Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 235 of 444
Found at i:66471965 original size:26 final size:26
Alignment explanation
Indices: 66471936--66471988 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
66471926 TTTACAGTTT
66471936 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
66471962 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
66471988 T
1 T
66471989 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:66474090 original size:40 final size:39
Alignment explanation
Indices: 66473926--66474108 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
66473916 AAATTGAATG
* * *
66473926 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
66473966 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
66474006 ACATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
66474045 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
66474084 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
66474109 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 34 0.31
40 71 0.64
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:66482199 original size:40 final size:39
Alignment explanation
Indices: 66482034--66482217 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
66482024 AAATTGAATG
* * *
66482034 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
66482074 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
66482114 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
66482154 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
66482193 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
66482218 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:66482242 original size:80 final size:81
Alignment explanation
Indices: 66482074--66482262 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
66482064 GCTGGAAATT
* * * *
66482074 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
66482139 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
66482155 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
66482218 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
66482234 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
66482263 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:66485068 original size:80 final size:80
Alignment explanation
Indices: 66484984--66485132 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
66484974 TATGGTAACC
* * * *
66484984 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
66485048 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
66485064 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
66485129 CCGG
66 CCGG
66485133 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:66485074 original size:40 final size:38
Alignment explanation
Indices: 66485025--66485132 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
66485015 ATCACGATTT
*
66485025 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
66485065 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
66485105 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
66485133 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:66493181 original size:80 final size:80
Alignment explanation
Indices: 66493097--66493245 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
66493087 TATGGTAACC
* * * *
66493097 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
66493161 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
66493177 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
66493242 CCGG
66 CCGG
66493246 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:66493187 original size:40 final size:38
Alignment explanation
Indices: 66493138--66493245 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
66493128 ATCACGATTT
*
66493138 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
66493178 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
66493218 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
66493246 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:66495677 original size:45 final size:44
Alignment explanation
Indices: 66495512--66495670 Score: 126
Period size: 45 Copynumber: 3.6 Consensus size: 44
66495502 CATCCATTAT
* * * * * * *
66495512 GAACTCGGACCAACTCAATGAGCTCAGA-TGCTCGCATCTGTAAT
1 GAACTCGGACCAACTCAACGAGCTCAGATTTC-CACATATATCAC
*
66495556 GAACTCGGACCAACTCAACGAGCTC-GAATGCTT-CACATATACCAC
1 GAACTCGGACCAACTCAACGAGCTCAG-AT--TTCCACATATATCAC
* * * * *
66495601 TAACTTGGACCAACTAAACAAGTTCAGATTTCCCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCAGATTT-CCACATATATCAC
*
66495646 GAACTCGGACCAACTCAATGAGCTC
1 GAACTCGGACCAACTCAACGAGCTC
66495671 GAATTTCTTA
Statistics
Matches: 88, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
43 3 0.03
44 25 0.28
45 58 0.66
46 1 0.01
47 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (44 bp):
GAACTCGGACCAACTCAACGAGCTCAGATTTCCACATATATCAC
Found at i:66495822 original size:24 final size:24
Alignment explanation
Indices: 66495790--66495837 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
66495780 GCTCTATCCA
66495790 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
66495814 TAGTACCAATTGCCCATTCATGGC
1 TAGTACCAATTGCCCATTCATGGC
66495838 ATAATAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (24 bp):
TAGTACCAATTGCCCATTCATGGC
Found at i:66495919 original size:14 final size:16
Alignment explanation
Indices: 66495887--66495925 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
66495877 ATTTGCATAA
*
66495887 CATATATCACATATTT
1 CATATATCACATATGT
66495903 CATATATCAC-T-TGT
1 CATATATCACATATGT
66495917 CATATATCA
1 CATATATCA
66495926 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:66498266 original size:46 final size:46
Alignment explanation
Indices: 66498216--66498386 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
66498206 GTTGAGCATA
*
66498216 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* * * *
66498262 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTC
* * *
66498309 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* *
66498355 CGAGCTCGTTGCGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
66498387 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
Found at i:66498375 original size:93 final size:93
Alignment explanation
Indices: 66498211--66498381 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
66498201 GGATGGTTGA
* *
66498211 GCATACGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATACGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
66498276 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
66498304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGCGT
1 GCATACGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
66498369 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
66498382 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATACGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66498648 original size:19 final size:20
Alignment explanation
Indices: 66498611--66498648 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66498601 ATAAGGTGGT
66498611 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
66498631 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
66498649 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:66501062 original size:21 final size:21
Alignment explanation
Indices: 66501038--66501077 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66501028 TCAACCCATC
**
66501038 TTTAATTTGTTGGAATAAACA
1 TTTAATTTCCTGGAATAAACA
66501059 TTTAATTTCCTGGAATAAA
1 TTTAATTTCCTGGAATAAA
66501078 ATTAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (21 bp):
TTTAATTTCCTGGAATAAACA
Found at i:66501180 original size:19 final size:19
Alignment explanation
Indices: 66501156--66501194 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
66501146 AATAAATTAC
*
66501156 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
66501175 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
66501194 T
1 T
66501195 GCTGGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:66501190 original size:54 final size:54
Alignment explanation
Indices: 66501130--66501258 Score: 179
Period size: 54 Copynumber: 2.4 Consensus size: 54
66501120 TTTAGTTTAA
* *
66501130 TTAATTAATTTTCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
* * * *
66501184 TTAATTAAGTTGCTGGAATAAATCACTCGTCTTAGTTCATTAAGTTCATCTTAG
1 TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
*
66501238 TTAATTTATTTGT-TGGAATAA
1 TTAATTAATTT-TCTGGAATAA
66501259 TTTATTGTTC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (54 bp):
TTAATTAATTTTCTGGAATAAATCACTCATCTTAGTTAATTAAGTTCATCTTAG
Found at i:66501335 original size:19 final size:19
Alignment explanation
Indices: 66501311--66501355 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
66501301 TAAGTCTAAT
*
66501311 ATGTGTTCAAATG-TTTTTA
1 ATGTGTT-AAATGAGTTTTA
*
66501330 ATGTGTTTAATGAGTTTTA
1 ATGTGTTAAATGAGTTTTA
66501349 ATGTGTT
1 ATGTGTT
66501356 TGTTTGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (19 bp):
ATGTGTTAAATGAGTTTTA
Found at i:66501350 original size:10 final size:10
Alignment explanation
Indices: 66501320--66501356 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
66501310 TATGTGTTCA
66501320 AATGT-TTTT
1 AATGTGTTTT
66501329 AATGTG-TTT
1 AATGTGTTTT
*
66501338 AATGAGTTTT
1 AATGTGTTTT
66501348 AATGTGTTT
1 AATGTGTTT
66501357 GTTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 13 0.54
10 11 0.46
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (10 bp):
AATGTGTTTT
Found at i:66501485 original size:45 final size:45
Alignment explanation
Indices: 66501415--66501502 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
66501405 TTATAAAGTG
* * *
66501415 TTAATGCGGCTGTTACATTACTTAAAGAAGAACATTATTTATCAC
1 TTAATGCGGCTGTTACATCACTTAAAAAAGAACATTATATATCAC
* *
66501460 TTAATG-GAGCTGTTACATCATTTAAAAAAGAGCATTATATATC
1 TTAATGCG-GCTGTTACATCACTTAAAAAAGAACATTATATATC
66501503 TTTTAAATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.03
45 36 0.97
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (45 bp):
TTAATGCGGCTGTTACATCACTTAAAAAAGAACATTATATATCAC
Found at i:66502030 original size:48 final size:48
Alignment explanation
Indices: 66501974--66502066 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
66501964 TCGAGTGTGG
**
66501974 CGTTCATATACCTTTGATTCCTATCATTTTTTATAGTGGGTCAAGGTT
1 CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGGGTCAAGGTT
*
66502022 CGTTCATATACCTTTGGTTCCTATCATTTTTTATAACGGGTCAAG
1 CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGGGTCAAG
66502067 CTCCTTTGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (48 bp):
CGTTCATATACCTTTGATTCCTATCATTTTTTATAACGGGTCAAGGTT
Found at i:66502583 original size:28 final size:28
Alignment explanation
Indices: 66502543--66502600 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
66502533 TAAAGTTGCA
66502543 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
66502571 AAGCTGAAAATGATTAAATGAGTGTATT
1 AAGCTGAAAATGATTAAATGAGTGTATT
66502599 AA
1 AA
66502601 CATATAGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (28 bp):
AAGCTGAAAATGATTAAATGAGTGTATT
Found at i:66504957 original size:13 final size:13
Alignment explanation
Indices: 66504939--66504965 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66504929 TAGAACTCAG
66504939 CAGGCGGATTGAT
1 CAGGCGGATTGAT
66504952 CAGGCGGATTGAT
1 CAGGCGGATTGAT
66504965 C
1 C
66504966 TACAACTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (13 bp):
CAGGCGGATTGAT
Found at i:66509188 original size:20 final size:20
Alignment explanation
Indices: 66509160--66509201 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
66509150 TTTGGCTAGG
66509160 TTGGGTTTGTAT-CATCTCAA
1 TTGGGTTTG-ATGCATCTCAA
* *
66509180 TTGGTTTTGATGTATCTCAA
1 TTGGGTTTGATGCATCTCAA
66509200 TT
1 TT
66509202 TTTTACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (20 bp):
TTGGGTTTGATGCATCTCAA
Found at i:66513395 original size:31 final size:31
Alignment explanation
Indices: 66513357--66513420 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
66513347 AGTGATGTCA
66513357 GAAACAATTATTTCGGGACCACCATTTCGAC
1 GAAACAATTATTTCGGGACCACCATTTCGAC
66513388 GAAACAATTATTTCGGGACCACCATTTCGAC
1 GAAACAATTATTTCGGGACCACCATTTCGAC
66513419 GA
1 GA
66513421 GTGAATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (31 bp):
GAAACAATTATTTCGGGACCACCATTTCGAC
Found at i:66515888 original size:27 final size:27
Alignment explanation
Indices: 66515624--66515870 Score: 341
Period size: 27 Copynumber: 9.1 Consensus size: 27
66515614 TGGATAAGTT
** *
66515624 GTAGAATTACTAAAATAACCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
66515651 GTAGAATTACTGACATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
66515678 TTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
66515705 GTAGAATTACCGAAATACTCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
66515732 ATAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
66515759 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
66515786 GTAGAATTATTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
66515813 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
66515840 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
66515867 GTAG
1 GTAG
66515871 GACTACTGAT
Statistics
Matches: 195, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:66515915 original size:81 final size:81
Alignment explanation
Indices: 66515624--66515903 Score: 278
Period size: 81 Copynumber: 3.5 Consensus size: 81
66515614 TGGATAAGTT
* * * * * * * *
66515624 GTAGAATTACTAAAATAACCCTGTAGGGTAGAATTACTGACATACCCCTGT-AGGTTAGAATTAC
1 GTAGAACTACTGAAATACCCCTGTAAGGTAAAATGACCGAAATACCCCTGTAAGG-TAGAATTAC
* * *
66515688 TGAAATACCCCTGTAAG
65 CGAAATACCCCTATAGG
* * * * * *
66515705 GTAGAATTACCGAAATACTCCTGT-AGGATAGAATTACCGAAATACCCTTGTAAGGTAGAATTAC
1 GTAGAACTACTGAAATACCCCTGTAAGG-TAAAATGACCGAAATACCCCTGTAAGGTAGAATTAC
66515769 CGAAATACCCCTATAGG
65 CGAAATACCCCTATAGG
* * * *
66515786 GTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACC
1 GTAGAACTACTGAAATACCCCTGTAAGGTAAAATGACCGAAATACCCCTGTAAGGTAGAATTACC
*
66515851 GAAATACCCCTGTAGG
66 GAAATACCCCTATAGG
* ** *
66515867 GTAGGACTACTGATTTACCCCTAG-AGGGTAAAATGAC
1 GTAGAACTACTGAAATACCCCT-GTAAGGTAAAATGAC
66515904 TATTTTGCCC
Statistics
Matches: 171, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.01
81 162 0.95
82 7 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (81 bp):
GTAGAACTACTGAAATACCCCTGTAAGGTAAAATGACCGAAATACCCCTGTAAGGTAGAATTACC
GAAATACCCCTATAGG
Found at i:66516051 original size:10 final size:10
Alignment explanation
Indices: 66516036--66516064 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
66516026 CGTGGGAGAT
66516036 ATCGTCATCC
1 ATCGTCATCC
66516046 ATCGTCATCC
1 ATCGTCATCC
66516056 ATCGTCATC
1 ATCGTCATC
66516065 AACCAGGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.10, T:0.31
Consensus pattern (10 bp):
ATCGTCATCC
Found at i:66516277 original size:8 final size:8
Alignment explanation
Indices: 66516264--66516292 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
66516254 GGCCGAAAAC
66516264 GGGCCAAT
1 GGGCCAAT
66516272 GGGCCAAT
1 GGGCCAAT
66516280 GGGCCAAT
1 GGGCCAAT
66516288 GGGCC
1 GGGCC
66516293 CACTTTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.41, T:0.10
Consensus pattern (8 bp):
GGGCCAAT
Found at i:66516640 original size:2 final size:2
Alignment explanation
Indices: 66516627--66516668 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
66516617 GTGGCTTCGC
*
66516627 CA CA CG CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
66516669 TATATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.50, G:0.02, T:0.00
Consensus pattern (2 bp):
CA
Found at i:66516673 original size:2 final size:2
Alignment explanation
Indices: 66516668--66516699 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
66516658 ACACACACAC
66516668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
66516700 CTGTTCTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66519756 original size:11 final size:11
Alignment explanation
Indices: 66519740--66519764 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
66519730 ATATGATATT
66519740 TTATTATTTTA
1 TTATTATTTTA
66519751 TTATTATTTTA
1 TTATTATTTTA
66519762 TTA
1 TTA
66519765 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:66525107 original size:26 final size:26
Alignment explanation
Indices: 66525077--66525131 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
66525067 CACATATCAC
66525077 TTTTACATATTTTGAAATTTAATCCT
1 TTTTACATATTTTGAAATTTAATCCT
66525103 TTTTACATATTTTGAAATTTAATCCT
1 TTTTACATATTTTGAAATTTAATCCT
66525129 TTT
1 TTT
66525132 CTTTCTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTTACATATTTTGAAATTTAATCCT
Found at i:66525195 original size:17 final size:18
Alignment explanation
Indices: 66525173--66525213 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
66525163 CATTTCCTTA
*
66525173 TCATTTCCATATATC-CT
1 TCATTTACATATATCACT
*
66525190 TCATTTACATATTTCACT
1 TCATTTACATATATCACT
66525208 TCATTT
1 TCATTT
66525214 TCACATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (18 bp):
TCATTTACATATATCACT
Found at i:66528771 original size:46 final size:46
Alignment explanation
Indices: 66528716--66528896 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
66528706 TAGGATGGTT
66528716 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * * *
66528762 GAGCGTCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
66528808 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
66528855 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66528897 GCGGGTTACA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 70 0.61
47 32 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:66528877 original size:93 final size:93
Alignment explanation
Indices: 66528718--66528888 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
66528708 GGATGGTTGA
* *
66528718 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
66528783 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
66528811 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
66528876 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
66528889 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66532106 original size:26 final size:25
Alignment explanation
Indices: 66532058--66532109 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
66532048 TAACTCATAA
66532058 ATTTCACATTTCACAAATTAGTCCCT
1 ATTTCACATTTCACAAA-TAGTCCCT
66532084 ATTTCACATTTTCATCAAA-AGTCCCT
1 ATTTCACA-TTTCA-CAAATAGTCCCT
66532110 TAATAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 15 0.62
27 5 0.21
28 4 0.17
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (25 bp):
ATTTCACATTTCACAAATAGTCCCT
Found at i:66535290 original size:30 final size:30
Alignment explanation
Indices: 66535256--66535316 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66535246 TCCTTAACTC
66535256 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
66535286 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
66535316 A
1 A
66535317 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:66539492 original size:40 final size:40
Alignment explanation
Indices: 66539436--66539599 Score: 215
Period size: 40 Copynumber: 4.1 Consensus size: 40
66539426 TGGGATTTAA
* * *
66539436 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
66539476 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
66539516 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
66539556 CCGGGA-CTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
66539596 CCGG
1 CCGG
66539600 TTATCATCCA
Statistics
Matches: 113, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.03
40 107 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66547716 original size:40 final size:40
Alignment explanation
Indices: 66547672--66547871 Score: 296
Period size: 40 Copynumber: 5.0 Consensus size: 40
66547662 GATTTAACCA
* * *
66547672 GATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCCG
1 GATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
66547712 GATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
66547752 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
66547792 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-G
* * * *
66547833 GA-CTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
66547872 ATTATCATCC
Statistics
Matches: 151, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 2 0.01
40 146 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
GATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:66552348 original size:20 final size:20
Alignment explanation
Indices: 66552320--66552364 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
66552310 CCAATCCAAG
*
66552320 CCAATATAATATCGAATTCT
1 CCAAAATAATATCGAATTCT
66552340 CCAAAATAATATCGAATTCT
1 CCAAAATAATATCGAATTCT
66552360 CCAAA
1 CCAAA
66552365 TGGCAGTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.29
Consensus pattern (20 bp):
CCAAAATAATATCGAATTCT
Found at i:66554742 original size:33 final size:33
Alignment explanation
Indices: 66554679--66554743 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
66554669 AGTACATGTA
* **
66554679 GAACGGTCTGGGCCGTAGCCCTATTTAGTAACT
1 GAACAGTCTGGGCCGTAGCCCTATACAGTAACT
**
66554712 GAACAGTCTGGGCTTTAGCCCTATACAGTAAC
1 GAACAGTCTGGGCCGTAGCCCTATACAGTAAC
66554744 GGTGTAGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (33 bp):
GAACAGTCTGGGCCGTAGCCCTATACAGTAACT
Found at i:66558302 original size:18 final size:19
Alignment explanation
Indices: 66558274--66558313 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
66558264 CTATAGACAT
66558274 TAAATAAATATTAAAATAC
1 TAAATAAATATTAAAATAC
66558293 TAAA-AAATATTAAAATAC
1 TAAATAAATATTAAAATAC
66558311 TAA
1 TAA
66558314 CTCACTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAATAAATATTAAAATAC
Found at i:66565485 original size:31 final size:31
Alignment explanation
Indices: 66565461--66565534 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 31
66565451 ATATTGAGTC
66565461 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATTCAGCT
*
66565492 CGCACACTTAGTGC--TATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATATTC-AGCT
66565520 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66565535 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 6 0.15
31 14 0.35
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATTCAGCT
Found at i:66565530 original size:28 final size:29
Alignment explanation
Indices: 66565461--66565534 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 29
66565451 ATATTGAGTC
*
66565461 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATA-T-AACT
66565492 CGCACACTTAGTGCTATATA-ATCA-AACT
1 CGCACACTTAGTGCTATATATAT-ATAACT
66565520 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66565535 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 18 0.44
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATATAACT
Found at i:66566020 original size:2 final size:2
Alignment explanation
Indices: 66566013--66566054 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
66566003 CATACTCATG
*
66566013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66566055 CACACATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:66573044 original size:28 final size:28
Alignment explanation
Indices: 66573012--66573110 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
66573002 GCAATAAGCC
*
66573012 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
66573040 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
66573068 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
66573097 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66573111 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:66576230 original size:31 final size:31
Alignment explanation
Indices: 66576206--66576279 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 31
66576196 ATATTGAGTC
66576206 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATATTCAGCT
*
66576237 CGCACACTTAGTGC--TATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATATTC-AGCT
66576265 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66576280 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 6 0.15
31 14 0.35
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (31 bp):
CGCACACTTAGTGCTATATATATATTCAGCT
Found at i:66576275 original size:28 final size:29
Alignment explanation
Indices: 66576206--66576279 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 29
66576196 ATATTGAGTC
*
66576206 CGCACACTTAGTGCTATATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATA-T-AACT
66576237 CGCACACTTAGTGCTATATA-ATCA-AACT
1 CGCACACTTAGTGCTATATATAT-ATAACT
66576265 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66576280 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
28 18 0.44
30 2 0.05
31 21 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATATAACT
Found at i:66576769 original size:2 final size:2
Alignment explanation
Indices: 66576757--66576804 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
66576747 CATACTCATG
*
66576757 TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
66576799 TG TA TA
1 TA TA TA
66576805 CACACATAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:66587137 original size:29 final size:29
Alignment explanation
Indices: 66587104--66587177 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
66587094 GTGACGAGAT
66587104 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
66587133 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
66587162 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66587178 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:66587193 original size:29 final size:28
Alignment explanation
Indices: 66587161--66587235 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
66587151 CTGGAAATAT
* *
66587161 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
66587190 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
66587218 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
66587236 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:66587204 original size:58 final size:57
Alignment explanation
Indices: 66587104--66587235 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
66587094 GTGACGAGAT
* * * * * *
66587104 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
66587162 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
66587219 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
66587236 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:66595009 original size:29 final size:29
Alignment explanation
Indices: 66594976--66595049 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
66594966 GTGACGAGAT
66594976 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
66595005 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
66595034 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66595050 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:66595065 original size:29 final size:28
Alignment explanation
Indices: 66595033--66595107 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
66595023 CTGGAAATAT
* *
66595033 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
66595062 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
66595090 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
66595108 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:66595076 original size:58 final size:57
Alignment explanation
Indices: 66594976--66595107 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
66594966 GTGACGAGAT
* * * * * *
66594976 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
66595034 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
66595091 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
66595108 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:66596835 original size:55 final size:54
Alignment explanation
Indices: 66596676--66596881 Score: 234
Period size: 53 Copynumber: 3.8 Consensus size: 54
66596666 TTCCTTTTTA
* *
66596676 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTGTAG
* * * * * * *
66596729 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTGTAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTGTAG
* * * * * *
66596783 AAGTTTATCAATGCCATGTCTTAACATGATCTTACATGATTTCCTTGCCTTGTAG
1 AA-CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTGTAG
* * *
66596838 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCT
66596882 CAAACCCTAA
Statistics
Matches: 122, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.37
54 36 0.30
55 41 0.34
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTGTAG
Found at i:66600245 original size:14 final size:13
Alignment explanation
Indices: 66600222--66600253 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
66600212 GGAATATCAA
66600222 AACAATAATTAAG
1 AACAATAATTAAG
66600235 AACACATAATTAAG
1 AACA-ATAATTAAG
66600249 AACAA
1 AACAA
66600254 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:66601553 original size:3 final size:3
Alignment explanation
Indices: 66601547--66601621 Score: 141
Period size: 3 Copynumber: 25.0 Consensus size: 3
66601537 TATGTAATGA
66601547 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
66601595 ATT ATT ATT GTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
66601622 TTGAACAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:66602808 original size:18 final size:18
Alignment explanation
Indices: 66602771--66602809 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
66602761 TAATTAAGAT
* **
66602771 AAATAAAGATAAAAGTTA
1 AAATAAAAATAAAAAATA
66602789 AAATAAAAATAAAAAATA
1 AAATAAAAATAAAAAATA
66602807 AAA
1 AAA
66602810 AGTTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATAAAAATAAAAAATA
Found at i:66605162 original size:28 final size:28
Alignment explanation
Indices: 66605122--66605200 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
66605112 GCAATCAAAT
* *
66605122 ATGGCACTCAGTGTACAAAATATTAAGA
1 ATGGCACTTAGTGTGCAAAATATTAAGA
* * **
66605150 ATGGCACTTAGTGTGCGAGATATTGTGA
1 ATGGCACTTAGTGTGCAAAATATTAAGA
**
66605178 ATGAAACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCAAAATAT
66605201 CGAATGATTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAATATTAAGA
Found at i:66605641 original size:21 final size:22
Alignment explanation
Indices: 66605610--66605650 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
66605600 GAATGTATTG
*
66605610 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
66605632 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
66605651 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:66621350 original size:28 final size:28
Alignment explanation
Indices: 66621289--66621386 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
66621279 TCACAAATTG
** * *
66621289 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
66621318 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
66621346 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
66621374 GCACTAAGTGTGC
1 GCACTAAGTGTGC
66621387 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:66630934 original size:79 final size:80
Alignment explanation
Indices: 66630851--66630998 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
66630841 TATGGTAACC
* * *
66630851 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
66630914 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
66630930 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
66630995 CCGG
66 CCGG
66630999 TTATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 30 0.53
80 26 0.46
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:66630943 original size:40 final size:40
Alignment explanation
Indices: 66630891--66630998 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
66630881 TATCACGATT
** *
66630891 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
66630931 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
66630971 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
66630999 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:66634922 original size:28 final size:27
Alignment explanation
Indices: 66634891--66634968 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
66634881 TCAAATATGG
* *
66634891 CACTCAGTGTACGAAATATTGAGAATGC
1 CACTCAGTGTGC-AAATATTGAGAATGA
*
66634919 CACTTAGTGTGCAAGATATTGAGAATGA
1 CACTCAGTGTGCAA-ATATTGAGAATGA
*
66634947 CACTGAGTGTGCAAAATATTGA
1 CACTCAGTGTGC-AAATATTGA
66634969 ATGATTCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 40 0.91
29 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (27 bp):
CACTCAGTGTGCAAATATTGAGAATGA
Found at i:66638529 original size:39 final size:39
Alignment explanation
Indices: 66638334--66638527 Score: 289
Period size: 39 Copynumber: 4.9 Consensus size: 39
66638324 TCGTTCAAAC
* * * * * *
66638334 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
66638374 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
66638414 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
*
66638453 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
*
66638492 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
66638528 TTCATACACA
Statistics
Matches: 144, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 102 0.71
40 42 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:66644382 original size:40 final size:40
Alignment explanation
Indices: 66644336--66644416 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
66644326 CTATAATATG
66644336 AATATATTCATTCAATAAATCATTATATCGAATATTAATT
1 AATATATTCATTCAATAAATCATTATATCGAATATTAATT
66644376 AATATATTCATTCAATAAATCATTATATCGAATATTAATT
1 AATATATTCATTCAATAAATCATTATATCGAATATTAATT
66644416 A
1 A
66644417 CTTACTGTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (40 bp):
AATATATTCATTCAATAAATCATTATATCGAATATTAATT
Found at i:66644645 original size:43 final size:43
Alignment explanation
Indices: 66644560--66644645 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
66644550 AAATCGTATA
*
66644560 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
*
66644603 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACTTATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATATCG
66644646 GAATCACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:66655530 original size:35 final size:35
Alignment explanation
Indices: 66655484--66655550 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
66655474 TTAGTAAGTT
66655484 TGCATGTAAATAAATAACAACATTCTAAATGATAA
1 TGCATGTAAATAAATAACAACATTCTAAATGATAA
66655519 TGCATGTAAATAAATAACAACATTCTAAATGA
1 TGCATGTAAATAAATAACAACATTCTAAATGA
66655551 ATTATCAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (35 bp):
TGCATGTAAATAAATAACAACATTCTAAATGATAA
Found at i:66655753 original size:53 final size:54
Alignment explanation
Indices: 66655673--66655879 Score: 202
Period size: 53 Copynumber: 3.8 Consensus size: 54
66655663 TTCCTTTTTA
* * *
66655673 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
66655726 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG
* * ** * * * * * * *
66655780 TAGCTTATCAACGCCAAGTCTTGACATGGTCTTACATGATTTACGTGCCTTGTAG
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
66655835 AACTTACCAGTGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
66655880 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
52 2 0.02
53 43 0.36
54 34 0.29
55 38 0.32
56 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:66664227 original size:19 final size:20
Alignment explanation
Indices: 66664203--66664240 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66664193 GGTACCACCA
66664203 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
66664222 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66664241 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66671741 original size:19 final size:20
Alignment explanation
Indices: 66671717--66671754 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66671707 TGGTACACCA
66671717 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
66671736 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66671755 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66679271 original size:19 final size:20
Alignment explanation
Indices: 66679247--66679284 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66679237 TGGTACCCCA
66679247 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
66679266 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66679285 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66679623 original size:93 final size:93
Alignment explanation
Indices: 66679513--66679683 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
66679503 GCCCCTAAGT
* *
66679513 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
66679578 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
66679606 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
66679671 CGAGTTCGGATGC
66 CGAGTTCGGATGC
66679684 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:66679680 original size:46 final size:46
Alignment explanation
Indices: 66679508--66679680 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
66679498 AACCCGCCCC
* * * *
66679508 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
66679554 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
66679602 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
66679647 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
66679681 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:66682193 original size:96 final size:96
Alignment explanation
Indices: 66682062--66682246 Score: 271
Period size: 96 Copynumber: 1.9 Consensus size: 96
66682052 AAAGTCTATT
* * * * *
66682062 ATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCTGA
1 ATCGAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCCGA
* *
66682127 AGCCAATAGGGCAAAGAGGAGTAAGCCTGTC
66 AGCCAAGAGGACAAAGAGGAGTAAGCCTGTC
* * *
66682158 ATCGAAGGGAACGATGGAGCAGACAAGGAGTCCAAGAAGCTTGGTTCGAGCAAGGGTAAAGCCGA
1 ATCGAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCCGA
*
66682223 AGCCAAGAGGACTAAGAGGAGTAA
66 AGCCAAGAGGACAAAGAGGAGTAA
66682247 AAAGAAGCGA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.36, C:0.17, G:0.34, T:0.13
Consensus pattern (96 bp):
ATCGAAGGGAACGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCCGA
AGCCAAGAGGACAAAGAGGAGTAAGCCTGTC
Found at i:66683705 original size:8 final size:9
Alignment explanation
Indices: 66683683--66683719 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
66683673 TTTTAAAACT
*
66683683 ATTTTTATA
1 ATTTTTAAA
66683692 ATTTTTAAA
1 ATTTTTAAA
66683701 ATTTTTAAA
1 ATTTTTAAA
66683710 ATTTTTAAA
1 ATTTTTAAA
66683719 A
1 A
66683720 AATTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:66684883 original size:13 final size:13
Alignment explanation
Indices: 66684867--66684930 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
66684857 TTTAAACCAA
66684867 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
* *
66684880 ACTTCTCAAAAGC
1 ACTTTTCAAAAAC
*
66684893 ACTTTTTTC-ACAAC
1 AC--TTTTCAAAAAC
*
66684907 A-TTTCTCAAAAAT
1 ACTTT-TCAAAAAC
66684920 ACTTTTCAAAA
1 ACTTTTCAAAA
66684931 GCAATGAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
11 3 0.08
12 2 0.05
13 23 0.59
14 7 0.18
15 4 0.10
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:66685743 original size:10 final size:11
Alignment explanation
Indices: 66685721--66685757 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
66685711 AAGAGGTAGA
66685721 AAAATAAAAAT
1 AAAATAAAAAT
*
66685732 AAAA-ATAAAT
1 AAAATAAAAAT
66685742 AAAAT-AAAAT
1 AAAATAAAAAT
66685752 AAAATA
1 AAAATA
66685758 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:66688858 original size:18 final size:18
Alignment explanation
Indices: 66688834--66688889 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
66688824 ATGGGGTAAT
66688834 AGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
*
66688852 CGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
66688870 AGGCCTAGTGATTACTCC
1 AGGCCTAGTGATTACTCC
66688888 AG
1 AG
66688890 ATGGGGTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (18 bp):
AGGCCTAGTGATTACTCC
Found at i:66693839 original size:20 final size:21
Alignment explanation
Indices: 66693814--66693855 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
66693804 TTTGTCTATT
66693814 TATTTATTTATTA-TT-TTAAA
1 TATTTATTT-TTAGTTCTTAAA
66693834 TATTTATTTTTAGTTCTTAAA
1 TATTTATTTTTAGTTCTTAAA
66693855 T
1 T
66693856 TTCTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTATTTTTAGTTCTTAAA
Found at i:66694698 original size:13 final size:13
Alignment explanation
Indices: 66694664--66694705 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
66694654 TGCTGAAATA
*
66694664 AAAATAAATAATG
1 AAAATAAATAATC
66694677 AAAATAAATAATC
1 AAAATAAATAATC
*
66694690 AAGAA-AAATAAAC
1 AA-AATAAATAATC
66694703 AAA
1 AAA
66694706 CAAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 1 0.04
13 23 0.88
14 2 0.08
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAATAAATAATC
Found at i:66698471 original size:29 final size:29
Alignment explanation
Indices: 66698438--66698511 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
66698428 GTGACGAGAT
66698438 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
66698467 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
66698496 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
66698512 ATTTACTATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:66698521 original size:24 final size:24
Alignment explanation
Indices: 66698494--66698608 Score: 212
Period size: 24 Copynumber: 4.8 Consensus size: 24
66698484 GCTGGAAATA
66698494 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
66698518 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
66698542 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
66698566 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
66698590 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
66698609 ACATAATAAG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:66698622 original size:72 final size:72
Alignment explanation
Indices: 66698494--66698630 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
66698484 GCTGGAAATA
* ** * *
66698494 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGC
66698559 GATTTAC
66 GATTTAC
*
66698566 TATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTG
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATAATATAGCACTATGTGTG
66698630 C
65 C
66698631 CACATTCGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 53 0.91
73 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (72 bp):
TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGC
GATTTAC
Found at i:66706259 original size:29 final size:28
Alignment explanation
Indices: 66706226--66706298 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 28
66706216 GTGACGAGAT
66706226 TGGCACTAAGTGTGCGTGCTGGAAATA-TA
1 TGGCACTAAGTGTGCGTGCTGG--ATACTA
66706255 TGGCACTAAGTGTGCGTGCTGGATACTA
1 TGGCACTAAGTGTGCGTGCTGGATACTA
*
66706283 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
66706299 ATTTACTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.07
28 17 0.40
29 22 0.52
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGTGCTGGATACTA
Found at i:66706305 original size:24 final size:24
Alignment explanation
Indices: 66706278--66706371 Score: 170
Period size: 24 Copynumber: 3.9 Consensus size: 24
66706268 GCGTGCTGGA
66706278 TACTATGGCACTATGTGTGCGATT
1 TACTATGGCACTATGTGTGCGATT
66706302 TACTATGGCACTATGTGTGCGATT
1 TACTATGGCACTATGTGTGCGATT
66706326 TACTATGGCACTATGTGTGCGATT
1 TACTATGGCACTATGTGTGCGATT
**
66706350 CGCTATGGCACTATGTGTGCGA
1 TACTATGGCACTATGTGTGCGA
66706372 ACATAATAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TACTATGGCACTATGTGTGCGATT
Found at i:66706385 original size:48 final size:48
Alignment explanation
Indices: 66706285--66706393 Score: 148
Period size: 48 Copynumber: 2.3 Consensus size: 48
66706275 GGATACTATG
* ** * *
66706285 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
*
66706333 GCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATAATATA
66706381 GCACTATGTGTGC
1 GCACTATGTGTGC
66706394 CACATTCGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 49 0.91
49 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (48 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
Found at i:66708178 original size:6 final size:6
Alignment explanation
Indices: 66708162--66708199 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
66708152 CAGATATAGT
* *
66708162 TTCAAA TTCAGA TTCAGA TCCAGA TTCAGA TTCAGA TT
1 TTCAGA TTCAGA TTCAGA TTCAGA TTCAGA TTCAGA TT
66708200 ATAGAAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (6 bp):
TTCAGA
Found at i:66709488 original size:55 final size:55
Alignment explanation
Indices: 66709420--66709554 Score: 225
Period size: 55 Copynumber: 2.5 Consensus size: 55
66709410 CGTGCCCTTA
*
66709420 GCCCGTGTGCAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCT
1 GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCT
* *
66709475 GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACTCCCGTGTGGTCT
1 GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCT
* *
66709530 GCCCGTGTTCAACACTTACTTTAAA
1 GCCCGTGTACAACACTGACTTTAAA
66709555 TTTTAAGTGC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 75 1.00
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (55 bp):
GCCCGTGTACAACACTGACTTTAAAACACGACCATGACACACGCCCGTGTGGCCT
Found at i:66710524 original size:47 final size:46
Alignment explanation
Indices: 66710316--66710634 Score: 225
Period size: 49 Copynumber: 6.7 Consensus size: 46
66710306 GGGATATGTT
*
66710316 GCCGATGCCATGT-CCTGAACATGGTCTTACACTGGCTATCATCATCGAG
1 GCCGATG-CATGTCCCAG-ACAT-GTCTTACACTGGCTATCATC-TCGAG
* * * * * * **
66710365 GCTGATGCCATGTCCTAGACATGGTCTTATACTAGCTCTCGTCTATACG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGA-G
* * * * * * * *
66710414 TGCTGATGCGTGTCCCAAACACGTCTTACACTAG--AACAACTCTTA-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTC-GAG
* *
66710459 GCCGATGCATGTCTCAGACACGTCTTACACTGGCTATCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATC-TCGAG
* * * *
66710506 GTCGATGCATGTCCCAGACATGTCTTACACTGG-TGCTCATTCTCTAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-ATCA-TCTCGAG
* * * * *
66710553 ACCGATGTCATGTCTCAGACATGGTCTTACACTGGCTATCATATTGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAG
66710601 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
66710635 ACACAAATAA
Statistics
Matches: 213, Mismatches: 44, Indels: 29
0.74 0.15 0.10
Matches are distributed among these distances:
44 28 0.13
46 22 0.10
47 58 0.27
48 36 0.17
49 59 0.28
50 10 0.05
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAG
Found at i:66710568 original size:19 final size:20
Alignment explanation
Indices: 66710524--66710568 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
66710514 ATGTCCCAGA
* *
66710524 CATGTCT-TACACTGGTGCT
1 CATGTCTCTACACCGATGCT
66710543 CAT-TCTCTACACCGATG-T
1 CATGTCTCTACACCGATGCT
66710561 CATGTCTC
1 CATGTCTC
66710569 AGACATGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.36
Consensus pattern (20 bp):
CATGTCTCTACACCGATGCT
Found at i:66710608 original size:95 final size:94
Alignment explanation
Indices: 66710460--66710633 Score: 278
Period size: 95 Copynumber: 1.8 Consensus size: 94
66710450 CAACTCTTAG
* *
66710460 CCGATGCATGTCTCAGACACGTCTTACACTGGCTATCATCGTCGAGGTCGATGCATGTCCCAGAC
1 CCGATGCATGTCTCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCATGTCCCAGAC
66710525 ATGTCTTACACTGGTGCTCATTCTCTACA
66 ATGTCTTACACTGGTGCTCATTCTCTACA
* * *
66710554 CCGATGTCATGTCTCAGACATGGTCTTACACTGGCTATCAT-ATTGTGGCCGATGCATGTCCCAG
1 CCGATG-CATGTCTCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCCGATGCATGTCCCAG
66710618 ACATGTCTTACACTGG
64 ACATGTCTTACACTGG
66710634 CACACAAATA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
94 6 0.08
95 48 0.66
96 19 0.26
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
CCGATGCATGTCTCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGTGCTCATTCTCTACA
Found at i:66718588 original size:40 final size:40
Alignment explanation
Indices: 66718528--66718665 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
66718518 CGGATGATAA
66718528 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
66718568 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
66718608 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCAATAT
1 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
66718648 CC-GACTAAATCCCGAAGG
1 CCGGACTAAGTCCCGAAGG
66718666 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.18
40 75 0.82
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:66720173 original size:54 final size:55
Alignment explanation
Indices: 66720045--66720174 Score: 208
Period size: 55 Copynumber: 2.4 Consensus size: 55
66720035 CCCTTAGCCT
* *
66720045 GTGTGCAACACTGACTTTAAAACACGGCCATGACACACGCCCGTGTGGCCTGCCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCATGTGGCCTGCCC
* *
66720100 GTGTACAACACTGAATTTAAAACATGGCCATGACACACG-CCATGTGGCCTGCCC
1 GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCATGTGGCCTGCCC
*
66720154 GTGTTCAACACTGACTTTAAA
1 GTGTACAACACTGACTTTAAA
66720175 TTTTAAGTGC
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 33 0.48
55 36 0.52
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (55 bp):
GTGTACAACACTGACTTTAAAACACGGCCATGACACACGCCCATGTGGCCTGCCC
Found at i:66721137 original size:47 final size:46
Alignment explanation
Indices: 66720933--66721249 Score: 237
Period size: 47 Copynumber: 6.7 Consensus size: 46
66720923 GATATATTAT
* *
66720933 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCATTGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATC-TCGAGGC
** * * * * * **
66720982 TAATGCCATGTTCTAGACATGGTCTTATACTGGCTCTCGTCTATACGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGA-G-GC
* * * * * *
66721032 TGGTGCGT-TCCCCAGACATGTCTTACACTAGC-A-CAACTCTTA-GC
1 CGATGCATGT-CCCAGACATGTCTTACACTGGCTATCATCTC-GAGGC
*
66721076 CGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATC-TCGAGGC
** * *
66721123 CGATGCATGTCCCAGACATGTCTTACACTGGCGCTCATTCTCTATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCA-TCTCGAGGC
* * *
66721170 CGATGACATGTCCCAGACATGGTCTTACACTGGCTATCATATTGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAGGC
** *
66721218 TAATGCATGTCCAAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
66721250 ACATAGATAA
Statistics
Matches: 215, Mismatches: 41, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
44 27 0.13
45 2 0.01
46 20 0.09
47 63 0.29
48 37 0.17
49 61 0.28
50 5 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAGGC
Found at i:66721225 original size:95 final size:91
Alignment explanation
Indices: 66721042--66721252 Score: 271
Period size: 95 Copynumber: 2.3 Consensus size: 91
66721032 TGGTGCGTTC
*
66721042 CCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGG
1 CCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGG
* *
66721107 CTATCATCGTCGAGGCCGATGCATGT
66 CTATCATCATCGAGGCCAATGCATGT
* * * *
66721133 CCCAGACATGTCTTACACTGGCGCTCATTCTCTATGCCGATGACATGTCCCAGACATGGTCTTAC
1 CCCAGACATGTCTTACACTGGCAC-AACTCT-TA-GCCGATG-CATGTCCCAGACA-CGTCTTAC
* * *
66721198 ACTGGCTATCAT-ATTGTGGCTAATGCATGT
61 ACTGGCTATCATCATCGAGGCCAATGCATGT
*
66721228 CCAAGACATGTCTTACACTGGCACA
1 CCCAGACATGTCTTACACTGGCACA
66721253 TAGATAATCT
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
91 22 0.22
92 4 0.04
93 2 0.02
94 7 0.07
95 48 0.47
96 19 0.19
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
CCCAGACATGTCTTACACTGGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGG
CTATCATCATCGAGGCCAATGCATGT
Found at i:66725796 original size:49 final size:47
Alignment explanation
Indices: 66725659--66725835 Score: 160
Period size: 49 Copynumber: 3.7 Consensus size: 47
66725649 TGTTGTGTGT
* * * * * *
66725659 CAGTGTAAGACCTGTTTGGGACATGGCATCGACAATGATAAATGAGAGC
1 CAGTGTAAGACTTGTCTGGGACATGACATCGAC-CTGAT-GATGAAAGC
* * *
66725708 CACG-GTAAGACTTGTCTGGGATACGACATCGACCTTGATGTATGAAAGT
1 CA-GTGTAAGACTTGTCTGGGACATGACATCGACC-TGATG-ATGAAAGC
**
66725757 CAGTGTAAGACTTGTCTGGGACATGACATCGACTCTGATG-TGCTAGC
1 CAGTGTAAGACTTGTCTGGGACATGACATCGAC-CTGATGATGAAAGC
* *
66725804 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGA-CTTGTCTGGGACATGACATCG
66725836 GCATCTTATC
Statistics
Matches: 106, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
47 14 0.13
48 20 0.19
49 70 0.66
50 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACTTGTCTGGGACATGACATCGACCTGATGATGAAAGC
Found at i:66732466 original size:16 final size:15
Alignment explanation
Indices: 66732427--66732488 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
66732417 TTTGATAATG
*
66732427 TATCTTGGATTTCTA
1 TATCTTGGATTTCTT
* *
66732442 AATCATGGAATTTCTT
1 TATCTTGG-ATTTCTT
*
66732458 TATCTTGGATATCTT
1 TATCTTGGATTTCTT
* *
66732473 TGTCTT-GACTTCTT
1 TATCTTGGATTTCTT
66732487 TA
1 TA
66732489 AATGGATTTT
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 7 0.19
15 17 0.47
16 12 0.33
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:66734501 original size:31 final size:31
Alignment explanation
Indices: 66734466--66734530 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
66734456 AAGTAAGTGA
66734466 TTTAGATGCCTATTTTTGATAATTTTTGTAC
1 TTTAGATGCCTATTTTTGATAATTTTTGTAC
66734497 TTTAGATGCCTATTTTTGATAATTTTTGTAC
1 TTTAGATGCCTATTTTTGATAATTTTTGTAC
66734528 TTT
1 TTT
66734531 TGGAACCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.57
Consensus pattern (31 bp):
TTTAGATGCCTATTTTTGATAATTTTTGTAC
Found at i:66735531 original size:49 final size:49
Alignment explanation
Indices: 66735469--66735594 Score: 137
Period size: 49 Copynumber: 2.6 Consensus size: 49
66735459 TACAAGCTAG
* *
66735469 TGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCCAA
* * * * * * * *
66735518 TTTAAGACATGTCTGGGATACGGCATTGGCCTCGATATATGAAAGTCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCAA
*
66735567 TGTAAGACCTGTCTGGGACATGACATCG
1 TGTAAGACCTGTCTGGGACATGGCATCG
66735595 GCTTTGATGT
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
48 1 0.02
49 59 0.98
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCAA
Found at i:66737719 original size:40 final size:40
Alignment explanation
Indices: 66737627--66737776 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
66737617 AATTGAATGA
* *
66737627 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTGA-A-ATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
66737666 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
66737707 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
66737746 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
66737777 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 17
0.76 0.09 0.14
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 55 0.60
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:66737790 original size:40 final size:40
Alignment explanation
Indices: 66737663--66737792 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
66737653 TATGCTGAAA
* * * *
66737663 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
66737703 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
66737743 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
66737783 TTATATCCGG
1 TTATATCCGG
66737793 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:66740869 original size:13 final size:13
Alignment explanation
Indices: 66740851--66740876 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66740841 TTTTGGTTTA
66740851 GTTTTGAATCAAT
1 GTTTTGAATCAAT
66740864 GTTTTGAATCAAT
1 GTTTTGAATCAAT
66740877 CCCGATGTAT
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTGAATCAAT
Found at i:66750875 original size:37 final size:37
Alignment explanation
Indices: 66750816--66750961 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
66750806 AGCTCAGACG
* * * *
66750816 AAATCTCCATACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
66750853 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
* *
66750890 TAAGCTCCACACGTAGTCATCGGGTCTTACCCGGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
*
66750927 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
66750962 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
Found at i:66751175 original size:46 final size:46
Alignment explanation
Indices: 66751108--66751197 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
66751098 ATATATACAC
* * *
66751108 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* *
66751154 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATAT
66751198 ATACATGTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (46 bp):
ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
Found at i:66751233 original size:47 final size:47
Alignment explanation
Indices: 66751171--66751794 Score: 906
Period size: 47 Copynumber: 13.1 Consensus size: 47
66751161 ACACATTTCG
* * * **
66751171 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * * *
66751218 TATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACTTTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
66751265 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
66751312 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
66751359 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
* * * *
66751412 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACTTTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
66751459 CATTGGCCTTTCGGCATTATCACACATACGGATGTTCTCATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
66751506 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
66751553 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
66751600 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
66751651 CATTGGCCATCCGGCCTTATCACACGTACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
66751698 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
66751745 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
66751792 CAT
1 CAT
66751795 AAAATCCTAA
Statistics
Matches: 524, Mismatches: 43, Indels: 20
0.89 0.07 0.03
Matches are distributed among these distances:
47 439 0.84
49 1 0.00
51 43 0.08
53 41 0.08
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:66751277 original size:22 final size:22
Alignment explanation
Indices: 66751252--66751323 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 22
66751242 TATATGCATG
66751252 TTCACTTTCATCACATTGGCCA
1 TTCACTTTCATCACATTGGCCA
**
66751274 TTCAGCCTTATCA-CACATACG-CA
1 TTCA--CTT-TCATCACATTGGCCA
*
66751297 TGTTCACATTCATCACATTGGCCA
1 --TTCACTTTCATCACATTGGCCA
66751321 TTC
1 TTC
66751324 GGCCTTATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 10 0.26
23 10 0.26
24 11 0.29
25 7 0.18
ACGTcount: A:0.25, C:0.32, G:0.10, T:0.33
Consensus pattern (22 bp):
TTCACTTTCATCACATTGGCCA
Found at i:66751404 original size:194 final size:192
Alignment explanation
Indices: 66751171--66751772 Score: 914
Period size: 194 Copynumber: 3.1 Consensus size: 192
66751161 ACACATTTCG
* * *
66751171 CATTAGCCATTCGGCC-T-T-ACCA-CATATATACATGTTCACATTCATCATATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACCATAATATATACATGTTCACATTCATCACATTGGCCATTCGG
*
66751232 CCTTATCTCATATATGCATGTTCACTTTCATCACATTGGCCATTCAGCCTTATCACACATACGCA
66 CCTTATCTCATATATGCATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66751297 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
131 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
66751359 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCAC-CATA-ATATATACATGTTCACATTCATCACATTGGCCATTC
* *
66751424 GGCCTTATCTCATATATGCATGTTCACTTTCATCACATTGGCCTTTCGGCATTATCACACATACG
64 GGCCTTATCTCATATATGCATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACG
* *
66751489 GATGTTCTCATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
129 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* **
66751553 CATTGGCCATTCGGCCTTATCA-C---ACATACGCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACCATAATATATACATGTTCACATTCATCACATTGGCCATTCGG
* * ** * * *
66751614 CCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACGTA
66 CCTTAT--CTC--ATATATGCATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATA
66751679 CGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATC
127 CGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATC
66751744 A
192 A
66751745 CATTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCAC-CATA
66751773 CGCATGTTCA
Statistics
Matches: 375, Mismatches: 24, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
188 55 0.15
189 1 0.00
190 3 0.01
191 2 0.01
192 133 0.35
194 181 0.48
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (192 bp):
CATTGGCCATTCGGCCTTATCACCATAATATATACATGTTCACATTCATCACATTGGCCATTCGG
CCTTATCTCATATATGCATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:66751599 original size:241 final size:239
Alignment explanation
Indices: 66751171--66751794 Score: 1041
Period size: 241 Copynumber: 2.6 Consensus size: 239
66751161 ACACATTTCG
* * * *
66751171 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCATATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * * *
66751236 ATCTCATATATGCATGTTCACTTTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGTT
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66751301 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
131 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
*
66751366 CATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
196 CATTCGGCCTTATCA--CACATATATATACAGGTTCACATTCATCA
* * * *
66751412 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACTTTCATCACATTGGCCTTTCGGCATT
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
66751477 ATCACACATACGGATGTTCTCATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66751542 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
131 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
*
66751607 CATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
196 CATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
* ** *
66751651 CATTGGCCATCCGGCCTTATCACACGTACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
66751716 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66751781 CACATTCATCACAT
131 CACATTCATCACAT
66751795 AAAATCCTAA
Statistics
Matches: 356, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
239 161 0.45
241 195 0.55
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (239 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
CATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
Found at i:66751795 original size:23 final size:23
Alignment explanation
Indices: 66751720--66751795 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
66751710 GGCCTTATCA
66751720 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
66751743 CACATTGGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
66751765 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
66751790 CACATA
1 CACATA
66751796 AAATCCTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 5 0.13
23 17 0.45
24 11 0.29
25 5 0.13
ACGTcount: A:0.29, C:0.32, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:66755125 original size:29 final size:29
Alignment explanation
Indices: 66755092--66755248 Score: 165
Period size: 29 Copynumber: 5.4 Consensus size: 29
66755082 CGAGATTGGT
66755092 ACTAAGTGTGCGTGCTGGAAATATATGGC
1 ACTAAGTGTGCGTGCTGGAAATATATGGC
*
66755121 ACTAAGTGTGTGTGCTGGAAATATATGGC
1 ACTAAGTGTGCGTGCTGGAAATATATGGC
* *
66755150 ACTAAGTGTGCATGCTGGAAATATACGGC
1 ACTAAGTGTGCGTGCTGGAAATATATGGC
** * * ***
66755179 ACTGGGTGTGCGAGCTCGAAGGCTATGGC
1 ACTAAGTGTGCGTGCTGGAAATATATGGC
* * *
66755208 ACTATGTGTGCGGGCT-TAAATCGA-ATGGC
1 ACTAAGTGTGCGTGCTGGAAAT--ATATGGC
66755237 ACTAAGTGTGCG
1 ACTAAGTGTGCG
66755249 AAATCGAGTA
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.02
29 103 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
ACTAAGTGTGCGTGCTGGAAATATATGGC
Found at i:66765865 original size:40 final size:40
Alignment explanation
Indices: 66765791--66765936 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
66765781 CCGCACCAAG
* * * * * *
66765791 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
66765831 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
66765871 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
66765911 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
66765937 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:66765951 original size:40 final size:40
Alignment explanation
Indices: 66765823--66765974 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
66765813 ATCACGATTT
* * * **
66765823 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
66765863 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
66765903 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
66765943 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
66765975 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:66768052 original size:40 final size:40
Alignment explanation
Indices: 66768020--66768291 Score: 406
Period size: 40 Copynumber: 6.8 Consensus size: 40
66768010 CCAGCATGAT
* * *
66768020 TGCTCTTCGGGACCTAGGCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGGCCGGATATATCACTAGCACGAA
66768060 TGCTCTTCGGGACTTA-GCTCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGGC-CGGATATATCACTAGCACGAA
* *
66768100 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGGCCGGATATATCACTAGCACGAA
*
66768140 TGCTCTTCAGGACTTA-GCTCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGGC-CGGATATATCACTAGCACGAA
* *
66768180 TGCTCTTCGGGACTTA-GCCTGGATACACCACTAGCACGAA
1 TGCTCTTCGGGACTTAGGCC-GGATATATCACTAGCACGAA
*
66768220 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGGCCGGATATATCACTAGCACGAA
*
66768260 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGGCCGGATATATCACT
66768292 CTCAATTCTC
Statistics
Matches: 213, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.02
40 206 0.97
41 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGGCCGGATATATCACTAGCACGAA
Found at i:66769622 original size:37 final size:37
Alignment explanation
Indices: 66769561--66769702 Score: 221
Period size: 37 Copynumber: 3.8 Consensus size: 37
66769551 AGCTCAAACG
* * * *
66769561 AAATCTCCACACGAAGTTACCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
66769598 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
* *
66769635 TAATCTCCACACGTAGTCATCAGGTCTTACCCGGATA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
*
66769672 TAATCTCCACACGTAGTCATCGGGTCTTACC
1 AAATCTCCACACGTAGTCATCGGGTCTTACC
66769703 TGGAATATAT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGATA
Found at i:66769920 original size:46 final size:46
Alignment explanation
Indices: 66769853--66769981 Score: 129
Period size: 46 Copynumber: 2.8 Consensus size: 46
66769843 ATATATACAC
* *
66769853 ATCTCATACATATCTCACATTAGCCATT-TGCCTTTACCACATATCT
1 ATCTCATACACATCTCACATTAGCCATTCGGCC-TTACCACATATCT
* * *
66769899 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATATAT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * *
66769945 A-CAT-GTTCACATTCATCACATTGGCCATTCGGCCTTA
1 ATC-TCATACACA-TC-TCACATTAGCCATTCGGCCTTA
66769982 TCTCATATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
45 6 0.09
46 40 0.58
47 23 0.33
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (46 bp):
ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
Found at i:66769973 original size:47 final size:47
Alignment explanation
Indices: 66769916--66770467 Score: 750
Period size: 47 Copynumber: 11.5 Consensus size: 47
66769906 ACACATTTCG
* * *
66769916 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
66769963 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACTTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
66770010 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
66770057 CATTGGCCATTCGGCCTTATCAC--ACA-GCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
66770101 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* *
66770154 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACTTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
66770201 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
66770248 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
66770295 CATTGGCCATTCGGCCTTATCACGCATATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* * *
66770346 CATTGGCCATTCGGCCTTATCACACATACGCAAGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
66770393 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
66770444 CATTGGCCATTCGGCCTTATCACA
1 CATTGGCCATTCGGCCTTATCACA
66770468 CTCATCACAT
Statistics
Matches: 454, Mismatches: 34, Indels: 34
0.87 0.07 0.07
Matches are distributed among these distances:
44 40 0.09
45 2 0.00
46 1 0.00
47 281 0.62
49 8 0.02
51 83 0.18
52 2 0.00
53 37 0.08
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:66770213 original size:22 final size:22
Alignment explanation
Indices: 66770188--66770259 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 22
66770178 TATATGCATG
66770188 TTCACTTTCATCACATTGGCCA
1 TTCACTTTCATCACATTGGCCA
**
66770210 TTCAGCCTTATCA-CACATACG-CA
1 TTCA--CTT-TCATCACATTGGCCA
*
66770233 TGTTCACATTCATCACATTGGCCA
1 --TTCACTTTCATCACATTGGCCA
66770257 TTC
1 TTC
66770260 GGCCTTATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 10 0.26
23 10 0.26
24 11 0.29
25 7 0.18
ACGTcount: A:0.25, C:0.32, G:0.10, T:0.33
Consensus pattern (22 bp):
TTCACTTTCATCACATTGGCCA
Done.