Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 108 of 295
Found at i:35088410 original size:49 final size:48
Alignment explanation
Indices: 35088348--35088480 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 48
35088338 CTTGTTGTGT
* *
35088348 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACCAATAGATGAGA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCAATAGACGAAA
* * *
35088397 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGATCTCGATATACGAAA
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCCAATAGACGAAA
** * *
35088446 GTTACTGTAAGACCTGTCTGGGACGTGGCATCGAC
1 GCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
35088481 TTTGATGTGC
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
48 1 0.01
49 72 0.97
50 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCCAATAGACGAAA
Found at i:35093764 original size:39 final size:40
Alignment explanation
Indices: 35093719--35093942 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
35093709 GCTCCTCGTT
* * * *
35093719 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
35093759 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35093798 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
35093838 CAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
35093877 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
35093918 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35093943 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 66 0.42
40 78 0.50
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35093808 original size:79 final size:78
Alignment explanation
Indices: 35093719--35093943 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 78
35093709 GCTCCTCGTT
* * *
35093719 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
*
35093784 TTTAATAACTCGCA
66 CTT-ATAACTCGCA
* * * *
35093798 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
35093862 AACTTGTATCTCGCA
65 -ACTTATAACTCGCA
* * * * * *
35093877 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
35093941 GAC
64 GAC
35093944 AGCATTCAAT
Statistics
Matches: 121, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.02
79 91 0.75
80 27 0.22
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
CTTATAACTCGCA
Found at i:35093951 original size:41 final size:41
Alignment explanation
Indices: 35093874--35093951 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35093864 CTTGTATCTC
* * *
35093874 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35093915 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35093952 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35288132 original size:27 final size:27
Alignment explanation
Indices: 35288102--35288194 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
35288092 TTGAGCCCCA
* * *
35288102 ACACTCAGTGCTATACAATCAACTCGC
1 ACACTTAGTGCTACACAATCAAATCGC
* **
35288129 ACACTTAGTGCCACGTAATCAAATCGC
1 ACACTTAGTGCTACACAATCAAATCGC
* * * *
35288156 ACACTTAGTGCTACATAGTTAGACTCGC
1 ACACTTAGTGCTACACAATCA-AATCGC
35288184 ACACTTAGTGC
1 ACACTTAGTGC
35288195 CGCTAATGGA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
27 38 0.70
28 16 0.30
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (27 bp):
ACACTTAGTGCTACACAATCAAATCGC
Found at i:35288192 original size:28 final size:27
Alignment explanation
Indices: 35288118--35288269 Score: 121
Period size: 27 Copynumber: 5.5 Consensus size: 27
35288108 AGTGCTATAC
*
35288118 AATCAACTCGCACACTTAGTGCCACGT
1 AATCAACTCGCACACTTAGTGCCACAT
* *
35288145 AATCAAATCGCACACTTAGTGCTACAT
1 AATCAACTCGCACACTTAGTGCCACAT
* * *
35288172 AGTTAGACTCGCACACTTAGTGCCGC-T
1 AATCA-ACTCGCACACTTAGTGCCACAT
*
35288199 AATGGACAATTCGCACACTTAGTG-CATCAT
1 AAT---CAACTCGCACACTTAGTGCCA-CAT
* ** *
35288229 ATTCATTTCGCACACTTAGTGCAACAT
1 AATCAACTCGCACACTTAGTGCCACAT
*
35288256 AGTCGAA-TCGCACA
1 AATC-AACTCGCACA
35288270 TTGTTGCTGT
Statistics
Matches: 100, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
27 60 0.60
28 20 0.20
29 16 0.16
30 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
AATCAACTCGCACACTTAGTGCCACAT
Found at i:35296228 original size:27 final size:27
Alignment explanation
Indices: 35296198--35296375 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
35296188 ATATTGAGCC
* * *
35296198 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
35296225 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
35296252 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
35296280 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
35296307 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
35296334 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
35296361 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35296376 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:35296291 original size:55 final size:55
Alignment explanation
Indices: 35296198--35296375 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
35296188 ATATTGAGCC
* * *
35296198 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
35296252 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
35296307 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
35296361 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35296376 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:35296337 original size:82 final size:81
Alignment explanation
Indices: 35296219--35296374 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
35296209 TGCTATACAA
* * *
35296219 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
35296284 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
35296301 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
35296365 CACTTAGTGC
65 CACTTAGTGC
35296375 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35304878 original size:42 final size:43
Alignment explanation
Indices: 35304781--35304888 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
35304771 TAGAAATTCG
* *
35304781 AGCTCGTTGAGCGGTCTGAGTTCGTGATATATGTGAGAATCCA
1 AGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCA
* * * *
35304824 AACTTGTTGAGTGGTCCAAGTTCGTGATATATGT-AGTATCCA
1 AGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCA
35304866 AGCTCGTTGAGTGGTCCGAGTTC
1 AGCTCGTTGAGTGGTCCGAGTTC
35304889 ATTATGGATG
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
AGCTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCA
Found at i:35309902 original size:48 final size:48
Alignment explanation
Indices: 35309840--35309985 Score: 222
Period size: 48 Copynumber: 3.0 Consensus size: 48
35309830 TACAAGACAA
* *
35309840 ATATATATATGTGGTAAAGCCGTATGGCTAAGGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAAGGTGAAATATGTATGAG
35309888 ATATGTATATGTGGTAAAGCCGAATGGCT-AGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAAG-GTGAAATATGTATGAG
* * * *
35309936 ATATGCATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAAGGTGAAATATGTATGAG
35309984 AT
1 AT
35309986 GTGTGTATAT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 2 0.02
48 87 0.97
49 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAAGGTGAAATATGTATGAG
Found at i:35310176 original size:37 final size:37
Alignment explanation
Indices: 35310126--35310228 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
35310116 GGAAATATAT
35310126 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
35310163 TCCGGGTAAGACCCGATGACAACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
35310200 TCCGGGTGAGACCCGCTAACTACGAGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
35310229 GGACTATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.22
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35315032 original size:12 final size:12
Alignment explanation
Indices: 35315015--35315039 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35315005 TGGCCAACCA
35315015 TAAGCCCATGTG
1 TAAGCCCATGTG
35315027 TAAGCCCATGTG
1 TAAGCCCATGTG
35315039 T
1 T
35315040 CACACACGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TAAGCCCATGTG
Found at i:35320598 original size:40 final size:40
Alignment explanation
Indices: 35320520--35320703 Score: 212
Period size: 40 Copynumber: 4.5 Consensus size: 40
35320510 ACCCAAGTAT
* *
35320520 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
35320559 CTTCGGGTCTTAGCCCAGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
35320599 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
35320642 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
35320682 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
35320704 CATCCGAAAA
Statistics
Matches: 123, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
39 12 0.10
40 76 0.62
41 1 0.01
43 34 0.28
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:35320655 original size:83 final size:80
Alignment explanation
Indices: 35320520--35320703 Score: 253
Period size: 83 Copynumber: 2.3 Consensus size: 80
35320510 ACCCAAGTAT
* *
35320520 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAGT
* **
35320584 CACTAGCATGAATGC
66 AACTAGCACAAATGC
* *
35320599 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATAT
*
35320664 AGTAACTTGCACAAATGC
63 AGTAACTAGCACAAATGC
*
35320682 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
35320704 CATCCGAAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
79 12 0.13
80 10 0.11
81 1 0.01
83 68 0.75
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCAGATATAGT
AACTAGCACAAATGC
Found at i:35324288 original size:43 final size:43
Alignment explanation
Indices: 35324241--35324376 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 43
35324231 CCGGAAATAA
35324241 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
* * *** * ** *
35324284 GCCTGGTAG-GCTCGGAGCCCGATA--ATATTCACCAAC-TTAAA
1 GCCTGCTAGACCTTTAAGTCCGATATCAT-TTCACCGGCATT-AC
*
35324325 GCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
35324368 GCCTGCTAG
1 GCCTGCTAG
35324377 GTATGAAACC
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
40 4 0.06
41 15 0.22
42 20 0.30
43 24 0.36
44 4 0.06
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (43 bp):
GCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
Found at i:35324389 original size:84 final size:86
Alignment explanation
Indices: 35324239--35324398 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 86
35324229 CACCGGAAAT
* * *
35324239 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGGTAGGCTCGGAGCCC
1 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAACCC
35324304 G-ATA-ATATTCACCAACTTA
66 GAATATATATTCACCAACTTA
* *
35324323 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGG-TATGAAACC
1 AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCT-CGAAACC
35324387 CGAATATATATT
65 CGAATATATATT
35324399 ATAATGTATA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
83 1 0.01
84 59 0.87
85 3 0.04
86 5 0.07
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (86 bp):
AAGCCTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAACCC
GAATATATATTCACCAACTTA
Found at i:35326254 original size:14 final size:15
Alignment explanation
Indices: 35326225--35326254 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35326215 CAAAATTAAG
35326225 ACATGATACTTTCAC
1 ACATGATACTTTCAC
35326240 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
35326254 A
1 A
35326255 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:35333301 original size:86 final size:86
Alignment explanation
Indices: 35333181--35333341 Score: 286
Period size: 86 Copynumber: 1.9 Consensus size: 86
35333171 AGACAGGGTC
*
35333181 TTACACGAAATCATATTTGATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAAATCGAT
1 TTACACGAAATCATATTTGATGCCAATGTCCCAGACATGGTCTCACACATAAATCTCAAATCGAT
35333246 GACAACGTCCTACATGTGGTT
66 GACAACGTCCTACATGTGGTT
*
35333267 TTACACGAAATCATATTTGATGCCAATGTCCCAGACATGGTCTCACACGTAAATCTCAAATCGAT
1 TTACACGAAATCATATTTGATGCCAATGTCCCAGACATGGTCTCACACATAAATCTCAAATCGAT
* *
35333332 GCCAATGTCC
66 GACAACGTCC
35333342 CATTCGTAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 71 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (86 bp):
TTACACGAAATCATATTTGATGCCAATGTCCCAGACATGGTCTCACACATAAATCTCAAATCGAT
GACAACGTCCTACATGTGGTT
Found at i:35333305 original size:44 final size:43
Alignment explanation
Indices: 35333157--35333343 Score: 163
Period size: 42 Copynumber: 4.3 Consensus size: 43
35333147 GTGGTCTACC
*
35333157 GATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCATATTT
1 GATGCCAATGTCCCAGACAGTGGTCTTACACGAAATCATATTT
* * *
35333199 GATGCCAATGTCCCAGACA-TGGTCTTACACATAAATC-TCAAATC
1 GATGCCAATGTCCCAGACAGTGGTCTTACAC-GAAATCAT--ATTT
* * * *
35333243 GATGACAACGT-CC-TACATGTGGTTTTACACGAAATCATATTT
1 GATGCCAATGTCCCAGACA-GTGGTCTTACACGAAATCATATTT
* * *
35333285 GATGCCAATGTCCCAGACA-TGGTCTCACACGTAAATC-TCAAATC
1 GATGCCAATGTCCCAGACAGTGGTCTTACACG-AAATCAT--ATTT
35333329 GATGCCAATGTCCCA
1 GATGCCAATGTCCCA
35333344 TTCGTAATCT
Statistics
Matches: 115, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
42 54 0.47
43 19 0.17
44 42 0.37
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACAGTGGTCTTACACGAAATCATATTT
Found at i:35337257 original size:27 final size:28
Alignment explanation
Indices: 35337148--35337270 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
35337138 GAGATTGGCG
* * * *
35337148 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
35337177 TTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
35337205 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
35337233 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
35337260 CTGAGTGTGCG
1 CTAAGTGTGCG
35337271 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 49 0.56
29 14 0.16
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:35337259 original size:55 final size:57
Alignment explanation
Indices: 35337148--35337270 Score: 178
Period size: 55 Copynumber: 2.2 Consensus size: 57
35337138 GAGATTGGCG
* * *
35337148 CTAAGTGTGCGGGTTTAAATTGTACAGCATTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCA
* *
35337205 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
35337260 CTGAGTGTGCG
1 CTAAGTGTGCG
35337271 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 24 0.40
56 21 0.35
57 15 0.25
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:35337281 original size:27 final size:27
Alignment explanation
Indices: 35337173--35337284 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 27
35337163 TAAATTGTAC
* *
35337173 AGCATTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
35337201 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
35337229 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
35337256 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTGAT-TATAT
35337285 TTTTGAATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 23 0.30
28 49 0.64
29 5 0.06
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:35347436 original size:29 final size:29
Alignment explanation
Indices: 35347403--35347462 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
35347393 AATTGTTATG
*
35347403 AAATTTTAAATTGGAGGTCTTTATATGGT
1 AAATTTTAAATTGGAGGTCCTTATATGGT
35347432 AAATTTTAAATTGGAGGTCCTTATATGGT
1 AAATTTTAAATTGGAGGTCCTTATATGGT
35347461 AA
1 AA
35347463 TTAGACCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (29 bp):
AAATTTTAAATTGGAGGTCCTTATATGGT
Found at i:35348052 original size:30 final size:31
Alignment explanation
Indices: 35348018--35348075 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
35348008 TTTACGAGCC
*
35348018 TAGGGGCAAAAGTGTAATTTTG-AAAAAGTT
1 TAGGGGCAAAAATGTAATTTTGTAAAAAGTT
*
35348048 TAGGGGTAAAAATGTAATTTTGTAAAAA
1 TAGGGGCAAAAATGTAATTTTGTAAAAA
35348076 TATGATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (31 bp):
TAGGGGCAAAAATGTAATTTTGTAAAAAGTT
Found at i:35355204 original size:27 final size:26
Alignment explanation
Indices: 35355172--35355327 Score: 134
Period size: 27 Copynumber: 5.8 Consensus size: 26
35355162 GGCAAGTCAA
* *
35355172 TCATTTTACCTTATAGGGATATTATAG
1 TCATTTTACCCTATAGGGGTATT-TAG
* * * *
35355199 TCATTTTACCGTACAGGTGTATTACAG
1 TCATTTTACCCTATAGGGGTATT-TAG
*
35355226 TCATTTTACCTTATAGGGGTATCTT-G
1 TCATTTTACCCTATAGGGGTAT-TTAG
* *
35355252 ATCATTTTACCCTATGGGGGTATTTTGG
1 -TCATTTTACCCTATAGGGGTA-TTTAG
* * *
35355280 TCATTTTACCGTATGGGGGTATCTCAG
1 TCATTTTACCCTATAGGGGTAT-TTAG
*
35355307 TTATTTTACCCTATAGGGGTA
1 TCATTTTACCCTATAGGGGTA
35355328 GTTCGGTCAT
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.02
27 102 0.95
28 3 0.03
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (26 bp):
TCATTTTACCCTATAGGGGTATTTAG
Found at i:35355284 original size:81 final size:81
Alignment explanation
Indices: 35355171--35355327 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
35355161 GGGCAAGTCA
* *
35355171 ATCATTTTACCTTATAGGGATATTATAGTCATTTTACCGTACAGGTGTAT-TACAGTCATTTTAC
1 ATCATTTTACCCTATAGGGATATTATAGTCATTTTACCGTACAGGGGTATCT-CAGTCATTTTAC
*
35355235 CTTATAGGGGTATCTTG
65 CCTATAGGGGTATCTTG
* * * * ** *
35355252 ATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCGTATGGGGGTATCTCAGTTATTTTACC
1 ATCATTTTACCCTATAGGGATATTATAGTCATTTTACCGTACAGGGGTATCTCAGTCATTTTACC
35355317 CTATAGGGGTA
66 CTATAGGGGTA
35355328 GTTCGGTCAT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 64 0.98
82 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.41
Consensus pattern (81 bp):
ATCATTTTACCCTATAGGGATATTATAGTCATTTTACCGTACAGGGGTATCTCAGTCATTTTACC
CTATAGGGGTATCTTG
Found at i:35355336 original size:54 final size:54
Alignment explanation
Indices: 35355172--35355337 Score: 158
Period size: 54 Copynumber: 3.1 Consensus size: 54
35355162 GGCAAGTCAA
* * * * * * *
35355172 TCATTTTACCTTATAGGGATAT-TATAGTCATTTTACCGTACAGGTGTA-TTACAG
1 TCATTTTACCGTATAGGGGTATCTAGA-TCATTTTACCCTATAGGGGTAGTT-CGG
* * * * *
35355226 TCATTTTACCTTATAGGGGTATCTTGATCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCGTATAGGGGTATCTAGATCATTTTACCCTATAGGGGTAGTTCGG
* *
35355280 TCATTTTACCGTATGGGGGTATCTCAG-TTATTTTACCCTATAGGGGTAGTTCGG
1 TCATTTTACCGTATAGGGGTATCT-AGATCATTTTACCCTATAGGGGTAGTTCGG
35355334 TCAT
1 TCAT
35355338 ACATGGCCCA
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
54 88 0.95
55 5 0.05
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.42
Consensus pattern (54 bp):
TCATTTTACCGTATAGGGGTATCTAGATCATTTTACCCTATAGGGGTAGTTCGG
Found at i:35362780 original size:25 final size:25
Alignment explanation
Indices: 35362748--35362799 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
35362738 CTCTCCATTA
35362748 CAACAGATTACCACAATCAACCAAT
1 CAACAGATTACCACAATCAACCAAT
35362773 CAACAGATTACCACAATCAACCAAT
1 CAACAGATTACCACAATCAACCAAT
35362798 CA
1 CA
35362800 TCTCGAACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.33, G:0.04, T:0.15
Consensus pattern (25 bp):
CAACAGATTACCACAATCAACCAAT
Found at i:35366111 original size:14 final size:15
Alignment explanation
Indices: 35366082--35366111 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35366072 CAAAATTAAG
35366082 ACATGATACTTTCAC
1 ACATGATACTTTCAC
35366097 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
35366111 A
1 A
35366112 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:35373077 original size:42 final size:44
Alignment explanation
Indices: 35373016--35373227 Score: 134
Period size: 42 Copynumber: 4.9 Consensus size: 44
35373006 GACGTGGTTT
* * *
35373016 ATCGATGCCACTATCCCAGATAGGGTCTTACACAAAATCAT-AT
1 ATCGATGCCAATGTCCCAGATAGGGTCTTACACAAAATCATCAA
* * **
35373059 A-CGATGCCAATGTCCCAGACATGGTCTTACATGTAAATC-TCAA
1 ATCGATGCCAATGTCCCAGATAGGGTCTTACA-CAAAATCATCAA
* * * * * *
35373102 ATCGATGACAACGTCCTACAT-GTGGTTTTACACGAAATCAT--A
1 ATCGATGCCAATGTCCCAGATAG-GGTCTTACACAAAATCATCAA
* * * * * **
35373144 TTTGATGCCAATGTCCCAAACATGGTCTTACATGTAAATC-TCAA
1 ATCGATGCCAATGTCCCAGATAGGGTCTTACA-CAAAATCATCAA
* *
35373188 ATCGATGCCAATGTCCCATAT-GTGATCTTACACAAAATCA
1 ATCGATGCCAATGTCCCAGATAG-GGTCTTACACAAAATCA
35373228 CATATCGGAA
Statistics
Matches: 123, Mismatches: 35, Indels: 21
0.69 0.20 0.12
Matches are distributed among these distances:
42 51 0.41
43 23 0.19
44 49 0.40
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (44 bp):
ATCGATGCCAATGTCCCAGATAGGGTCTTACACAAAATCATCAA
Found at i:35373161 original size:86 final size:86
Alignment explanation
Indices: 35373041--35373227 Score: 284
Period size: 86 Copynumber: 2.2 Consensus size: 86
35373031 CCAGATAGGG
*
35373041 TCTTACACAAAATCATATACGATGCCAATGTCCCAGACATGGTCTTACATGTAAATCTCAAATCG
1 TCTTACACAAAATCATATACGATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCAAATCG
* *
35373106 ATGACAACGTCCTACATGTGG
66 ATGACAACGTCCCACATGTGA
* * **
35373127 TTTTACACGAAATCATATTTGATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCAAATCG
1 TCTTACACAAAATCATATACGATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCAAATCG
* * *
35373192 ATGCCAATGTCCCATATGTGA
66 ATGACAACGTCCCACATGTGA
35373213 TCTTACACAAAATCA
1 TCTTACACAAAATCA
35373228 CATATCGGAA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (86 bp):
TCTTACACAAAATCATATACGATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCAAATCG
ATGACAACGTCCCACATGTGA
Found at i:35373219 original size:44 final size:44
Alignment explanation
Indices: 35373060--35373205 Score: 163
Period size: 44 Copynumber: 3.4 Consensus size: 44
35373050 AAATCATATA
*
35373060 CGATGCCAATGTCCCAGACATGGTCTTACATGTAAATCTCAAAT
1 CGATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCAAAT
* * * * ** * * *
35373104 CGATGACAACGTCCTACATGTGGTTTTACACG-AAA--TCATATT
1 CGATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCA-AAT
*
35373146 TGATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCAAAT
1 CGATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCAAAT
35373190 CGATGCCAATGTCCCA
1 CGATGCCAATGTCCCA
35373206 TATGTGATCT
Statistics
Matches: 78, Mismatches: 20, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
41 3 0.04
42 25 0.32
43 6 0.08
44 41 0.53
45 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
CGATGCCAATGTCCCAAACATGGTCTTACATGTAAATCTCAAAT
Found at i:35381297 original size:21 final size:21
Alignment explanation
Indices: 35381273--35381313 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35381263 CTGTTTTAGG
35381273 ATTTTAA-ATTAGTTCTATTTT
1 ATTTTAAGA-TAGTTCTATTTT
*
35381294 ATTTTAAGATAGTTTTATTT
1 ATTTTAAGATAGTTCTATTT
35381314 CTTATTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
ATTTTAAGATAGTTCTATTTT
Found at i:35387219 original size:22 final size:22
Alignment explanation
Indices: 35387194--35387249 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
35387184 CTTCCTGAGG
35387194 ACACGGGCGTGTCCCTGTGTCC
1 ACACGGGCGTGTCCCTGTGTCC
*
35387216 ACACGGGCATGTCCCTGTGTCC
1 ACACGGGCGTGTCCCTGTGTCC
*
35387238 ACATGGGCGTGT
1 ACACGGGCGTGT
35387250 GACTCTGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.23
Consensus pattern (22 bp):
ACACGGGCGTGTCCCTGTGTCC
Found at i:35388285 original size:24 final size:23
Alignment explanation
Indices: 35388257--35388308 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
35388247 ACTTTTTTCA
*
35388257 AGTTTTAGTTTACAG-ATTTCATTT
1 AGTTTTA-TTTACAGTATCTC-TTT
*
35388281 AGTTTTATTTTCAGTATCTCTTT
1 AGTTTTATTTACAGTATCTCTTT
35388304 AGTTT
1 AGTTT
35388309 GCTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.58
Consensus pattern (23 bp):
AGTTTTATTTACAGTATCTCTTT
Found at i:35399330 original size:47 final size:47
Alignment explanation
Indices: 35399265--35399955 Score: 977
Period size: 47 Copynumber: 14.4 Consensus size: 47
35399255 CAGCCAAGAG
*
35399265 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
35399312 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
35399359 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
35399408 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
35399459 AGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AG----TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
35399510 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
35399557 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
35399604 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
35399655 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTTATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
35399702 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
35399749 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
35399796 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
35399843 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * * *
35399890 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
35399937 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
35399956 TCCCGAAAGG
Statistics
Matches: 594, Mismatches: 38, Indels: 24
0.91 0.06 0.04
Matches are distributed among these distances:
47 412 0.69
49 44 0.07
51 134 0.23
53 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:35399623 original size:145 final size:145
Alignment explanation
Indices: 35399265--35399896 Score: 1010
Period size: 145 Copynumber: 4.4 Consensus size: 145
35399255 CAGCCAAGAG
35399265 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTATATATGTA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTA
* *
35399326 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCC
66 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTAATAGCC
*
35399391 GATGTGATGAATGTGAA
129 GACGTGATGAATGTGAA
* * *
35399408 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATGTATATA
1 A--G--TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATA
*
35399473 TGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAG
62 TGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
35399538 CCGACGTGATGAATGTGAA
127 CCGACGTGATGAATGTGAA
35399557 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTA
*
35399622 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
66 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
*
35399687 CGTTATGAATGTGAA
131 CGTGATGAATGTGAA
35399702 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTATATATGTA
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTA
* *
35399763 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
66 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
* *
35399828 TGCGATGAATGTGAA
131 CGTGATGAATGTGAA
* * *
35399843 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
35399897 ATATGTGACA
Statistics
Matches: 457, Mismatches: 20, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
141 131 0.29
143 3 0.01
145 189 0.41
147 45 0.10
149 39 0.09
151 50 0.11
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (145 bp):
AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTA
ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
CGTGATGAATGTGAA
Found at i:35400130 original size:37 final size:37
Alignment explanation
Indices: 35400074--35400152 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35400064 CCGAGCTCTA
* *
35400074 AAGACCCAATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
* *
35400111 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
35400148 AAGAC
1 AAGAC
35400153 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:35404784 original size:48 final size:48
Alignment explanation
Indices: 35404708--35404980 Score: 151
Period size: 48 Copynumber: 5.7 Consensus size: 48
35404698 TGATATGTGT
* * *
35404708 GCCAGTGTAAGACCATGT-TTGGAGCATGGCATCAGTAATGTTATGAGA
1 GCCAGTGTAAGACCATGTCTAGGA-CATGGCATCAGTAATGATAGGAGA
* * ** * *
35404756 GCCAGTGCAAGACCATGTCCAGGACATGGCATCAGTGTTGATAGGTGC
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGTAATGATAGGAGA
* * * * * *
35404804 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGT-GTCGATATGTGCA
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGTAAT-GATAGGAG-A
* ** * * * * *
35404853 -CTAGTGTAAGACCATGTCTAGTTCACGGCAACGGCCACAT--TATGAGA
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAG-TA-ATGATAGGAGA
* * * * * * * *
35404900 GCCAGTGTAAAACTATGTCTGGGACATGGCATCAGCATTGAGATGAAA
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGTAATGATAGGAGA
* * * *
35404948 GCTAGTGTAAGACCATGTTTGGGACATGACATC
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATC
35404981 GGCAATTTAC
Statistics
Matches: 174, Mismatches: 42, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
46 1 0.01
47 4 0.02
48 165 0.95
49 3 0.02
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGTAATGATAGGAGA
Found at i:35410186 original size:20 final size:20
Alignment explanation
Indices: 35410161--35410213 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
35410151 AACAGGGGTC
*
35410161 ACACACCTGTGTGACTTGGG
1 ACACACCCGTGTGACTTGGG
35410181 ACACACCCGTGTGACTTGGG
1 ACACACCCGTGTGACTTGGG
*
35410201 ACACGCCCGTGTG
1 ACACACCCGTGTG
35410214 GGCAGGTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (20 bp):
ACACACCCGTGTGACTTGGG
Found at i:35411805 original size:43 final size:42
Alignment explanation
Indices: 35411755--35411835 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
35411745 TACATGAAAT
* *
35411755 CTCATATCGATGCCAATAGCCTAGTTATGGTTTTACACGAAGC
1 CTCATATCGATGCC-ATAGCCTAGATATGGTCTTACACGAAGC
* *
35411798 CTCATATCGATGTCATATCCTAGATATGGTCTTACACG
1 CTCATATCGATGCCATAGCCTAGATATGGTCTTACACG
35411836 TAATCTCGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 21 0.62
43 13 0.38
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
CTCATATCGATGCCATAGCCTAGATATGGTCTTACACGAAGC
Found at i:35411833 original size:42 final size:42
Alignment explanation
Indices: 35411725--35411835 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
35411715 TGTACCAATA
* * * * *
35411725 CCATATCCCAGATACGTTCTTACATGAAATCTCATATCGATG
1 CCATATCCTAGATATGGTCTTACACGAAACCTCATATCGATG
* * * *
35411767 CCAATAGCCTAGTTATGGTTTTACACGAAGCCTCATATCGATG
1 CC-ATATCCTAGATATGGTCTTACACGAAACCTCATATCGATG
*
35411810 TCATATCCTAGATATGGTCTTACACG
1 CCATATCCTAGATATGGTCTTACACG
35411836 TAATCTCGGT
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 23 0.42
43 32 0.58
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
CCATATCCTAGATATGGTCTTACACGAAACCTCATATCGATG
Found at i:35415686 original size:20 final size:20
Alignment explanation
Indices: 35415661--35415701 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
35415651 ATATCTAATT
35415661 TAATTTACTGTTTCATTTGA
1 TAATTTACTGTTTCATTTGA
35415681 TAATTTACTGTTTCATTTGA
1 TAATTTACTGTTTCATTTGA
35415701 T
1 T
35415702 TGTTCTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (20 bp):
TAATTTACTGTTTCATTTGA
Found at i:35417080 original size:42 final size:41
Alignment explanation
Indices: 35416974--35417130 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 41
35416964 TTTCGATATG
* *
35416974 TGATTTTCATGTAAGACCACGTCTGGGACGTTGGCCATCG-ATT
1 TGATTTT-ATGTAAGACCATGTCTGGGAC-ATGG-CATCGTATT
**
35417017 TGAAATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
1 TGATTTTA--TGTAAGACCATGTCTGGGACAT-GGCATCGTATT
* * **
35417061 CGATTTTATGTAAGACCATGTTTGGGACAGTGGCATAATATT
1 TGATTTTATGTAAGACCATGTCTGGGACA-TGGCATCGTATT
**
35417103 TGATTACATGTAAGACCATGTCTGGGAC
1 TGATTTTATGTAAGACCATGTCTGGGAC
35417131 GTTGGTATTA
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 54 0.57
43 12 0.13
44 29 0.31
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
TGATTTTATGTAAGACCATGTCTGGGACATGGCATCGTATT
Found at i:35420429 original size:40 final size:40
Alignment explanation
Indices: 35420355--35420598 Score: 375
Period size: 40 Copynumber: 6.1 Consensus size: 40
35420345 AACCCAAGTA
* * *
35420355 CCTTCGGGATTTAG-CTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
35420394 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
35420434 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
35420474 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
35420514 CCTTCGGAACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
35420554 CCTTCGGGACTTATCCCGGATATAGTCACTAGCACAAATC
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
35420594 CCTTC
1 CCTTC
35420599 AGATCTTAGT
Statistics
Matches: 190, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 13 0.07
40 176 0.93
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:35421996 original size:13 final size:13
Alignment explanation
Indices: 35421978--35422003 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35421968 TTTTATTTTT
35421978 TTAACATAAAATA
1 TTAACATAAAATA
35421991 TTAACATAAAATA
1 TTAACATAAAATA
35422004 ATTATAATAT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:35432265 original size:43 final size:43
Alignment explanation
Indices: 35432109--35432266 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
35432099 ATGTATTTTT
* * *
35432109 GTGTAAGACCACATCTGGGACGTTGGCCATCAAT-TTGAAATTAC
1 GTGTAAGACCACGTCTGGGACATTGG-CATCAATATT-TAATTAC
* * * * * *
35432153 GTGTAAGACCATGTCTTGGACATCGGCATC-TTATTTGATTTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCAATATTTAATTAC
* * * *
35432195 GTGTAAGACC-CTGTCTGAGACAGTGGCATCAATATTTTACTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCAATATTTAATTAC
* *
35432238 ATGTAAGACCACGTCTGGGACCTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
35432267 TGTACGCGCT
Statistics
Matches: 88, Mismatches: 22, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
42 29 0.33
43 37 0.42
44 22 0.25
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCAATATTTAATTAC
Found at i:35455404 original size:43 final size:43
Alignment explanation
Indices: 35455346--35455431 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
35455336 GTTACATGAA
* * *
35455346 TCGCGTCCATTATGAACTCGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
* *
35455389 TCGCATCCATAATGAACTTAGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
35455432 CACATATCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
Found at i:35467100 original size:16 final size:16
Alignment explanation
Indices: 35467079--35467110 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35467069 TGTGTAACGC
35467079 CCCAAAAATCCAGAAA
1 CCCAAAAATCCAGAAA
*
35467095 CCCAAAAATCCTGAAA
1 CCCAAAAATCCAGAAA
35467111 TCTCGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.31, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCAGAAA
Found at i:35474446 original size:93 final size:93
Alignment explanation
Indices: 35474317--35474488 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
35474307 CACCCATAAG
* * * *
35474317 CGAACTCGGACTCAGCTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35474382 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
35474410 CGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35474475 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35474489 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35474485 original size:46 final size:46
Alignment explanation
Indices: 35474310--35474486 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
35474300 TGTAACCCAC
* * * ***
35474310 CCATAAGCGAACTCGGACTCAGCTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
* *
35474356 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA----TA-TTCGCAT
*
35474406 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
*
35474449 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAT
35474487 GCTCAACCAT
Statistics
Matches: 109, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
Found at i:35481628 original size:28 final size:28
Alignment explanation
Indices: 35481558--35481671 Score: 133
Period size: 28 Copynumber: 4.1 Consensus size: 28
35481548 AGCATGACTG
* *
35481558 TAAATGTGATTGGGCCTAAT-GACCGTA
1 TAAATGTGATTGGGCCTAATGGGCCATA
* * *
35481585 TGAATGTGATTCGGGCTTAATGGGCCACA
1 TAAATGTGATT-GGGCCTAATGGGCCATA
35481614 TAAATGTGATTGGGCCTAATGGGCCATA
1 TAAATGTGATTGGGCCTAATGGGCCATA
* *
35481642 TGAAA-GAGATTGGGCCTAGTGGGCCATA
1 T-AAATGTGATTGGGCCTAATGGGCCATA
35481670 TA
1 TA
35481672 CAAGTATATG
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.15
28 46 0.62
29 17 0.23
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAATGGGCCATA
Found at i:35481665 original size:56 final size:56
Alignment explanation
Indices: 35481558--35481667 Score: 150
Period size: 56 Copynumber: 2.0 Consensus size: 56
35481548 AGCATGACTG
* * * *
35481558 TAAATGTGATTGGGCCTAATGACCGTATGAATGTGATTCGGGCTTAATGGGCCACA
1 TAAATGTGATTGGGCCTAATGACCATATGAAAGAGATTCGGGCCTAATGGGCCACA
* *
35481614 TAAATGTGATTGGGCCTAATGGGCCATATGAAAGAGATT-GGGCCTAGTGGGCCA
1 TAAATGTGATTGGGCCTAAT-GACCATATGAAAGAGATTCGGGCCTAATGGGCCA
35481668 TATACAAGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 33 0.70
57 14 0.30
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.26
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATGACCATATGAAAGAGATTCGGGCCTAATGGGCCACA
Found at i:35483569 original size:39 final size:39
Alignment explanation
Indices: 35483482--35483638 Score: 192
Period size: 39 Copynumber: 4.0 Consensus size: 39
35483472 CAAATCCAAT
* *
35483482 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TT-AGCCCGGATATAA
* **
35483522 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCTAGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TTAGCCCGGATATAA
* *
35483561 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
* *
35483600 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
35483639 TTCTCCATTA
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 71 0.67
40 35 0.33
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
Found at i:35485580 original size:26 final size:26
Alignment explanation
Indices: 35485537--35485590 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
35485527 AAACTAGTAA
* * *
35485537 TAAAGGAAAATTACCT-AAATGCCCC
1 TAAAGGAAAAATAACTAAAATACCCC
35485562 TAAAGGAAAAAATAACTAAAATACCCC
1 TAAAGG-AAAAATAACTAAAATACCCC
35485589 TA
1 TA
35485591 TGCGTTGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 8 0.33
27 10 0.42
ACGTcount: A:0.52, C:0.20, G:0.09, T:0.19
Consensus pattern (26 bp):
TAAAGGAAAAATAACTAAAATACCCC
Found at i:35503625 original size:22 final size:22
Alignment explanation
Indices: 35503585--35503626 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35503575 AGGACCTATT
*
35503585 TGTAAAAAGGTTATAAAATGTG
1 TGTAAAAAGGTGATAAAATGTG
* *
35503607 TGTAAAAATGTGATTAAATG
1 TGTAAAAAGGTGATAAAATG
35503627 AAAATGTGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (22 bp):
TGTAAAAAGGTGATAAAATGTG
Found at i:35505547 original size:49 final size:49
Alignment explanation
Indices: 35505458--35505616 Score: 146
Period size: 49 Copynumber: 3.3 Consensus size: 49
35505448 TTCCAAACAT
* * * *
35505458 GGTCTTACACTGGCTCTCA--CATCTAAGTCGATGACATGTCCCAGATA
1 GGTCTTACACTGACTCTCACTCATCTGAGGCGATGCCATGTCCCAGATA
* * *
35505505 GGTCTTACACTGACTTTCA-TACATC-GAGGCTGATGCCATGTCCTAGACA
1 GGTCTTACACTGACTCTCACT-CATCTGAGGC-GATGCCATGTCCCAGATA
* * * * *
35505554 GGCCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGATA
1 GGTCTTACACTGACTCTCACTCATCTGAGGCGATGCCATGTCCCAGATA
* *
35505603 GGTTTTACATTGAC
1 GGTCTTACACTGAC
35505617 ACACCTCAAG
Statistics
Matches: 88, Mismatches: 19, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
47 17 0.19
48 3 0.03
49 64 0.73
50 4 0.05
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
GGTCTTACACTGACTCTCACTCATCTGAGGCGATGCCATGTCCCAGATA
Found at i:35510430 original size:78 final size:81
Alignment explanation
Indices: 35510296--35510478 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
35510286 TGAATGATGT
* *
35510296 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
*
35510360 GTGCGAGATACTA-AT
66 GTGCGAGATACTATAA
* * * * **
35510375 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAAT
*
35510437 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
35510454 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35510479 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 48 0.55
79 25 0.28
80 14 0.16
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATAA
Found at i:35510440 original size:40 final size:40
Alignment explanation
Indices: 35510295--35510478 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
35510285 TTGAATGATG
* * * *
35510295 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
35510335 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35510374 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35510413 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35510454 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35510479 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 23 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35518641 original size:79 final size:81
Alignment explanation
Indices: 35518505--35518689 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
35518495 TTGAATGATG
* *
35518505 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
35518569 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35518584 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35518646 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
35518664 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35518690 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:35518703 original size:40 final size:40
Alignment explanation
Indices: 35518506--35518689 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
35518496 TGAATGATGT
* * * *
35518506 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35518546 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
35518586 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
35518624 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35518665 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35518690 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35518711 original size:79 final size:79
Alignment explanation
Indices: 35518558--35518722 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
35518548 GGACTAAGAT
* * **
35518558 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35518623 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35518637 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35518700 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35518716 CCGAAGG
1 CCGAAGG
35518723 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35526898 original size:47 final size:49
Alignment explanation
Indices: 35526829--35526958 Score: 174
Period size: 47 Copynumber: 2.7 Consensus size: 49
35526819 GTATAATGCT
*
35526829 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCAAGT-TAAGT-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCCCAAGTATAAGTCC
* * * **
35526876 GATGCAATGTCCCAGACATGGTCTTACACTGACTCTCACGTATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCCCAAGTATAAGT-CC
*
35526926 GATGCCATGTCCTAGACATGGTCTTACACTGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC
35526959 ACATCATGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
47 37 0.51
48 3 0.04
50 32 0.44
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCCCAAGTATAAGTCC
Found at i:35527058 original size:46 final size:46
Alignment explanation
Indices: 35526826--35527142 Score: 159
Period size: 47 Copynumber: 6.7 Consensus size: 46
35526816 AGGGTATAAT
* * ** *
35526826 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCAAGTTAAG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAAG
* * *
35526874 TC-GATGCAATGTCCCAGACATGGTCTTACACT-GACTCTCACGTATC-CG
1 GCTGATGC-ATGTCCCAGACAT-GTCTTACACTAG-CTCTCA--TCTCAAG
* * * *
35526922 TGCCGATGCCATGTCCTAGACATGGTCTTACACT-GACACATCATGT--A-
1 -GCTGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCATCTCAAG
** * * *
35526969 GCCAACT-CATGTCCTAGGCATGTCTTACACTAGAT-TACATCTCAAG
1 GCTGA-TGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAG
* * * *
35527015 GCTGATGCATGTCCCAAACATGTTTTACACTAGCTCTCGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAG
* * * * **
35527061 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAG
*
35527109 GCTGATGCATGTCTCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
35527143 ACACGAATAA
Statistics
Matches: 211, Mismatches: 39, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 10 0.05
45 16 0.08
46 57 0.27
47 59 0.28
48 24 0.11
49 5 0.02
50 31 0.15
51 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAG
Found at i:35528363 original size:16 final size:16
Alignment explanation
Indices: 35528342--35528375 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
35528332 GACTAGGCCT
35528342 AAAATTGGGCTATTAC
1 AAAATTGGGCTATTAC
35528358 AAAATTGGGCTATTAC
1 AAAATTGGGCTATTAC
35528374 AA
1 AA
35528376 TTCTCCCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (16 bp):
AAAATTGGGCTATTAC
Found at i:35530116 original size:35 final size:35
Alignment explanation
Indices: 35530070--35530139 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
35530060 GACTTTTATG
*
35530070 GTCGGTGAACACTCAACATTTTTCACCATACAAAT
1 GTCGGTGAACACTCAACATTTGTCACCATACAAAT
**
35530105 GTCGGTGAACACTTGACATTTGTCACCATACAAAT
1 GTCGGTGAACACTCAACATTTGTCACCATACAAAT
35530140 CATGTGTCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (35 bp):
GTCGGTGAACACTCAACATTTGTCACCATACAAAT
Found at i:35535038 original size:40 final size:40
Alignment explanation
Indices: 35534940--35535196 Score: 297
Period size: 40 Copynumber: 6.5 Consensus size: 40
35534930 AAGCCAAGTA
* * *
35534940 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
35534978 CCTTCGGGACATAGCTCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * *
35535018 CCTTCAAGACTTAGCCCGGATATAGTAGCTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35535058 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
35535098 CCATCGGGACTTAGCCCGGATGTAATAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35535138 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
35535178 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35535197 TTATCATCCG
Statistics
Matches: 189, Mismatches: 26, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 161 0.85
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35543203 original size:40 final size:40
Alignment explanation
Indices: 35543115--35543371 Score: 306
Period size: 40 Copynumber: 6.5 Consensus size: 40
35543105 AAGCCAAGTA
* * * *
35543115 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
*
35543153 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
35543193 CCTTCGGGACTTAGCCCGGATATAGTAGCTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* **
35543233 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * * **
35543273 CCTTCGGGACTTTGCCTGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* *
35543313 CCTTCGGGACTTAGCCCGGA-ACTAGTC-ACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAG-CAACTCGCACAAATG
35543353 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35543372 TTATCATCCG
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
38 12 0.06
39 18 0.09
40 164 0.85
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:35555107 original size:26 final size:26
Alignment explanation
Indices: 35555078--35555181 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
35555068 ATTCCCATAT
*
35555078 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
35555104 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
35555130 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
35555156 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
35555182 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:35560829 original size:42 final size:41
Alignment explanation
Indices: 35560712--35560838 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 41
35560702 CACAGTACCG
* * * *
35560712 TACCAATGACATATCCCAGATATGGTCTTACAGGTAATCTCG
1 TACCGATGCCATATCCCAGATATGGTCTTACACG-AATCTCA
*
35560754 TACCGATGCCAATAGCCCA-ACTATGGTCTTACACGAAGTCTCA
1 TACCGATGCC-ATATCCCAGA-TATGGTCTTACACGAA-TCTCA
*
35560797 TATCGATGCCATATCCCAGATATGGTCTTACACGAATTCTCA
1 TACCGATGCCATATCCCAGATATGGTCTTACACGAA-TCTCA
35560839 ATAACCCTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 39 0.53
43 34 0.47
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (41 bp):
TACCGATGCCATATCCCAGATATGGTCTTACACGAATCTCA
Found at i:35564192 original size:21 final size:21
Alignment explanation
Indices: 35564158--35564210 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
35564148 TGTGGTCCAA
*
35564158 AGGACACGCCCGTGTAACCCT
1 AGGACATGCCCGTGTAACCCT
* * *
35564179 GGGACATGCTCGTGTGACCCT
1 AGGACATGCCCGTGTAACCCT
35564200 AGGACATGCCC
1 AGGACATGCCC
35564211 ATGCTACAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.17
Consensus pattern (21 bp):
AGGACATGCCCGTGTAACCCT
Found at i:35569846 original size:18 final size:18
Alignment explanation
Indices: 35569810--35569846 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35569800 TGTGTTTTCA
* *
35569810 AATTCAAATAAATCGAAT
1 AATTCAAATAAACCAAAT
35569828 AATTCAAATAAACCAAAT
1 AATTCAAATAAACCAAAT
35569846 A
1 A
35569847 TCAAACTATA
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:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (18 bp):
AATTCAAATAAACCAAAT
Found at i:35572115 original size:46 final size:47
Alignment explanation
Indices: 35571984--35572342 Score: 175
Period size: 46 Copynumber: 7.7 Consensus size: 47
35571974 ATATGTGTGT
* * * * *
35571984 TAGTGTAAGACATGTTTAGGACAT-GCATC-AGCCAC-ATTATGATAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGA-CCTCGA-GATGAGAGC
* * * *
35572030 CAGTGTAAGACATGTCTAGGACAT-GCATC-AGCATTGAGATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGA-CCTCGAGATGAGAGC
* *
35572076 TAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAGATATACAAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGAT-GA-GAGC
* * * * * * ** * *
35572124 TAATGCAAGACCTGTCTAGGACATGGCATC-AGCTTGTTATGTG-TC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGATGAGAGC
* *
35572169 -AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATGATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGAC-CTCGA-GATGAGAGC
* * * * * * * * * *
35572216 CAGTATAAGACCTGTTTGGGATATGTCATGGGCCTCGTTATATGAAAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCG--AGATGAGAGC
* * * * **
35572265 TTGTGTAAGACCTATCTGGGACATGGCATCGA-CTTGATG-TGTTAGC
1 TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGA-GATGAGAGC
*
35572311 TAATGTAAGACCATGTCTGGGACATGGCATCG
1 TAGTGTAAGA-CATGTCTGGGACATGGCATCG
35572343 GTGTCTTATC
Statistics
Matches: 237, Mismatches: 61, Indels: 29
0.72 0.19 0.09
Matches are distributed among these distances:
44 25 0.11
45 3 0.01
46 90 0.38
47 24 0.10
48 59 0.25
49 35 0.15
50 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (47 bp):
TAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGATGAGAGC
Found at i:35572226 original size:92 final size:92
Alignment explanation
Indices: 35572022--35572230 Score: 214
Period size: 92 Copynumber: 2.2 Consensus size: 92
35572012 CAGCCACATT
* *
35572022 ATGATAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCATTGAGATGAGAGCTAGTGTAAGAC
1 ATGATAGCCAGTATAAGACCTGTCTAGGACATGCATCAGCATTGAGATGAGAGCTAGTGTAAGAC
*
35572087 ATGTCTGGGACATGCATCGACCTCGAG
66 ATATCTGGGACATGCATCGACCTCGAG
* ** * *
35572114 AT-ATA-CAAGCTAATGCAAGACCTGTCTAGGACATGGCATCAGC-TTGTTATGTG-TC-AGTGT
1 ATGATAGCCAG-T-AT--AAGACCTGTCTAGGACAT-GCATCAGCATTGAGATGAGAGCTAGTGT
*
35572174 AAGACCTATCTGGGACATGGCATCGACAC-CGATG
61 AAGACATATCTGGGACAT-GCATCGAC-CTCGA-G
*
35572208 ATGAGAGCCAGTATAAGACCTGT
1 ATGATAGCCAGTATAAGACCTGT
35572231 TTGGGATATG
Statistics
Matches: 96, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
90 3 0.03
91 4 0.04
92 33 0.34
93 12 0.12
94 30 0.31
95 11 0.11
96 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (92 bp):
ATGATAGCCAGTATAAGACCTGTCTAGGACATGCATCAGCATTGAGATGAGAGCTAGTGTAAGAC
ATATCTGGGACATGCATCGACCTCGAG
Found at i:35574216 original size:42 final size:42
Alignment explanation
Indices: 35574104--35574268 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
35574094 TACCGTACCA
* * *
35574104 ATGCTATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * * * *
35574146 ATGCCAACAGCCTAGCTATGGTTTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * * *
35574189 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTTATGTTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
35574231 ATGCCATATCCCAAATATGGTCTTACAC-ATAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCAT
35574269 TAACCCTAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 68 0.68
43 32 0.32
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:35575621 original size:49 final size:49
Alignment explanation
Indices: 35575562--35575686 Score: 223
Period size: 49 Copynumber: 2.6 Consensus size: 49
35575552 TGCGTGCTAA
*
35575562 TGTAAAACCTGTCTGGGACATGACATCAGCATTGATAGATGAGAGCCTG
1 TGTAAGACCTGTCTGGGACATGACATCAGCATTGATAGATGAGAGCCTG
*
35575611 TGTAAGACCTGTCTAGGACATGACATCAGCATTGATAGATGAGAGCCTG
1 TGTAAGACCTGTCTGGGACATGACATCAGCATTGATAGATGAGAGCCTG
*
35575660 TGTAAGACCTGTCTGGGACATGGCATC
1 TGTAAGACCTGTCTGGGACATGACATC
35575687 GGCCTCAAGA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGACATCAGCATTGATAGATGAGAGCCTG
Found at i:35575764 original size:49 final size:51
Alignment explanation
Indices: 35575651--35575785 Score: 161
Period size: 49 Copynumber: 2.7 Consensus size: 51
35575641 ATTGATAGAT
* * * * *
35575651 GAGAGCCTGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGATATGC
1 GAGAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGGACACAAGATAAGC
* *
35575702 -A-AGCTAGTGTAAGACTTGTCTGGGACATGGCAT-TGACAC-AGATAAGC
1 GAGAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGGACACAAGATAAGC
* *
35575749 GAGAGCCAGTTTAAGACTTATCTGGGACATGGCATCG
1 GAGAGCCAGTGTAAGACTTGTCTGGGACATGGCATCG
35575786 ACTTAGATGT
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
47 7 0.10
48 4 0.06
49 58 0.83
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (51 bp):
GAGAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGGACACAAGATAAGC
Found at i:35578296 original size:98 final size:97
Alignment explanation
Indices: 35578127--35578391 Score: 320
Period size: 98 Copynumber: 2.7 Consensus size: 97
35578117 TGATGTGCGT
* * * * *
35578127 GCTAGTGTAAGACCTGTCTGGGACATGGCATCAACATTGATAGATGAAAGACTGTGTAAGACTTG
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATAG-TGAAAGCCAGTGTAAGACCTG
* *
35578192 TCTGGGACATGGCATCG-GCTTCAAGATATGCAA
65 TCTGGGACATGGCATCGACCTTCAAG-TATGAAA
* * *
35578225 GCTAGTGTAAGACCTGTCTGGGATATGGCATCGACACAGATAAGCGAAAGCCAGTGTAAGACCTG
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGAT-AGTGAAAGCCAGTGTAAGACCTG
* *
35578290 TCTGGGACATGGCATCGACCTTGATGTATGAAA
65 TCTGGGACATGGCATCGACCTTCAAGTATGAAA
* * * *
35578323 G-TCAGTGTAAAACCTGTCTGGGACATGGCATCGACTTAGAT-GTGAGAGCCAGTGTAAAACCAT
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATAGTGAAAGCCAGTGTAAGACC-T
35578386 GTCTGG
64 GTCTGG
35578392 AAAATGGCGT
Statistics
Matches: 144, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
96 17 0.12
97 8 0.06
98 112 0.78
99 7 0.05
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (97 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATAGTGAAAGCCAGTGTAAGACCTGT
CTGGGACATGGCATCGACCTTCAAGTATGAAA
Found at i:35578365 original size:49 final size:48
Alignment explanation
Indices: 35578130--35578391 Score: 280
Period size: 49 Copynumber: 5.4 Consensus size: 48
35578120 TGTGCGTGCT
* *
35578130 AGTGTAAGACCTGTCTGGGACATGGCATCAACATT-GATAGATGAAAGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-TTAGAT-GATGAAAGCC
* * * * *
35578179 TGTGTAAGACTTGTCTGGGACATGGCATCGGCTTCAAGAT-ATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTT--AGATGATGAAAGCC
* ** * *
35578228 AGTGTAAGACCTGTCTGGGATATGGCATCGACACAGATAAGCGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGA-TGAAAGCC
*
35578277 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTT-GATGTATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CTTAGATG-ATGAAAGCC
* *
35578326 AGTGTAAAACCTGTCTGGGACATGGCATCGACTTAGATG-TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGATGAAAGCC
*
35578373 AGTGTAAAACCATGTCTGG
1 AGTGTAAGACC-TGTCTGG
35578392 AAAATGGCGT
Statistics
Matches: 179, Mismatches: 25, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
47 21 0.12
48 13 0.07
49 140 0.78
50 2 0.01
51 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATGATGAAAGCC
Found at i:35582982 original size:32 final size:32
Alignment explanation
Indices: 35582946--35583011 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
35582936 ACACTGGCTT
*
35582946 TCATAATGTCACCGATGCATGTCCCAGACAGG
1 TCATAATATCACCGATGCATGTCCCAGACAGG
***
35582978 TCATAATATGGGCGATGCATGTCCCAGACAGG
1 TCATAATATCACCGATGCATGTCCCAGACAGG
35583010 TC
1 TC
35583012 TTACACTAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (32 bp):
TCATAATATCACCGATGCATGTCCCAGACAGG
Found at i:35586726 original size:25 final size:25
Alignment explanation
Indices: 35586698--35586749 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
35586688 GTCCGAAAAG
*
35586698 TAGTCTTTGGTACATCTTGGTCTTT
1 TAGTCTTTGGTACATCTTGCTCTTT
*
35586723 TAGTCTTTGGTACATCTTTCTCTTT
1 TAGTCTTTGGTACATCTTGCTCTTT
35586748 TA
1 TA
35586750 CTCTCAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.13, C:0.17, G:0.15, T:0.54
Consensus pattern (25 bp):
TAGTCTTTGGTACATCTTGCTCTTT
Found at i:35590547 original size:46 final size:45
Alignment explanation
Indices: 35590493--35590660 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 45
35590483 TCTTGTAGCC
* *
35590493 GATGCATGTCCCAGACATGTCTTATACTGGCTTACATCCCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCCCAAGGCT
* * * * * *
35590539 GATGCATGTCCCAGACATGTGTTACACTAGCACTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCCCAAGGCT
***** *
35590585 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCCCAAGGCT
* *
35590633 GATGCATGTCCGAGAAATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
35590661 AGCTCACACA
Statistics
Matches: 97, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
46 50 0.52
47 27 0.28
48 20 0.21
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCATCCCAAGGCT
Found at i:35590637 original size:94 final size:93
Alignment explanation
Indices: 35590396--35590663 Score: 278
Period size: 94 Copynumber: 2.9 Consensus size: 93
35590386 GGTAAAGTGT
* ** *
35590396 CGATGCCATGCCCCAGACATGGTCTTACACCAGCTCTCACATAACCGT-GCCGAGGCCATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATAA-CGTGGCCGATG-CATGTCCC
* **
35590460 AGACATGGTCTTACACTAACACATCTTGTAGC
63 AGACAT-GTCTTACACTAGCACATCTTCAAGC
* ** * *
35590492 CGATG-CATGTCCCAGACAT-GTCTTATACTGGCT-TACATCCCGAGGCTGATGCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAACGTGGCCGATGCATGTCCCAGA
*
35590554 CATGTGTTACACTAGCAC-TCGTCTCAATGC
66 CATGTCTTACACTAGCACATC-T-TCAA-GC
* * *
35590584 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTCCGAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAACGTGGCCGATGCATGTCCCAGA
*
35590648 AATGTCTTACACTAGC
66 CATGTCTTACACTAGC
35590664 TCACACAAAT
Statistics
Matches: 142, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
89 2 0.01
90 14 0.10
91 18 0.13
92 15 0.11
93 15 0.11
94 59 0.42
95 14 0.10
96 5 0.04
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATAACGTGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACATCTTCAAGC
Found at i:35598084 original size:43 final size:42
Alignment explanation
Indices: 35597961--35598125 Score: 190
Period size: 42 Copynumber: 3.9 Consensus size: 42
35597951 ATTAGGGTTA
* *
35597961 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCAAC
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
*
35598003 ATGAGACTACGTGTAAGACAATATCTGGGATATGGCATCGAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
* * * *
35598045 ATGAAACTTCGTGTAAAACCATAGT-TGGGCTATTGGCATCGAT
1 ATGAGACTACGTGTAAGACCATA-TCTGGGATA-TGGCATCGAT
* * * *
35598088 ACGAGA-TCACATATAAGACCATATTTGGGATATGGCAT
1 ATGAGACT-ACGTGTAAGACCATATCTGGGATATGGCAT
35598126 TGGTACGATA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 72 0.69
43 32 0.31
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
Found at i:35598323 original size:15 final size:16
Alignment explanation
Indices: 35598297--35598326 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35598287 ATGAACCCTT
35598297 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
35598313 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
35598327 ATAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:35602975 original size:53 final size:53
Alignment explanation
Indices: 35602903--35603006 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
35602893 ATGGAAGAAA
35602903 AAGAATCATGGCTGTGAAATAAAAAACTTTTGTGAAGTAGTTTTCATGGAACC
1 AAGAATCATGGCTGTGAAATAAAAAACTTTTGTGAAGTAGTTTTCATGGAACC
* *
35602956 AAGAATCATGGTTGTGAAATAAACAACTTTTGTGAAGTAGTTTTCATGGAA
1 AAGAATCATGGCTGTGAAATAAAAAACTTTTGTGAAGTAGTTTTCATGGAA
35603007 ACCCTAACTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.32
Consensus pattern (53 bp):
AAGAATCATGGCTGTGAAATAAAAAACTTTTGTGAAGTAGTTTTCATGGAACC
Found at i:35603649 original size:47 final size:45
Alignment explanation
Indices: 35603539--35603664 Score: 128
Period size: 47 Copynumber: 2.7 Consensus size: 45
35603529 TTATTTGTGT
* * * *
35603539 GCTAGTATAAGACATGTCTGGGACATGCATCAGCCATATTATAAGA
1 GCTAGTGTAAAACATGTCTGGGACATGCATC-GCCATATGACAAGA
* *
35603585 GCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCAT-TGAGACAAGA
1 GCTAGTGTAAAA-CATGTCTGGGACAT-GCATCGCCATAT--GACAAGA
* *
35603633 GCTAGTGTAACACATGTTTGGGACATGCATCG
1 GCTAGTGTAAAACATGTCTGGGACATGCATCG
35603665 ACCTCGCGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
46 16 0.24
47 31 0.46
48 20 0.30
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAAACATGTCTGGGACATGCATCGCCATATGACAAGA
Found at i:35609066 original size:19 final size:19
Alignment explanation
Indices: 35609042--35609103 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
35609032 ACATGAGCTA
35609042 GAAAGATATCGGATTGACC
1 GAAAGATATCGGATTGACC
***
35609061 GAAAGATTATTTAATT-A--
1 GAAAGA-TATCGGATTGACC
35609078 GAAAGATATCGGATTGACC
1 GAAAGATATCGGATTGACC
35609097 GAAAGAT
1 GAAAGAT
35609104 TGTTTAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 6 0.18
17 7 0.21
19 14 0.42
20 6 0.18
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.26
Consensus pattern (19 bp):
GAAAGATATCGGATTGACC
Found at i:35609087 original size:36 final size:36
Alignment explanation
Indices: 35609040--35609112 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
35609030 AGACATGAGC
35609040 TAGAAAGATATCGGATTGACCGAAAGATTATTTAAT
1 TAGAAAGATATCGGATTGACCGAAAGATTATTTAAT
*
35609076 TAGAAAGATATCGGATTGACCGAAAGATTGTTTAAT
1 TAGAAAGATATCGGATTGACCGAAAGATTATTTAAT
35609112 T
1 T
35609113 TTTGCAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (36 bp):
TAGAAAGATATCGGATTGACCGAAAGATTATTTAAT
Found at i:35609751 original size:15 final size:15
Alignment explanation
Indices: 35609697--35609740 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
35609687 GTATTGTAAT
*
35609697 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
* *
35609712 ATAGATTTCTTTATC
1 TTGGATTTCTTTATC
35609727 TTGGATTTCTTTAT
1 TTGGATTTCTTTAT
35609741 TCTGGGTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.57
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:35615229 original size:20 final size:21
Alignment explanation
Indices: 35615190--35615229 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35615180 GTTATAATGA
*
35615190 CCACACGGGCGTGTTGCCCTT
1 CCACACGGACGTGTTGCCCTT
35615211 CCACACGGACGTG-TGCCCT
1 CCACACGGACGTGTTGCCCT
35615230 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGACGTGTTGCCCTT
Found at i:35617782 original size:46 final size:46
Alignment explanation
Indices: 35617638--35617904 Score: 218
Period size: 46 Copynumber: 5.7 Consensus size: 46
35617628 TTTGTGTGCT
* ** **
35617638 AGTGTAAGACATGTATGGGACATGCATCGGCCAGATCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAAATGAGAGCC
* * * * *
35617684 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAAATGAGAGCC
*
35617732 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAAATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAAATG-AGAGCC
* * *
35617778 AGTGTAAGACATGTCTGGGACATGCATCGG-CT-AAGA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAAATGA-GAGCC
* * ** ** *
35617822 AATGTAAGATCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCA-AAATGAGAGCC
*
35617872 AGTGTAAGACCATGTCTGGGACACGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGC
35617905 ATTATGAATA
Statistics
Matches: 178, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 13 0.07
45 16 0.09
46 60 0.34
47 27 0.15
48 26 0.15
49 1 0.01
50 31 0.17
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAAATGAGAGCC
Found at i:35617876 original size:94 final size:93
Alignment explanation
Indices: 35617635--35617906 Score: 292
Period size: 94 Copynumber: 2.9 Consensus size: 93
35617625 TTATTTGTGT
* *
35617635 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCAGATCA--TGAGAGCCAGTGTAAGACCATG
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCAGAT-ATGTGAGAGCCAGTGTAAGACCATG
35617698 TCTGGGACATGGCATCGGCATTAAGACGAGA
65 TCTGGGACAT-GCATCGGCA-TAAGACGAGA
* * *
35617729 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCA-AAATGT-A-AGCCAGTGTAAGA-CAT
1 GCTAATGTAAGACATGTCTGGGACATGCATCGG-C-CAGATATGTGAGAGCCAGTGTAAGACCAT
*
35617790 GTCTGGGACATGCATCGGC-TAAGA-GATGT
64 GTCTGGGACATGCATCGGCATAAGACGA-GA
* * *
35617819 G-TCAATGTAAGATCATGTCTGGGACATGGCATCAGCACGGATATGTGAGAGCTAGTGTAAGACC
1 GCT-AATGTAAGA-CATGTCTGGGACAT-GCATCGGC-CAGATATGTGAGAGCCAGTGTAAGACC
*
35617883 ATGTCTGGGACACGGCATCGGCAT
62 ATGTCTGGGACA-TGCATCGGCAT
35617907 TATGAATATC
Statistics
Matches: 152, Mismatches: 12, Indels: 25
0.80 0.06 0.13
Matches are distributed among these distances:
89 3 0.02
90 15 0.10
91 15 0.10
92 19 0.12
93 15 0.10
94 57 0.38
95 16 0.11
96 11 0.07
97 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (93 bp):
GCTAATGTAAGACATGTCTGGGACATGCATCGGCCAGATATGTGAGAGCCAGTGTAAGACCATGT
CTGGGACATGCATCGGCATAAGACGAGA
Found at i:35622553 original size:42 final size:42
Alignment explanation
Indices: 35622502--35622666 Score: 215
Period size: 42 Copynumber: 3.9 Consensus size: 42
35622492 ATTAGGGTTA
* * *
35622502 ATGAGACTACGTGTAAGACCATATCTGAGATATGGCATCAAC
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
*
35622544 ATTAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
* * * * *
35622586 ATGAAACTTCGTGTATGACCATAGCTGGGCTATTGGCATCGAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATA-TGGCATCGAT
*
35622629 ATGAGA-TCACATGTAAGACCATATCTGGGATATGGCAT
1 ATGAGACT-ACGTGTAAGACCATATCTGGGATATGGCAT
35622667 TGGTACGATA
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 71 0.68
43 34 0.32
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTGGGATATGGCATCGAT
Found at i:35629021 original size:40 final size:40
Alignment explanation
Indices: 35628963--35629154 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
35628953 CGGATGATAA
*
35628963 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
35629003 CCGGGCTAAGTTCCGAAGGCAGTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * * *
35629043 TCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
35629083 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
35629123 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
35629155 AGCTATATCC
Statistics
Matches: 133, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:35632221 original size:28 final size:28
Alignment explanation
Indices: 35632158--35632280 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
35632148 ATATTAAGTC
*
35632158 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
35632185 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
35632213 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
35632241 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
35632270 CGCACACTTAG
1 CGCACACTTAG
35632281 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.25
28 51 0.57
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:35636113 original size:15 final size:15
Alignment explanation
Indices: 35636093--35636124 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35636083 ACAGACGGAT
35636093 ATCTTTGTTTAATCC
1 ATCTTTGTTTAATCC
35636108 ATCTTTGTTTAATCC
1 ATCTTTGTTTAATCC
35636123 AT
1 AT
35636125 TTTCAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (15 bp):
ATCTTTGTTTAATCC
Found at i:35638525 original size:9 final size:9
Alignment explanation
Indices: 35638504--35638538 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
35638494 CAAATTCAAC
35638504 CATTCAA-T
1 CATTCAATT
*
35638512 CATTCATTT
1 CATTCAATT
35638521 CATTCAATT
1 CATTCAATT
35638530 CATTCAATT
1 CATTCAATT
35638539 TAATCCAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (9 bp):
CATTCAATT
Found at i:35640593 original size:40 final size:40
Alignment explanation
Indices: 35640548--35640735 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 40
35640538 TATAACCACA
** *
35640548 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
35640588 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * * **
35640628 AGCACAATTGCCTTCAGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
35640668 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
35640708 AGCACAATTGCCTTCGGGACTTAGCCCG
1 AGCACAAATGCCTTCGGGTCTTAGCCCG
35640736 AATATCATTC
Statistics
Matches: 118, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:35640668 original size:80 final size:79
Alignment explanation
Indices: 35640520--35640740 Score: 282
Period size: 80 Copynumber: 2.8 Consensus size: 79
35640510 ACCCAAGTTT
* * * * * * * *
35640520 CTTCGGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGT
1 CTTCGG-ATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCAGGTCTTAACCCGGATATAGC
35640584 AACTCGCACAAATGC
65 AACTCGCACAAATGC
*
35640599 CTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCAGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCAGGTCTTAACCCGGATATAGC
35640664 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
35640679 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGAATAT
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCAGGTCTTAACCCGGATAT
35640741 CATTCAAATG
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
78 2 0.02
79 10 0.08
80 112 0.90
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCAGGTCTTAACCCGGATATAGCA
ACTCGCACAAATGC
Found at i:35648682 original size:44 final size:45
Alignment explanation
Indices: 35648545--35648682 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 45
35648535 TCCTGGACGT
* *
35648545 GGTCTTACATGT-AATTT-AGTATCGATGCCTCTGTCCCAGACAA
1 GGTCTTACATGTAAATTTCAATATCGATGCCTGTGTCCCAGACAA
* * * * * *
35648588 GGTCTTATACG-AAA--TCAGATAT-GATGCC-GATATCTCGGACAT
1 GGTCTTACATGTAAATTTCA-ATATCGATGCCTG-TGTCCCAGACAA
* *
35648630 GGCCTTACATGTAAATTTCAAT-TCGATGCCTGTGTCCCAGACAC
1 GGTCTTACATGTAAATTTCAATATCGATGCCTGTGTCCCAGACAA
35648674 GGTCTTACA
1 GGTCTTACA
35648683 CGATAATTCA
Statistics
Matches: 70, Mismatches: 16, Indels: 17
0.68 0.16 0.17
Matches are distributed among these distances:
41 1 0.01
42 23 0.33
43 18 0.26
44 24 0.34
45 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (45 bp):
GGTCTTACATGTAAATTTCAATATCGATGCCTGTGTCCCAGACAA
Found at i:35648987 original size:9 final size:9
Alignment explanation
Indices: 35648973--35648997 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35648963 AACCATTCAA
35648973 TCATTCATT
1 TCATTCATT
35648982 TCATTCATT
1 TCATTCATT
35648991 TCATTCA
1 TCATTCA
35648998 ATTTAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
TCATTCATT
Found at i:35651427 original size:17 final size:17
Alignment explanation
Indices: 35651405--35651437 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35651395 ATTCTTTGAG
35651405 AATTGCC-ACAGCATTTC
1 AATTGCCTA-AGCATTTC
35651422 AATTGCCTAAGCATTT
1 AATTGCCTAAGCATTT
35651438 TTTTTAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTGCCTAAGCATTTC
Found at i:35652388 original size:10 final size:9
Alignment explanation
Indices: 35652363--35652387 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35652353 CCTTTACTAA
35652363 TTTAAAATT
1 TTTAAAATT
35652372 TTTAAAATT
1 TTTAAAATT
35652381 TTTAAAA
1 TTTAAAA
35652388 AGTTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTAAAATT
Found at i:35653644 original size:22 final size:22
Alignment explanation
Indices: 35653619--35653662 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35653609 TAGTCTTATA
35653619 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
35653641 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
35653663 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:35653698 original size:13 final size:14
Alignment explanation
Indices: 35653682--35653723 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
35653672 TTTCAATTTT
35653682 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
35653695 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
35653710 ATTTTAAATAATAT
1 ATTTT-AATAATAT
35653724 TATTAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:35653708 original size:16 final size:16
Alignment explanation
Indices: 35653686--35653722 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
35653676 AATTTTATTT
35653686 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
35653703 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
35653718 TAATA
1 TAATA
35653723 TTATTAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:35653775 original size:15 final size:15
Alignment explanation
Indices: 35653755--35653811 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
35653745 ATTCAATATT
35653755 AATATTTTAATAATA
1 AATATTTTAATAATA
*
35653770 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
35653789 AATATATTAATAATA
1 AATATTTTAATAATA
*
35653804 AATGTTTT
1 AATATTTT
35653812 GTATTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:35654289 original size:14 final size:14
Alignment explanation
Indices: 35654270--35654308 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
35654260 TTAGAAAAGT
35654270 AAATCATTTTCCAG
1 AAATCATTTTCCAG
* *
35654284 AAATCATTTTTCGG
1 AAATCATTTTCCAG
*
35654298 AAGTCATTTTC
1 AAATCATTTTC
35654309 AGTGAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:35659152 original size:23 final size:23
Alignment explanation
Indices: 35659126--35659173 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
35659116 TAATATCAAT
35659126 TACATA-TATTACATTTGTACACA
1 TACATATTATTACATTTGTAC-CA
35659149 TACATATTATTACATTTGTACCA
1 TACATATTATTACATTTGTACCA
35659172 TA
1 TA
35659174 TCATCCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (23 bp):
TACATATTATTACATTTGTACCA
Found at i:35660599 original size:131 final size:131
Alignment explanation
Indices: 35660313--35660609 Score: 305
Period size: 131 Copynumber: 2.3 Consensus size: 131
35660303 CTTAGAAAAT
* * * *
35660313 ATGAGTGAAATTCCAAAGGGATCTTCGATTGTTTTGAACAAATGAAAAAGCGCAACCCAGCACGA
1 ATGAGTGAAATTCTAAAGGGATATTCGATTGTTTTGAACAAACGAAAAAGCACAACCCAGCACGA
* *
35660378 TAGGGCTCGATTCTCAAATCACCAAACATCGAACATCGCCTTCGTTTTGAAAGGTTTTTAATAAA
66 TAGGGCTCGATTCTCAAATCACCAAACACCGAACATCACCTTCGTTTTGAAAGGTTTTTAATAAA
35660443 C
131 C
* ** * * * * *
35660444 ATGAATGAAAACCTAAAGGAATATTCGATTGTTTTGAACTAACGAGAAATCACAGCCCAGCACGA
1 ATGAGTGAAATTCTAAAGGGATATTCGATTGTTTTGAACAAACGAAAAAGCACAACCCAGCACGA
* * ** *
35660509 TAGGGCAT-GATTC-CAGAATTATCAAACACCGAGTATTACCTTCGTTTTG-AAGGATTTTTAGA
66 TAGGGC-TCGATTCTCA-AATCACCAAACACCGAACATCACCTTCGTTTTGAAAGG-TTTTTA-A
*
35660571 -ATAC
127 TAAAC
* * * * *
35660575 CTGAGTGAAATTTTGAAGGGATATTTGATTATTTT
1 ATGAGTGAAATTCTAAAGGGATATTCGATTGTTTT
35660610 AAGCAATCAA
Statistics
Matches: 133, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
130 6 0.05
131 125 0.94
132 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (131 bp):
ATGAGTGAAATTCTAAAGGGATATTCGATTGTTTTGAACAAACGAAAAAGCACAACCCAGCACGA
TAGGGCTCGATTCTCAAATCACCAAACACCGAACATCACCTTCGTTTTGAAAGGTTTTTAATAAA
C
Found at i:35660623 original size:131 final size:130
Alignment explanation
Indices: 35660488--35660796 Score: 291
Period size: 130 Copynumber: 2.4 Consensus size: 130
35660478 TGAACTAACG
* * * ** * * *
35660488 AGAAATCACAGCCCAGCACGATAGGGCATGATTCCA-GAATTATCAAACACCG-AGTATTACCTT
1 AGAAATCACAACCCAACACGATAAGGCACAATTCCATGAATTACCAAACACCGCA-CATCACCTT
* * *
35660551 CGTTTTGAA-GGATTTTTAGAATACCTGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCA
65 CG-TTT-AAGGGA-TTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCA
35660615 ATCA
127 ATCA
** * * * *
35660619 AGAAATTGCAACCCAACACGTTAAGGCACAATTCCATGAATTGCCAAATATCGCACATCACCTTC
1 AGAAATCACAACCCAACACGATAAGGCACAATTCCATGAATTACCAAACACCGCACATCACCTTC
* * * *
35660684 GTTTAAGGGATTTTAAAAGACATGAGTGAAATTTTGAAGTGATATTTGATTATTTTGAGCAAACG
66 GTTTAAGGGATTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAATCA
* ** * * * * * *
35660749 CGAAATTGCAACCTAGCACGTTAAGGCACGATTCCACGAATTGCCAAA
1 AGAAATCACAACCCAACACGATAAGGCACAATTCCATGAATTACCAAA
35660797 TATCAAATCT
Statistics
Matches: 149, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
130 93 0.62
131 34 0.23
132 21 0.14
133 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (130 bp):
AGAAATCACAACCCAACACGATAAGGCACAATTCCATGAATTACCAAACACCGCACATCACCTTC
GTTTAAGGGATTTTAAAAGACATGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAATCA
Found at i:35660827 original size:130 final size:129
Alignment explanation
Indices: 35660576--35660827 Score: 337
Period size: 130 Copynumber: 1.9 Consensus size: 129
35660566 TTAGAATACC
*
35660576 TGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAATCAAGAAATTGCAACCCAACACGTT
1 TGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACAAGAAATTGCAACCCAACACGTT
* * **
35660641 AAGGCACAATTCCATGAATTGCCAAATATCGCACATCACCTTCGTTTAAGGGATTTTAAAAGACA
66 AAGGCACAATTCCACGAATTGCCAAATATC-CAAATCACCTTCGTTTAAGAAATTTTAAAAGACA
* * ** * *
35660706 TGAGTGAAATTTTGAAGTGATATTTGATTATTTTGAGCAAACGCGAAATTGCAACCTAGCACGTT
1 TGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACAAGAAATTGCAACCCAACACGTT
* *
35660771 AAGGCACGATTCCACGAATTGCCAAATAT-CAAATCTCGTCTTCGTTTTAA-AAATTTT
66 AAGGCACAATTCCACGAATTGCCAAATATCCAAATCAC--CTTCG-TTTAAGAAATTTT
35660828 TTGAATGAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
128 6 0.06
130 95 0.90
131 5 0.05
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (129 bp):
TGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACAAGAAATTGCAACCCAACACGTT
AAGGCACAATTCCACGAATTGCCAAATATCCAAATCACCTTCGTTTAAGAAATTTTAAAAGACA
Found at i:35661429 original size:21 final size:21
Alignment explanation
Indices: 35661388--35661429 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
35661378 GTTAACAAAC
* *
35661388 TATATGATAATTTAAATAATA
1 TATATGATAATTGAAAGAATA
35661409 TATAT-ATAATATGAAAGAATA
1 TATATGATAAT-TGAAAGAATA
35661430 ATAATGAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
TATATGATAATTGAAAGAATA
Found at i:35666294 original size:24 final size:24
Alignment explanation
Indices: 35666262--35666310 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
35666252 TCTGATAATA
35666262 ACTGGGGTTATTATAACACTTGTC
1 ACTGGGGTTATTATAACACTTGTC
35666286 ACTGGGGTTATTATAACACTTGTC
1 ACTGGGGTTATTATAACACTTGTC
35666310 A
1 A
35666311 ATATTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (24 bp):
ACTGGGGTTATTATAACACTTGTC
Found at i:35666525 original size:21 final size:21
Alignment explanation
Indices: 35666501--35666546 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
35666491 AATAATATAG
*
35666501 ATTTAATAAATATAGAA-AAAA
1 ATTTAATAAATAGA-AAGAAAA
35666522 ATTTAATAAATAGAAAGAAAA
1 ATTTAATAAATAGAAAGAAAA
35666543 ATTT
1 ATTT
35666547 TGAACTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
ATTTAATAAATAGAAAGAAAA
Found at i:35666536 original size:19 final size:22
Alignment explanation
Indices: 35666501--35666542 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
35666491 AATAATATAG
35666501 ATTTAATAAATATAGAAA-AAA
1 ATTTAATAAATATAGAAAGAAA
35666522 ATTTAAT-AA-ATAGAAAGAAA
1 ATTTAATAAATATAGAAAGAAA
35666542 A
1 A
35666543 ATTTTGAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (22 bp):
ATTTAATAAATATAGAAAGAAA
Found at i:35669308 original size:19 final size:19
Alignment explanation
Indices: 35669278--35669323 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
35669268 CGGAAAATAA
35669278 TTTCTGGAAAATGATTTACT
1 TTTCT-GAAAATGATTTACT
35669298 TTTCTGAAAATGATTTACT
1 TTTCTGAAAATGATTTACT
35669317 TTTCTGA
1 TTTCTGA
35669324 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTCTGAAAATGATTTACT
Found at i:35672241 original size:170 final size:174
Alignment explanation
Indices: 35671980--35672322 Score: 482
Period size: 170 Copynumber: 2.0 Consensus size: 174
35671970 AGGAAGATTT
*
35671980 GAGCGAAACGAAACAGCAGCCCTGAGAAGAGAAGATATGCGACAGACACTAAGAAAAAACGAAAA
1 GAGCCAAACGAAACAGCAGCCCTGAGAAGAGAAGATATGCGACAGACACTAAGAAAAAACGAAAA
*
35672045 CAAAAGATGAAGAACAAAAGAAGTAGAAGGAGGAAAGTTACCTGGATGAAGAAGAATGAAGATGA
66 CAAAAGATGAAGAACAAAAGAAGTAGAAGGAGGAAAG-TACCTGGATGAAGAAGAAGGAAGATGA
*
35672110 AGAATG-AC-T-AGGAAAGATTGGTGAAAGTTGGAAAATGTCACA
130 AGAACGAACATGAGGAAAGATTGGTGAAAGTTGGAAAATGTCACA
* * * *
35672152 GAGCCAAATGAAACAGCAGTCCTGAGAAGAGAAGATATGCGA-A-A-GCTAAGGAAAAAAGGAAA
1 GAGCCAAACGAAACAGCAGCCCTGAGAAGAGAAGATATGCGACAGACACTAA-GAAAAAACGAAA
** * * *
35672214 TTAAAAGATGAAGAACAGAAGAAGTAGAATGAGGAAAGTACCTGGATGAAGAAGAAGGAAGATTA
65 ACAAAAGATGAAGAACAAAAGAAGTAGAAGGAGGAAAGTACCTGGATGAAGAAGAAGGAAGATGA
* *
35672279 AGAACGACACAATGGGGAAAGATTGGTGAGAGTTGGAAAATGTC
130 AGAACGA-AC-ATGAGGAAAGATTGGTGAAAGTTGGAAAATGTC
35672323 TTACAGAAAA
Statistics
Matches: 151, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
169 34 0.23
170 46 0.30
171 3 0.02
172 39 0.26
173 1 0.01
174 28 0.19
ACGTcount: A:0.48, C:0.10, G:0.29, T:0.13
Consensus pattern (174 bp):
GAGCCAAACGAAACAGCAGCCCTGAGAAGAGAAGATATGCGACAGACACTAAGAAAAAACGAAAA
CAAAAGATGAAGAACAAAAGAAGTAGAAGGAGGAAAGTACCTGGATGAAGAAGAAGGAAGATGAA
GAACGAACATGAGGAAAGATTGGTGAAAGTTGGAAAATGTCACA
Done.