTTAT
*
106534559 TGAACTATTCAAAAGTTTTTATTTAAGTTAT
1 TGAACTATTCAAAAGTTTTCATTTAAGTTAT
106534590 TG
1 TG
106534592 TCTATTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTTAAGTTAT
Found at i:106534601 original size:27 final size:29
Alignment explanation
Indices: 106534539--106534605 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
106534529 GAATTATTTA
*
106534539 AAAGTTTTCATTTAAGTTATTGAACTATT
1 AAAGTTTTTATTTAAGTTATTGAACTATT
*
106534568 CAAAAGTTTTTATTTAAGTTATTG-TCTATT
1 --AAAGTTTTTATTTAAGTTATTGAACTATT
106534598 -AAGTTTTT
1 AAAGTTTTT
106534606 TTCTTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 8 0.24
30 5 0.15
31 21 0.62
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (29 bp):
AAAGTTTTTATTTAAGTTATTGAACTATT
Found at i:106535738 original size:25 final size:25
Alignment explanation
Indices: 106535684--106535738 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
106535674 AAAAATTATA
* * *
106535684 TTTTTCATCTTTTTATTTTTCTATC
1 TTTTTAATCTTTTCATTTTTCTAAC
*
106535709 CTTTTAATC-TTTCATTTTTCTTAAC
1 TTTTTAATCTTTTCATTTTTC-TAAC
106535734 TTTTT
1 TTTTT
106535739 TTTCACTCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTTAATCTTTTCATTTTTCTAAC
Found at i:106537222 original size:22 final size:19
Alignment explanation
Indices: 106537141--106537213 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
106537131 ATAATCTTCA
106537141 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
106537160 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
106537179 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
106537196 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
106537214 AGATATGATT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.33
19 35 0.67
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:106537230 original size:22 final size:21
Alignment explanation
Indices: 106537192--106537248 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
106537182 ATACAATCTT
* *
106537192 AGATATGATATGCAATCTTAG
1 AGATATGATTTGTAATCTTAG
106537213 AAGATATGATTTGTAATCTTAG
1 -AGATATGATTTGTAATCTTAG
* *
106537235 AGATTTAATTTGTA
1 AGATATGATTTGTA
106537249 GATACCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:106537245 original size:21 final size:22
Alignment explanation
Indices: 106537205--106537248 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
106537195 TATGATATGC
*
106537205 AATCTTAGAAGATATGATTTGT
1 AATCTTAGAAGATATAATTTGT
*
106537227 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
106537248 A
1 A
106537249 GATACCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:106537527 original size:18 final size:17
Alignment explanation
Indices: 106537504--106537537 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
106537494 TTTCCCTGAT
*
106537504 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
106537522 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
106537538 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:106545029 original size:16 final size:16
Alignment explanation
Indices: 106545008--106545038 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
106544998 AACATAGTTC
106545008 GCATCATAACTCTTAA
1 GCATCATAACTCTTAA
106545024 GCATCATAACTCTTA
1 GCATCATAACTCTTA
106545039 TCGCCCAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
GCATCATAACTCTTAA
Found at i:106547005 original size:78 final size:78
Alignment explanation
Indices: 106546920--106547268 Score: 560
Period size: 78 Copynumber: 4.5 Consensus size: 78
106546910 ATATTTCACA
* *
106546920 GAGAGCAGATCGAAGACATAGCAGATCTGATCTTCATTGAAGTAGATCCAAGATGATTTGGCATC
1 GAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATC
106546985 TCTGTATTAGACG
66 TCTGTATTAGACG
*
106546998 GAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATC
1 GAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATC
106547063 TCTGTATTAGACG
66 TCTGTATTAGACG
* **
106547076 GGGAGCAGATCGAAGACATAATAGAT-TGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
1 GAGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
106547140 CTCTGTATTAGACAG
65 CTCTGTATTAGAC-G
* *
106547155 G-GAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGAAGCAGATCCAAGATGATTTGGTAT
1 GAGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCAT
*
106547218 CTCTATATTAGACG
65 CTCTGTATTAGACG
*
106547232 GCGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GAGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
106547269 GTGTTTACAT
Statistics
Matches: 256, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
77 3 0.01
78 250 0.98
79 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
GAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATC
TCTGTATTAGACG
Found at i:106547406 original size:44 final size:45
Alignment explanation
Indices: 106547208--106547436 Score: 216
Period size: 45 Copynumber: 5.1 Consensus size: 45
106547198 GATCCAAGAT
* * *
106547208 GATTTGGTATCTCTATATTAGACGGCGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAGCA
* * * * * * *
106547255 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGAT-GACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAG-CA
* * * *
106547300 GATTTGGCATATCTATATTAGACGGGGAGCAAATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
*
106547345 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
* *
106547389 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
106547434 GAT
1 GAT
106547437 ATCGCTTTCC
Statistics
Matches: 145, Mismatches: 28, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 45 0.31
45 71 0.49
46 4 0.03
47 19 0.13
48 4 0.03
49 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCA
Found at i:106547835 original size:18 final size:18
Alignment explanation
Indices: 106547787--106547839 Score: 81
Period size: 17 Copynumber: 2.9 Consensus size: 18
106547777 ATAATCTTCA
106547787 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
106547806 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
106547823 ATGATTGCAATCTTAGA
1 ATGATTGCAATCTTAGA
106547840 AGATATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.52
18 11 0.35
19 4 0.13
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:106548154 original size:18 final size:18
Alignment explanation
Indices: 106548131--106548167 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
106548121 TTTCCCTGAT
* *
106548131 TTTTTTTTATATTTTTAG
1 TTTTTTTAATAATTTTAG
106548149 TTTTTTTAATAATTTTAG
1 TTTTTTTAATAATTTTAG
106548167 T
1 T
106548168 ATCATATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTTTTAATAATTTTAG
Found at i:106549149 original size:98 final size:98
Alignment explanation
Indices: 106548980--106549177 Score: 396
Period size: 98 Copynumber: 2.0 Consensus size: 98
106548970 AGCCTAGTAA
106548980 ATGGGCCTTAATTTTTGCTTGAGTCTGACCCACACCCGACTCGGCCCATAATCACCTCTAATAAA
1 ATGGGCCTTAATTTTTGCTTGAGTCTGACCCACACCCGACTCGGCCCATAATCACCTCTAATAAA
106549045 AATTAAATTTTAATAAATCTTAAAGATTTTGGT
66 AATTAAATTTTAATAAATCTTAAAGATTTTGGT
106549078 ATGGGCCTTAATTTTTGCTTGAGTCTGACCCACACCCGACTCGGCCCATAATCACCTCTAATAAA
1 ATGGGCCTTAATTTTTGCTTGAGTCTGACCCACACCCGACTCGGCCCATAATCACCTCTAATAAA
106549143 AATTAAATTTTAATAAATCTTAAAGATTTTGGT
66 AATTAAATTTTAATAAATCTTAAAGATTTTGGT
106549176 AT
1 AT
106549178 CTTTTTAGAG
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 100 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (98 bp):
ATGGGCCTTAATTTTTGCTTGAGTCTGACCCACACCCGACTCGGCCCATAATCACCTCTAATAAA
AATTAAATTTTAATAAATCTTAAAGATTTTGGT
Found at i:106549536 original size:31 final size:31
Alignment explanation
Indices: 106549496--106549559 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
106549486 ATTTTATTAT
* *
106549496 TGAATTATTCGAAAA-TGTTCATTTAAGTTAC
1 TGAACTATTC-AAAAGTGTTCATTTAAGTCAC
* *
106549527 TGAACTATTCAAAAGTTTTTATTTAAGTCAC
1 TGAACTATTCAAAAGTGTTCATTTAAGTCAC
106549558 TG
1 TG
106549560 GCTATTGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (31 bp):
TGAACTATTCAAAAGTGTTCATTTAAGTCAC
Found at i:106551179 original size:26 final size:27
Alignment explanation
Indices: 106551123--106551188 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
106551113 ATTAACAAAT
* * *
106551123 TTAAAAATAATTATAATTAACTTATTT
1 TTAAAAATAAATATAATTAACTAATTA
106551150 TTAAAAATAAATATTAATT-AC-AATTA
1 TTAAAAATAAATA-TAATTAACTAATTA
*
106551176 TTAAACATAAATA
1 TTAAAAATAAATA
106551189 AATACAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.44
27 14 0.41
28 5 0.15
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (27 bp):
TTAAAAATAAATATAATTAACTAATTA
Found at i:106552082 original size:31 final size:31
Alignment explanation
Indices: 106552034--106552097 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
106552024 AATTGATCAC
* *
106552034 TGAATTATTTAAAAGTTTTCATTTAAGTTAT
1 TGAACTATTCAAAAGTTTTCATTTAAGTTAT
*
106552065 TGAACTATTCAAAAGTTTTTATTTAAGTTAT
1 TGAACTATTCAAAAGTTTTCATTTAAGTTAT
106552096 TG
1 TG
106552098 TCTATTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTTAAGTTAT
Found at i:106552107 original size:27 final size:29
Alignment explanation
Indices: 106552045--106552111 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
106552035 GAATTATTTA
*
106552045 AAAGTTTTCATTTAAGTTATTGAACTATT
1 AAAGTTTTTATTTAAGTTATTGAACTATT
*
106552074 CAAAAGTTTTTATTTAAGTTATTG-TCTATT
1 --AAAGTTTTTATTTAAGTTATTGAACTATT
106552104 -AAGTTTTT
1 AAAGTTTTT
106552112 TCTTAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 8 0.24
30 5 0.15
31 21 0.62
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (29 bp):
AAAGTTTTTATTTAAGTTATTGAACTATT
Found at i:106556651 original size:9 final size:9
Alignment explanation
Indices: 106556629--106556668 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
106556619 TTTATATTTT
106556629 TAAAAAATA
1 TAAAAAATA
*
106556638 T-AAAATTA
1 TAAAAAATA
106556646 TAAAAAATA
1 TAAAAAATA
*
106556655 TAAAAAATT
1 TAAAAAATA
106556664 TAAAA
1 TAAAA
106556669 TTTTCTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
TAAAAAATA
Found at i:106557080 original size:26 final size:27
Alignment explanation
Indices: 106557024--106557089 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
106557014 ATTAACAAAT
* * *
106557024 TTAAAAATAATTATAATTAACTTATTT
1 TTAAAAATAAATATAATTAACTAATTA
106557051 TTAAAAATAAATATTAATT-AC-AATTA
1 TTAAAAATAAATA-TAATTAACTAATTA
*
106557077 TTAAACATAAATA
1 TTAAAAATAAATA
106557090 AATACAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.44
27 14 0.41
28 5 0.15
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (27 bp):
TTAAAAATAAATATAATTAACTAATTA
Found at i:106557985 original size:31 final size:31
Alignment explanation
Indices: 106557943--106558008 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
106557933 CAATTTGATC
* *
106557943 ATTGAATTATTCGAAAGTTTTCATTTAAGTT
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTT
*
106557974 ATTGAACTATTCAAAAGTTTTTATTTAAGTT
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTT
106558005 ATTG
1 ATTG
106558009 TCTATTAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTCATTTAAGTT
Found at i:106558018 original size:27 final size:29
Alignment explanation
Indices: 106557956--106558022 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
106557946 GAATTATTCG
*
106557956 AAAGTTTTCATTTAAGTTATTGAACTATT
1 AAAGTTTTTATTTAAGTTATTGAACTATT
*
106557985 CAAAAGTTTTTATTTAAGTTATTG-TCTATT
1 --AAAGTTTTTATTTAAGTTATTGAACTATT
106558015 -AAGTTTTT
1 AAAGTTTTT
106558023 TCTTAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 8 0.24
30 5 0.15
31 21 0.62
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (29 bp):
AAAGTTTTTATTTAAGTTATTGAACTATT
Found at i:106560906 original size:19 final size:19
Alignment explanation
Indices: 106560882--106560939 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
106560872 CCCCACACTT
106560882 AATATCACAGTATAAACAA
1 AATATCACAGTATAAACAA
* *
106560901 AATAT--C---AT-AAGAT
1 AATATCACAGTATAAACAA
106560914 AATATCACAGTATAAACAA
1 AATATCACAGTATAAACAA
106560933 AATATCA
1 AATATCA
106560940 TAAGAGAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
13 8 0.28
14 2 0.07
15 1 0.03
17 1 0.03
18 2 0.07
19 15 0.52
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (19 bp):
AATATCACAGTATAAACAA
Found at i:106560917 original size:32 final size:32
Alignment explanation
Indices: 106560881--106560944 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
106560871 TCCCCACACT
106560881 TAATATCACAGTATAAACAAAATATCATAAGA
1 TAATATCACAGTATAAACAAAATATCATAAGA
106560913 TAATATCACAGTATAAACAAAATATCATAAGA
1 TAATATCACAGTATAAACAAAATATCATAAGA
106560945 GAAGGAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (32 bp):
TAATATCACAGTATAAACAAAATATCATAAGA
Found at i:106564346 original size:38 final size:38
Alignment explanation
Indices: 106564285--106564388 Score: 109
Period size: 38 Copynumber: 2.7 Consensus size: 38
106564275 TAAAGACCCG
* ** *
106564285 CAGGCTTCGTGCCGGTAAAATATCCGGGTTAAATCCCA
1 CAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCCA
* * *
106564323 CAGGCTTCGTGCTGGTATTATATCAGAGATAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCCA
* * * *
106564361 CAAGCCTAGTGCTGGTATTATATTCGGG
1 CAGGCTTCGTGCTGGTATTATATCCGGG
106564389 CCTTTGTGCC
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTATTATATCCGGGATAAATCCCA
Found at i:106564442 original size:43 final size:43
Alignment explanation
Indices: 106564379--106564570 Score: 330
Period size: 43 Copynumber: 4.5 Consensus size: 43
106564369 GTGCTGGTAT
* * *
106564379 TATATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGATGATG
1 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
* *
106564422 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATG
1 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
*
106564465 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
1 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
106564508 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
1 TATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
106564551 TATATTCGGGCCTTCGTGCC
1 TATATTCGGGCCTTCGTGCC
106564571 GGTGATGTAT
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.31
Consensus pattern (43 bp):
TATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATG
Found at i:106564573 original size:27 final size:27
Alignment explanation
Indices: 106564535--106564597 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
106564525 GCCTAGCAGG
*
106564535 CTTCATGCCGGTGATGTATATTCGGGC
1 CTTCGTGCCGGTGATGTATATTCGGGC
106564562 CTTCGTGCCGGTGATGTATATTCGGGC
1 CTTCGTGCCGGTGATGTATATTCGGGC
106564589 CTTCGTGCC
1 CTTCGTGCC
106564598 TAGGAGGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.11, C:0.25, G:0.30, T:0.33
Consensus pattern (27 bp):
CTTCGTGCCGGTGATGTATATTCGGGC
Found at i:106564581 original size:70 final size:70
Alignment explanation
Indices: 106564492--106564640 Score: 253
Period size: 70 Copynumber: 2.1 Consensus size: 70
106564482 GCCTAGCAGG
*
106564492 CTTCATGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATT
1 CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATT
*
106564557 CGGGC
66 CGAGC
* * *
106564562 CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGGAGGCTTCGTGCCGGTGATGTGTATT
1 CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATT
106564627 CGAGC
66 CGAGC
106564632 CTTCGTGCC
1 CTTCGTGCC
106564641 TAGTAGGCTT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.32
Consensus pattern (70 bp):
CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATT
CGAGC
Found at i:106564606 original size:113 final size:113
Alignment explanation
Indices: 106564449--106564683 Score: 389
Period size: 113 Copynumber: 2.1 Consensus size: 113
106564439 GCCTAGCAGG
*
106564449 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATT
1 CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATT
* *
106564514 CGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATTCGGGC
66 CGAGCCTTCGTGCCTAGCAGGCTTCATACCGGTGATGTATATTCGGGC
* * *
106564562 CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGGAGGCTTCGTGCCGGTGATGTGTATT
1 CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATT
* * *
106564627 CGAGCCTTCGTGCCTAGTAGGCTTCGTACCGGTGATGTGTATTCGGGC
66 CGAGCCTTCGTGCCTAGCAGGCTTCATACCGGTGATGTATATTCGGGC
106564675 CTTCGTGCC
1 CTTCGTGCC
106564684 TAGCAGACGT
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.31
Consensus pattern (113 bp):
CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATT
CGAGCCTTCGTGCCTAGCAGGCTTCATACCGGTGATGTATATTCGGGC
Found at i:106564606 original size:156 final size:156
Alignment explanation
Indices: 106564406--106564689 Score: 496
Period size: 156 Copynumber: 1.8 Consensus size: 156
106564396 GCCTAGCAGG
*
106564406 CTTCGTGCCGATGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
1 CTTCGTGCCGATGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
* *
106564471 CGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGC
66 CGAGCCTTCGTGCCTAGCAGGCTTCATACCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGC
106564536 TTCATGCCGGTGATGTATATTCGGGC
131 TTCATGCCGGTGATGTATATTCGGGC
* *
106564562 CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGGAGGCTTCGTGCCGGTGATGTGTATT
1 CTTCGTGCCGATGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
* * *
106564627 CGAGCCTTCGTGCCTAGTAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAG
66 CGAGCCTTCGTGCCTAGCAGGCTTCATACCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAG
106564690 ACGTAATACC
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
156 120 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.31
Consensus pattern (156 bp):
CTTCGTGCCGATGATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATT
CGAGCCTTCGTGCCTAGCAGGCTTCATACCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGC
TTCATGCCGGTGATGTATATTCGGGC
Found at i:106564609 original size:43 final size:43
Alignment explanation
Indices: 106564562--106564686 Score: 214
Period size: 43 Copynumber: 2.9 Consensus size: 43
106564552 ATATTCGGGC
*
106564562 CTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGGAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGGAGG
* *
106564605 CTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTAGTAGG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGGAGG
*
106564648 CTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTAG
1 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAG
106564687 CAGACGTAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (43 bp):
CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGGAGG
Found at i:106567077 original size:15 final size:15
Alignment explanation
Indices: 106567039--106567091 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
106567029 GAAAATGAAA
106567039 AAAATAATAAGAAA--
1 AAAATAA-AAGAAACT
*
106567053 AATAAT-AAAGATACT
1 AA-AATAAAAGAAACT
106567068 AAAATAAAAGAAACT
1 AAAATAAAAGAAACT
106567083 AAAATAAAA
1 AAAATAAAA
106567092 TAATAAGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 22 0.67
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAATAAAAGAAACT
Found at i:106567090 original size:5 final size:5
Alignment explanation
Indices: 106567067--106567167 Score: 62
Period size: 5 Copynumber: 19.4 Consensus size: 5
106567057 ATAAAGATAC
* * ** * * *
106567067 TAAAA TAAAA GAAAC TAAAA TAAAA TAATAA GCAAA GAGAA TAACAA GAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAA-AA TAAAA
*
106567119 GAAGCAA TTAAAA TAAAA TATAAA TAAAA -AAAA TAAAA TAAAA -AAAA
1 TAA--AA -TAAAA TAAAA TA-AAA TAAAA TAAAA TAAAA TAAAA TAAAA
106567166 TA
1 TA
106567168 GGGAAAAAAG
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
4 8 0.11
5 50 0.66
6 14 0.18
7 2 0.03
8 2 0.03
ACGTcount: A:0.73, C:0.04, G:0.07, T:0.16
Consensus pattern (5 bp):
TAAAA
Found at i:106567149 original size:13 final size:14
Alignment explanation
Indices: 106567127--106567167 Score: 64
Period size: 14 Copynumber: 2.8 Consensus size: 14
106567117 AAGAAGCAAT
106567127 TAAAATAAAATATAAA
1 TAAAA-AAAATA-AAA
106567143 TAAAAAAAATAAAA
1 TAAAAAAAATAAAA
106567157 TAAAAAAAATA
1 TAAAAAAAATA
106567168 GGGAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.56
15 6 0.24
16 5 0.20
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAAAAAAATAAAA
Found at i:106570977 original size:16 final size:17
Alignment explanation
Indices: 106570956--106570988 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
106570946 TAAAAATTAA
106570956 GCTAAA-AATAAAAATG
1 GCTAAATAATAAAAATG
106570972 GCTAAATTAATAAAAAT
1 GCTAAA-TAATAAAAAT
106570989 AAAGTATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (17 bp):
GCTAAATAATAAAAATG
Found at i:106575537 original size:46 final size:46
Alignment explanation
Indices: 106575481--106575708 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
106575471 AGTGTGCTCT
* * *
106575481 CTGATCTGAAATGTGTAAGACCATGATTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
106575527 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
106575573 GTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
106575619 GTGACATGAAAAGAATAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
106575665 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
106575709 TCATGTCAAA
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 165 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:106576809 original size:56 final size:56
Alignment explanation
Indices: 106576748--106576907 Score: 173
Period size: 56 Copynumber: 2.9 Consensus size: 56
106576738 TGGCATCGGT
* ** * *
106576748 ATATGTGTGCGAGTAAGACCACGTTTTATATGTTGTCATCGATATGTGA-TTCGGAA
1 ATATGTGTGCGAGTAAGACCACATTTTATACATTGGCATCGATATGTGACTTCAG-A
* * *
106576804 ATATGTATGCGAGTAGGACCACATTTTATACATTGGCATCGATATGTGACTTCAGT
1 ATATGTGTGCGAGTAAGACCACATTTTATACATTGGCATCGATATGTGACTTCAGA
* * *
106576860 ATATGTGTGCAAGTAAGACC-C-TGTCTATGACAGTGGCATCGATATGTG
1 ATATGTGTGCGAGTAAGACCACAT-TTTAT-ACATTGGCATCGATATGTG
106576908 GTTACATGTA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 1 0.01
55 5 0.06
56 78 0.89
57 4 0.05
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (56 bp):
ATATGTGTGCGAGTAAGACCACATTTTATACATTGGCATCGATATGTGACTTCAGA
Found at i:106577964 original size:165 final size:165
Alignment explanation
Indices: 106577690--106578023 Score: 652
Period size: 165 Copynumber: 2.0 Consensus size: 165
106577680 GCTAGATTAT
106577690 AGTTTGAAATATGGAATTTTGGTTTTTATATAATTTAAGCCATGCAAAAATGGCTTAACTTCTTT
1 AGTTTGAAATATGGAATTTTGGTTTTTATATAATTTAAGCCATGCAAAAATGGCTTAACTTCTTT
106577755 GCTTGAAATCGGTTATGCTTGATTATGGTTTGAGTTCGTTTTGGTTATAATGTTATGTGCTATGG
66 GCTTGAAATCGGTTATGCTTGATTATGGTTTGAGTTCGTTTTGGTTATAATGTTATGTGCTATGG
106577820 ATGAATGGTATTTGTGATATGTGTTTGTGTATTGA
131 ATGAATGGTATTTGTGATATGTGTTTGTGTATTGA
106577855 AGTTTGAAATATGGAATTTTGGTTTTTATATAATTTAAGCCATGC-AAAATGGCTTAACTTCTTT
1 AGTTTGAAATATGGAATTTTGGTTTTTATATAATTTAAGCCATGCAAAAATGGCTTAACTTCTTT
106577919 GCTTGAAATCGGTTATGCTTGATTATGGTTTGAGTTCGTTTTTGGTTATAATGTTATGTGCTATG
66 GCTTGAAATCGGTTATGCTTGATTATGGTTTGAGTTCG-TTTTGGTTATAATGTTATGTGCTATG
106577984 GATGAATGGTATTTGTGATATGTGTTTGTGTATTGA
130 GATGAATGGTATTTGTGATATGTGTTTGTGTATTGA
106578020 AGTT
1 AGTT
106578024 GGTTAATGAT
Statistics
Matches: 168, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
164 57 0.34
165 111 0.66
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.46
Consensus pattern (165 bp):
AGTTTGAAATATGGAATTTTGGTTTTTATATAATTTAAGCCATGCAAAAATGGCTTAACTTCTTT
GCTTGAAATCGGTTATGCTTGATTATGGTTTGAGTTCGTTTTGGTTATAATGTTATGTGCTATGG
ATGAATGGTATTTGTGATATGTGTTTGTGTATTGA
Found at i:106587283 original size:17 final size:15
Alignment explanation
Indices: 106587252--106587297 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 15
106587242 AAAAAAATTA
106587252 TATTTTTCATCTTTT
1 TATTTTTCATCTTTT
106587267 TATTTTTCTATCATTTT
1 TATTTTTC-ATC-TTTT
*
106587284 TATCTTTCAT-TTTT
1 TATTTTTCATCTTTT
106587298 CTATCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.14
15 8 0.29
16 5 0.18
17 11 0.39
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTTCATCTTTT
Found at i:106587300 original size:24 final size:26
Alignment explanation
Indices: 106587253--106587308 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
106587243 AAAAAATTAT
*
106587253 ATTTTTCATCTTTTTATTTTTCTATC
1 ATTTTTCATCTTTTCATTTTTCTATC
106587279 ATTTTT-ATC-TTTCATTTTTCTATC
1 ATTTTTCATCTTTTCATTTTTCTATC
*
106587303 TTTTTT
1 ATTTTT
106587309 TTCACTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 19 0.68
25 3 0.11
26 6 0.21
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (26 bp):
ATTTTTCATCTTTTCATTTTTCTATC
Found at i:106588929 original size:19 final size:20
Alignment explanation
Indices: 106588877--106588946 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
106588867 CTCAACAAAA
106588877 TTTACAAAATAATTCAAAATAT
1 TTTA-AAAA-AATTCAAAATAT
106588899 TTTAAAAAAATTCAAAATAT
1 TTTAAAAAAATTCAAAATAT
** *
106588919 TTT-TTAAAATTTAAAATAT
1 TTTAAAAAAATTCAAAATAT
106588938 TTATAAAAA
1 TT-TAAAAA
106588947 TTTTAAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 15 0.37
20 16 0.39
21 6 0.15
22 4 0.10
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAAAAAAATTCAAAATAT
Found at i:106588947 original size:19 final size:19
Alignment explanation
Indices: 106588887--106589002 Score: 89
Period size: 19 Copynumber: 6.3 Consensus size: 19
106588877 TTTACAAAAT
* *
106588887 AATTCAAAATATTTTAAAAA
1 AATTTAAAATA-TTTATAAA
* * *
106588907 AATTCAAAATATTTTTTAA
1 AATTTAAAATATTTATAAA
106588926 AATTTAAAATATTTATAAA
1 AATTTAAAATATTTATAAA
*
106588945 AATTTTAAA-ATTTAT--A
1 AATTTAAAATATTTATAAA
** *
106588961 TTTTTAAAA-AATTATAAA
1 AATTTAAAATATTTATAAA
*
106588979 AATTCTAAAAAATTT-TAAA
1 AATT-TAAAATATTTATAAA
106588998 AATTT
1 AATTT
106589003 TCTAAATTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
16 12 0.15
18 10 0.13
19 42 0.54
20 14 0.18
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTAAAATATTTATAAA
Found at i:106588988 original size:43 final size:44
Alignment explanation
Indices: 106588887--106588998 Score: 114
Period size: 39 Copynumber: 2.7 Consensus size: 44
106588877 TTTACAAAAT
* * *
106588887 AATTCAAAATATTT-TAAAAAAATTCAAAA--TAT-TTTTT-AA
1 AATTTAAAATATTTATAAAAAATTTTAAAATTTATATTTTTAAA
106588926 AATTTAAAATATTTAT-AAAAATTTTAAAATTTATATTTTTAAAA
1 AATTTAAAATATTTATAAAAAATTTTAAAATTTATATTTTT-AAA
*
106588970 AATTATAAAA-A-TTCTAAAAAATTTTAAAA
1 AATT-TAAAATATTTATAAAAAATTTTAAAA
106588999 ATTTTCTAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
39 24 0.39
40 1 0.02
41 3 0.05
42 5 0.08
43 3 0.05
44 20 0.33
45 5 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (44 bp):
AATTTAAAATATTTATAAAAAATTTTAAAATTTATATTTTTAAA
Found at i:106588991 original size:44 final size:43
Alignment explanation
Indices: 106588915--106588998 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 43
106588905 AAAATTCAAA
*
106588915 ATATTTTTTAAAATTTAAAATATTTATAAAAATTTTAAAATTT
1 ATATTTTTAAAAATTTAAAATATTTATAAAAATTTTAAAATTT
106588958 ATATTTTTAAAAAATTATAAAA-ATTCTA-AAAAATTTTAAAA
1 ATATTTTT-AAAAATT-TAAAATATT-TATAAAAATTTTAAAA
106588999 ATTTTCTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
43 8 0.22
44 22 0.59
45 7 0.19
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (43 bp):
ATATTTTTAAAAATTTAAAATATTTATAAAAATTTTAAAATTT
Found at i:106588998 original size:8 final size:9
Alignment explanation
Indices: 106588919--106589003 Score: 61
Period size: 9 Copynumber: 9.4 Consensus size: 9
106588909 TTCAAAATAT
*
106588919 TTTTTAAAA
1 TTTTAAAAA
106588928 -TTTAAAATA
1 TTTTAAAA-A
106588937 TTTATAAAAA
1 TTT-TAAAAA
106588947 TTTT-AAAA
1 TTTTAAAAA
* *
106588955 -TTT-ATAT
1 TTTTAAAAA
106588962 TTTTAAAAAA
1 TTTT-AAAAA
*
106588972 TTATAAAAA
1 TTTTAAAAA
*
106588981 TTCTAAAAAA
1 TT-TTAAAAA
106588991 TTTTAAAAA
1 TTTTAAAAA
106589000 TTTT
1 TTTT
106589004 CTAAATTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
7 5 0.08
8 13 0.22
9 19 0.32
10 18 0.30
11 5 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:106589053 original size:23 final size:23
Alignment explanation
Indices: 106589026--106589073 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
106589016 TTTTGGGACG
106589026 TAATTAATGATTCAAATTTATCA
1 TAATTAATGATTCAAATTTATCA
106589049 TAATTAATGATTCAAATTTATCA
1 TAATTAATGATTCAAATTTATCA
106589072 TA
1 TA
106589074 CTCAAGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (23 bp):
TAATTAATGATTCAAATTTATCA
Found at i:106590822 original size:22 final size:21
Alignment explanation
Indices: 106590768--106590822 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
106590758 AAGATTTTTT
106590768 TTTTGTTGT--TTTGCTATTG
1 TTTTGTTGTCATTTGCTATTG
* *
106590787 TTTTGCTG-CTATTTTCTCATTG
1 TTTTGTTGTC-ATTTGCT-ATTG
106590809 TTTTGTTGTCATTT
1 TTTTGTTGTCATTT
106590823 CACAATTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 7 0.25
21 5 0.18
22 15 0.54
23 1 0.04
ACGTcount: A:0.07, C:0.11, G:0.16, T:0.65
Consensus pattern (21 bp):
TTTTGTTGTCATTTGCTATTG
Done.