Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 93 of 207
Found at i:27448760 original size:25 final size:25
Alignment explanation
Indices: 27448732--27448914 Score: 217
Period size: 25 Copynumber: 7.2 Consensus size: 25
27448722 CAAAAACAAA
*
27448732 AACTTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAT
* *
27448757 AACTGACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAT
27448782 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
27448807 AATTTACATAACTTACATAAGACAT
1 AACTTACATAACTTACATAATACAT
* * * *
27448832 AAGTTTCATAA--TACACAACTTACAC
1 AACTTACATAACTTACATAA--TACAT
*
27448857 AACTTACATAACTTACACAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
*
27448884 AACTTACATAACTTACATAATAAAT
1 AACTTACATAACTTACATAATACAT
27448909 AACTTA
1 AACTTA
27448915 TTCCTAAATC
Statistics
Matches: 139, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.04
25 101 0.73
27 32 0.23
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.30
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:27454398 original size:21 final size:21
Alignment explanation
Indices: 27454373--27454419 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
27454363 AACTTAAAAC
27454373 AGAGGCAGCAGCGAGGGAAGT
1 AGAGGCAGCAGCGAGGGAAGT
*
27454394 AGAGGCTGCAGCGAGGGAAGT
1 AGAGGCAGCAGCGAGGGAAGT
27454415 AGAGG
1 AGAGG
27454420 TTCAAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.13, G:0.49, T:0.06
Consensus pattern (21 bp):
AGAGGCAGCAGCGAGGGAAGT
Found at i:27454965 original size:43 final size:42
Alignment explanation
Indices: 27454852--27455166 Score: 341
Period size: 43 Copynumber: 7.4 Consensus size: 42
27454842 GTTTGTGAAA
* *
27454852 TAAGCGCCGCAAAAGAACACT-A-CTTTTAGCGGCGTTTTTTAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTC
* * *
27454894 CAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTTC
* * * *
27454936 TAAACGCCGCTAAAGATCATGTTTCTTTAGCGGCG-TTTTCTC
1 TAAGCGCCGCTAAAGAACATG-ATCTTTAGCGGCGTTTTTTTC
* *
27454978 TCAAGCGCTGCTAAAGAACATGATCATTAGCGGCGTTTTTTTCC
1 T-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-C
**
27455022 TAAGCGCCGCTAAAGAACATGATAATTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-C
* * *
27455065 TGAGCGCCGCTAAAGAACATGATCATTAACGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-C
* *
27455108 TAAGCGCCGCTAAAGAACATGACCTTTAGCAGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
27455150 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
27455167 TTAGCGACGT
Statistics
Matches: 237, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.00
42 71 0.30
43 148 0.62
44 17 0.07
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:27455913 original size:15 final size:15
Alignment explanation
Indices: 27455893--27455922 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27455883 ATTTAAGATC
27455893 CTTTAATAGAAATTG
1 CTTTAATAGAAATTG
27455908 CTTTAATAGAAATTG
1 CTTTAATAGAAATTG
27455923 TGAACAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (15 bp):
CTTTAATAGAAATTG
Found at i:27459071 original size:13 final size:12
Alignment explanation
Indices: 27459049--27459078 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
27459039 AAATCAATTT
27459049 TAAATTTTTATA
1 TAAATTTTTATA
27459061 TAAATTTTT-TA
1 TAAATTTTTATA
27459072 TAAATTT
1 TAAATTT
27459079 ATTACATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATTTTTATA
Found at i:27459239 original size:44 final size:44
Alignment explanation
Indices: 27459176--27459262 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
27459166 TTTAATCAGG
27459176 GAAATAGGCCATTTCTAGGAGAGAGAAACAAAAAGCACGTCCAA
1 GAAATAGGCCATTTCTAGGAGAGAGAAACAAAAAGCACGTCCAA
* *
27459220 GAAATAGGCCATTTTTAGGAGAGAGGAACAAAAAGCACGTCCA
1 GAAATAGGCCATTTCTAGGAGAGAGAAACAAAAAGCACGTCCA
27459263 GCAAGACTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (44 bp):
GAAATAGGCCATTTCTAGGAGAGAGAAACAAAAAGCACGTCCAA
Found at i:27464137 original size:9 final size:9
Alignment explanation
Indices: 27464123--27464185 Score: 72
Period size: 9 Copynumber: 6.8 Consensus size: 9
27464113 ACAATCAAAA
27464123 TGAGAGAGT
1 TGAGAGAGT
*
27464132 TGAGAGACT
1 TGAGAGAGT
*
27464141 TGAGAGGGTT
1 TGAGAGAG-T
*
27464151 TGAGAAAGT
1 TGAGAGAGT
*
27464160 TGAGAGAATT
1 TGAGAG-AGT
27464170 TGAGAGAGT
1 TGAGAGAGT
27464179 TGAGAGA
1 TGAGAGA
27464186 ATGATGTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
9 29 0.66
10 15 0.34
ACGTcount: A:0.35, C:0.02, G:0.40, T:0.24
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:27464155 original size:19 final size:19
Alignment explanation
Indices: 27464131--27464187 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 19
27464121 AATGAGAGAG
* **
27464131 TTGAGAGACTTGAGAGGGT
1 TTGAGAGAGTTGAGAGAAT
*
27464150 TTGAGAAAGTTGAGAGAAT
1 TTGAGAGAGTTGAGAGAAT
27464169 TTGAGAGAGTTGAGAGAAT
1 TTGAGAGAGTTGAGAGAAT
27464188 GATGTGAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.35, C:0.02, G:0.37, T:0.26
Consensus pattern (19 bp):
TTGAGAGAGTTGAGAGAAT
Found at i:27464495 original size:28 final size:29
Alignment explanation
Indices: 27464439--27464497 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
27464429 ACCTATTTCT
** *
27464439 CTAATTAATTTTAAAATCGGCCTAAAGGC
1 CTAATTAATTAAAAAATCAGCCTAAAGGC
*
27464468 CTAATTAATTAAAAAAT-AGCCTATAGGC
1 CTAATTAATTAAAAAATCAGCCTAAAGGC
27464496 CT
1 CT
27464498 TATTTTGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.31
Consensus pattern (29 bp):
CTAATTAATTAAAAAATCAGCCTAAAGGC
Found at i:27466789 original size:56 final size:56
Alignment explanation
Indices: 27466700--27466811 Score: 179
Period size: 56 Copynumber: 2.0 Consensus size: 56
27466690 ACCTATCATC
* *
27466700 AGAGGACGGGTTGGAGTTTGCAAAACTACTACACAGAAGGTCAGGCCACACGAGTT
1 AGAGGACGGGTTAGAGTTTGCAAAACTAATACACAGAAGGTCAGGCCACACGAGTT
* * *
27466756 AGAGGATGGGTTAGAGTTTGCAAAACTAATACACAGAAGGTCGGGCCACGCGAGTT
1 AGAGGACGGGTTAGAGTTTGCAAAACTAATACACAGAAGGTCAGGCCACACGAGTT
27466812 CTTCGTTGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.19
Consensus pattern (56 bp):
AGAGGACGGGTTAGAGTTTGCAAAACTAATACACAGAAGGTCAGGCCACACGAGTT
Found at i:27469293 original size:21 final size:25
Alignment explanation
Indices: 27469269--27469323 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 25
27469259 AAAATATATA
27469269 TAAAATAATACAT-TAT-G-AAA-T
1 TAAAATAATACATATATGGAAAACT
27469290 T-AAATAATA-ATATATGGAAAACT
1 TAAAATAATACATATATGGAAAACT
27469313 TAAAATAATAC
1 TAAAATAATAC
27469324 TACATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 2 0.07
22 3 0.11
23 2 0.07
24 8 0.29
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (25 bp):
TAAAATAATACATATATGGAAAACT
Found at i:27470063 original size:14 final size:14
Alignment explanation
Indices: 27470025--27470055 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27470015 TTAATAATAT
*
27470025 AAAAACAGAAATGA
1 AAAAAAAGAAATGA
27470039 AAAAAAAGAAATGA
1 AAAAAAAGAAATGA
27470053 AAA
1 AAA
27470056 GAGAGAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.06
Consensus pattern (14 bp):
AAAAAAAGAAATGA
Found at i:27474306 original size:27 final size:26
Alignment explanation
Indices: 27474264--27474315 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27474254 ATCTTTTAAA
27474264 ATTTTAAATAAAAATAAAATAAATTTT
1 ATTTTAAATAAAAAT-AAATAAATTTT
** *
27474291 ATTTTAAATATTAATAATTAAATTT
1 ATTTTAAATAAAAATAAATAAATTT
27474316 ATTATTATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTTAAATAAAAATAAATAAATTTT
Found at i:27475147 original size:32 final size:31
Alignment explanation
Indices: 27475104--27475198 Score: 94
Period size: 32 Copynumber: 3.2 Consensus size: 31
27475094 TTTATTTTTA
27475104 TTTTTTT-AATTTTAAAATAATTTTAAAATAC
1 TTTTTTTAAATTTT-AAATAATTTTAAAATAC
*
27475135 TTTTTTTAAATTTTTAAAT-TTTTTAAAAATAC
1 TTTTTTTAAA-TTTTAAATAATTTT-AAAATAC
**
27475167 --TTTTTAAATTTT-TTTAATTTTAAAATA-
1 TTTTTTTAAATTTTAAATAATTTTAAAATAC
27475194 TTTTT
1 TTTTT
27475199 AAAATACTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
28 7 0.13
29 11 0.20
30 8 0.15
31 11 0.20
32 13 0.24
33 4 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAAATTTTAAATAATTTTAAAATAC
Found at i:27475180 original size:31 final size:27
Alignment explanation
Indices: 27475122--27475201 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 27
27475112 ATTTTAAAAT
27475122 AATTTTAAAATACTTTTTTTAAATTTTTA
1 AATTTTAAAATAC--TTTTTAAATTTTTA
*
27475151 AATTTTTTAAAAATACTTTTTAAATTTTTTT
1 AA--TTTT-AAAATACTTTTTAAA-TTTTTA
27475182 AATTTTAAAATA-TTTTTAAA
1 AATTTTAAAATACTTTTTAAA
27475202 ATACTTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
27 8 0.17
28 6 0.13
29 6 0.13
30 8 0.17
31 11 0.24
32 7 0.15
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (27 bp):
AATTTTAAAATACTTTTTAAATTTTTA
Found at i:27475198 original size:11 final size:11
Alignment explanation
Indices: 27475113--27475210 Score: 61
Period size: 11 Copynumber: 9.4 Consensus size: 11
27475103 ATTTTTTTAA
*
27475113 TTTTAAAATAA
1 TTTTAAAATAT
27475124 TTTTAAAATACT
1 TTTTAAAATA-T
**
27475136 TTTTTTAA-AT
1 TTTTAAAATAT
27475146 TTTT-AAAT-T
1 TTTTAAAATAT
27475155 TTTTAAAAATACT
1 TTTT-AAAATA-T
27475168 TTTT-AAAT-T
1 TTTTAAAATAT
*
27475177 TTTT----TAA
1 TTTTAAAATAT
27475184 TTTTAAAATAT
1 TTTTAAAATAT
27475195 TTTTAAAATACT
1 TTTTAAAATA-T
27475207 TTTT
1 TTTT
27475211 TAATTTTTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
9 12 0.17
10 5 0.07
11 31 0.45
12 11 0.16
13 5 0.07
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:27475699 original size:18 final size:16
Alignment explanation
Indices: 27475667--27475710 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
27475657 ATAAGATGAG
27475667 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
27475683 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
27475697 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
27475711 ACCCTAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:27476331 original size:24 final size:24
Alignment explanation
Indices: 27476304--27476355 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27476294 TTAGTAAGTC
*
27476304 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
27476328 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
27476352 AAAT
1 AAAT
27476356 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:27478153 original size:43 final size:43
Alignment explanation
Indices: 27478106--27478372 Score: 252
Period size: 43 Copynumber: 6.2 Consensus size: 43
27478096 TTTTACGGCG
* *
27478106 TTTAGTGGTGCTTTTAT-ATAAAACGCCGCTAAAGAACATGACC
1 TTTAGCGGCGCTTTTATCA-AAAACGCCGCTAAAGAACATGACC
* * * *
27478149 TTTAGTGGCGC-TTTACCCACAAACGCCGCTAAAGAGCATGACC
1 TTTAGCGGCGCTTTTA-TCAAAAACGCCGCTAAAGAACATGACC
* * *
27478192 TTTAGCGGCGCTATTATCACAAATGCCGCTAAAGAACATGACC
1 TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGAACATGACC
*** * * **
27478235 TTTAGCAATGCTTTTATCATAGACGCTACTAAAGAACATGACC
1 TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGAACATGACC
* * **
27478278 TTTAGCGGCGCTTTTATCACAAATGCTACTAAAGAACATGACC
1 TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGAACATGACC
* * * * * *
27478321 TTTAGCGACGCTTTTATCACAAATGTCGCTATAGAGA-ATGACT
1 TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGA-ACATGACC
27478364 TTTAGCGGC
1 TTTAGCGGC
27478373 TTTTTTTTTC
Statistics
Matches: 189, Mismatches: 31, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
42 4 0.02
43 180 0.95
44 5 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGAACATGACC
Found at i:27478248 original size:86 final size:86
Alignment explanation
Indices: 27478130--27478372 Score: 308
Period size: 86 Copynumber: 2.8 Consensus size: 86
27478120 TATATAAAAC
* * *
27478130 GCCGCTAAAGAACATGACCTTTAGTGGCGC-TTTACCCACAAACGCCGCTAAAGAGCATGACCTT
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTA-TCACAAACGCCGCTAAAGAGCATGACCTT
27478194 TAGCGGCGCTATTATCACAAAT
65 TAGCGGCGCTATTATCACAAAT
* * * * ** *
27478216 GCCGCTAAAGAACATGACCTTTAGCAATGCTTTTATCATAGACGCTACTAAAGAACATGACCTTT
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAAAGAGCATGACCTTT
*
27478281 AGCGGCGCTTTTATCACAAAT
66 AGCGGCGCTATTATCACAAAT
** * * * * *
27478302 GCTACTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAATGTCGCTATAGAGAATGACTTTT
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAAAGAGCATGACCTTT
27478367 AGCGGC
66 AGCGGC
27478373 TTTTTTTTTC
Statistics
Matches: 131, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
86 127 0.97
87 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (86 bp):
GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCACAAACGCCGCTAAAGAGCATGACCTTT
AGCGGCGCTATTATCACAAAT
Found at i:27478299 original size:129 final size:129
Alignment explanation
Indices: 27478134--27478369 Score: 341
Period size: 129 Copynumber: 1.8 Consensus size: 129
27478124 TAAAACGCCG
* * *
27478134 CTAAAGAACATGACCTTTAGTGGCGCTTTACCCACAAACGCCGCTAAAGAGCATGACCTTTAGCG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCG
*
27478199 GCGCTATTATCACAAATGCCGCTAAAGA-ACATGACCTTTAGCAATGCTTTTATCATAGACGCTA
66 ACGCTATTATCACAAATGCCGCTAAAGAGA-ATGACCTTTAGCAATGCTTTTATCATAGACGCTA
* * *
27478263 CTAAAGAACATGACCTTTAGCGGCGCTTTTA-TCACAAATGCTACTAAAGAACATGACCTTTAGC
1 CTAAAGAACATGACCTTTAGCGGCGC-TTTACCCACAAACGCCACTAAAGAACATGACCTTTAGC
* * * *
27478327 GACGCTTTTATCACAAATGTCGCTATAGAGAATGACTTTTAGC
65 GACGCTATTATCACAAATGCCGCTAAAGAGAATGACCTTTAGC
27478370 GGCTTTTTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
129 89 0.95
130 5 0.05
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (129 bp):
CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCG
ACGCTATTATCACAAATGCCGCTAAAGAGAATGACCTTTAGCAATGCTTTTATCATAGACGCTA
Found at i:27488211 original size:3 final size:3
Alignment explanation
Indices: 27488203--27488264 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
27488193 TGAGTTGCAA
*
27488203 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
27488251 AAA AAG AAG AAG AA
1 AAG AAG AAG AAG AA
27488265 AAAAAAAGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27488223 original size:15 final size:15
Alignment explanation
Indices: 27488203--27488274 Score: 112
Period size: 15 Copynumber: 4.9 Consensus size: 15
27488193 TGAGTTGCAA
*
27488203 AAGAAGAAGAAGAAG
1 AAGAAAAAGAAGAAG
*
27488218 AAGAAGAAGAAGAAG
1 AAGAAAAAGAAGAAG
27488233 AAGAAAAAGAAGAAG
1 AAGAAAAAGAAGAAG
27488248 AAGAAAAAGAAGAAG
1 AAGAAAAAGAAGAAG
27488263 AA-AAAAA-AAGAA
1 AAGAAAAAGAAGAA
27488275 ACAGATGTGA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
13 5 0.09
14 5 0.09
15 46 0.82
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAGAAG
Found at i:27489764 original size:100 final size:100
Alignment explanation
Indices: 27489621--27490129 Score: 714
Period size: 100 Copynumber: 5.1 Consensus size: 100
27489611 ACAGTAGAGC
** * * * * *
27489621 AGATTGAAGTAGCAACAGTGAATCTTACTCCCCTGGCGGTGTAGTAGAACAGATTGAAGCTAGGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
27489686 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * *
27489721 AGATTGAGGCCGCAACGGCGAATCTTACTTCCCTGGCGTTGTAGTAGAATAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
27489786 CGGTGAATCTTGTTTCCCCAGCATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * *
27489821 AGATTGAAGCCGCAACGTCGAATCTTACTCCCCTGACGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
**
27489886 CGACGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * *
27489921 AGATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGTGGTATAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
27489986 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * * * * *
27490021 AGATTGAAGCCACAATGTCGAATCTTACTTCCTTGGTGGTATAGTGGAACAGATTGATGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* * *
27490086 CGGTGAATCTTGTTTCCCCGACATT-CTAGTTAAAC
66 CGGTGAATCTTGTTTCCCCAACATTGC-AATTAAAA
27490121 AGATTGAAG
1 AGATTGAAG
27490130 ATGGCGAATC
Statistics
Matches: 373, Mismatches: 35, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
99 1 0.00
100 372 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:27489943 original size:50 final size:50
Alignment explanation
Indices: 27489671--27490046 Score: 229
Period size: 50 Copynumber: 7.5 Consensus size: 50
27489661 GTAGTAGAAC
* ** *
27489671 AGATTGAAGCTAGGACGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * ** *** * * * *
27489721 AGATTGAGGCCGCAACGGCGAATCTTACTTCCCTGGCGTTG-TAGTAGAAT
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTA-AAA
* * * *
27489771 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAGCATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * ** * ** * * ** *
27489821 AGATTGAAGCCGCAACGTCGAATCTT-ACTCCCCTGACGGTGTAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCC-AACATTGCAATTAAAA
* * *
27489871 AGATTGAAGCTACGACGACGAATCTTGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * ** **** * * ** *
27489921 AGATTGAAGCCGCAATGGCGAATCTTACTT--CCTTGGTGGTATAGTGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCA-A-TTAAAA
* *
27489971 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* *
27490021 AGATTGAAGCCACAATGTCGAATCTT
1 AGATTGAAGCCACAACGGCGAATCTT
27490047 ACTTCCTTGG
Statistics
Matches: 225, Mismatches: 93, Indels: 16
0.67 0.28 0.05
Matches are distributed among these distances:
48 5 0.02
49 9 0.04
50 197 0.88
51 9 0.04
52 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:27490075 original size:50 final size:50
Alignment explanation
Indices: 27489921--27490077 Score: 138
Period size: 50 Copynumber: 3.1 Consensus size: 50
27489911 GCAATTAAAA
*
27489921 AGATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGTGGTATAGTGGAAC
1 AGATTGAAGCCACAATGGCGAATCTTACTTCCTTGGTGGTATAGTGGAAC
* * * ** **** * * ** *
27489971 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCA-A-TTAAAA
1 AGATTGAAGCCACAATGGCGAATCTTACTT--CCTTGGTGGTATAGTGGAAC
*
27490021 AGATTGAAGCCACAATGTCGAATCTTACTTCCTTGGTGGTATAGTGGAAC
1 AGATTGAAGCCACAATGGCGAATCTTACTTCCTTGGTGGTATAGTGGAAC
27490071 AGATTGA
1 AGATTGA
27490078 TGCTACGACG
Statistics
Matches: 73, Mismatches: 30, Indels: 8
0.66 0.27 0.07
Matches are distributed among these distances:
48 5 0.07
49 1 0.01
50 61 0.84
51 1 0.01
52 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (50 bp):
AGATTGAAGCCACAATGGCGAATCTTACTTCCTTGGTGGTATAGTGGAAC
Found at i:27490190 original size:44 final size:44
Alignment explanation
Indices: 27490136--27490434 Score: 249
Period size: 44 Copynumber: 6.9 Consensus size: 44
27490126 GAAGATGGCG
27490136 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAAT
* * *
27490180 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAG-TGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAAT
* * * * *
27490223 AGATCTTATCTCTCTGAAGTTGTAG-AGAGCAGA-T--CGC-ATCT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-AT
* * * * * **
27490264 AGTCTTATCTCCTTGAAGTTGCAGGGGAGCAGACT-GAG-TACGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-AT
* * * * *
27490307 AAGTCTTATC-CTCCTTAAGTTGCAGTGGGGCAGACTGAAGATGGAA-
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGCT--AAT
* *
27490353 AATCTTATCTCCCTGAAGCTGCAGTGGACCAGATTAAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAAT
* *
27490397 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
27490435 ACAGATCTTA
Statistics
Matches: 202, Mismatches: 38, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
40 20 0.10
41 9 0.04
42 2 0.01
43 16 0.08
44 118 0.58
45 32 0.16
46 4 0.02
48 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAAT
Found at i:27492160 original size:32 final size:28
Alignment explanation
Indices: 27492129--27492266 Score: 92
Period size: 28 Copynumber: 5.1 Consensus size: 28
27492119 TTCAATAATT
* *
27492129 TAATTA-TTATTATTATTTATATATATG
1 TAATTATTTTTTATAATTTATATATATG
27492156 TAATTATTTTTTATAATTTATATATATG
1 TAATTATTTTTTATAATTTATATATATG
* * * * *
27492184 T-ATATATTTATTTTTTATATATGTACATG
1 TAAT-TATTT-TTTATAATTTATATATATG
* * * * *
27492213 TAAATATATTTATATATTTTTTCTA-ATG
1 TAATTAT-TTTTTATAATTTATATATATG
27492241 -AA-TA-TTTTTAT-ATTTATATATATG
1 TAATTATTTTTTATAATTTATATATATG
27492265 TA
1 TA
27492267 TATATCTATG
Statistics
Matches: 85, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
23 6 0.07
24 9 0.11
25 1 0.01
26 2 0.02
27 10 0.12
28 28 0.33
29 26 0.31
30 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (28 bp):
TAATTATTTTTTATAATTTATATATATG
Found at i:27494024 original size:9 final size:9
Alignment explanation
Indices: 27494006--27494200 Score: 203
Period size: 9 Copynumber: 21.1 Consensus size: 9
27493996 TATGTATTAC
*
27494006 GTAAGCTAT
1 GTAAGTTAT
27494015 GTAAGTTAT
1 GTAAGTTAT
*
27494024 GTGAGTTAT
1 GTAAGTTAT
27494033 GTAAGTTAT
1 GTAAGTTAT
27494042 GTAAGTTAT
1 GTAAGTTAT
*
27494051 GTGAGTTAT
1 GTAAGTTAT
*
27494060 GTGAGTTAT
1 GTAAGTTAT
27494069 GTAAGTTAT
1 GTAAGTTAT
*
27494078 GATATGATATAT
1 G-TAAG-T-TAT
*
27494090 ATAAGTTAT
1 GTAAGTTAT
27494099 GTAAGTTAT
1 GTAAGTTAT
* *
27494108 GTGACTTAT
1 GTAAGTTAT
*
27494117 GTGAGTTAT
1 GTAAGTTAT
*
27494126 GTGAGTTAT
1 GTAAGTTAT
27494135 GTAAGTTAT
1 GTAAGTTAT
*
27494144 GATATGATATAT
1 G-TAAG-T-TAT
*
27494156 ATAAGTTAT
1 GTAAGTTAT
27494165 -TAAGTTAT
1 GTAAGTTAT
*
27494173 GTATGTTAT
1 GTAAGTTAT
*
27494182 GTGAGTTAT
1 GTAAGTTAT
27494191 GTAAGTTAT
1 GTAAGTTAT
27494200 G
1 G
27494201 ATATGAATAT
Statistics
Matches: 159, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
8 8 0.05
9 129 0.81
10 8 0.05
11 8 0.05
12 6 0.04
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:27494099 original size:66 final size:66
Alignment explanation
Indices: 27494027--27494200 Score: 305
Period size: 66 Copynumber: 2.7 Consensus size: 66
27494017 AAGTTATGTG
27494027 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
1 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
27494092 A
66 A
* *
27494093 AGTTATGTAAGTTATGTGACTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
1 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
27494158 A
66 A
* *
27494159 AGTTAT-TAAGTTATGTATGTTATGTGAGTTATGTAAGTTATG
1 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATG
27494201 ATATGAATAT
Statistics
Matches: 102, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
65 32 0.31
66 70 0.69
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.45
Consensus pattern (66 bp):
AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
A
Found at i:27494276 original size:9 final size:9
Alignment explanation
Indices: 27494262--27494358 Score: 68
Period size: 9 Copynumber: 10.6 Consensus size: 9
27494252 TTTAAAGTTA
27494262 TTATGTAAG
1 TTATGTAAG
27494271 TTATGTAAG
1 TTATGTAAG
* *
27494280 TTTTGATATG
1 TTATG-TAAG
* * *
27494290 ATATATATAT
1 TTATGTA-AG
27494300 TTATGTAAG
1 TTATGTAAG
* *
27494309 TTAGGTAAA
1 TTATGTAAG
*
27494318 TTATGCAAG
1 TTATGTAAG
* *
27494327 TAATGCAAG
1 TTATGTAAG
*
27494336 TAATGTAAG
1 TTATGTAAG
*
27494345 TTGTGTAAG
1 TTATGTAAG
27494354 TTATG
1 TTATG
27494359 ATATATATTT
Statistics
Matches: 66, Mismatches: 20, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
9 56 0.85
10 10 0.15
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27494567 original size:22 final size:20
Alignment explanation
Indices: 27494528--27494567 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
27494518 AAACATTTAA
*
27494528 AAATATTAAATATTAAAATC
1 AAATATTAAATATAAAAATC
27494548 AAATATTATTAATATAAAAA
1 AAATATTA--AATATAAAAA
27494568 ATTAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATTAAATATAAAAATC
Found at i:27494568 original size:23 final size:24
Alignment explanation
Indices: 27494531--27494587 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
27494521 CATTTAAAAA
* *
27494531 TATTAAATAT-TAAAATCAAATAT
1 TATTAAATATAAAAAATCAAATAG
* *
27494554 TATT-AATATAAAAAATTAATTAG
1 TATTAAATATAAAAAATCAAATAG
27494577 TATTAAATATA
1 TATTAAATATA
27494588 TAATTTTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 17 0.61
24 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TATTAAATATAAAAAATCAAATAG
Found at i:27494568 original size:67 final size:68
Alignment explanation
Indices: 27494367--27494569 Score: 182
Period size: 67 Copynumber: 3.0 Consensus size: 68
27494357 TGATATATAT
*
27494367 TTTATAAGTTTTAAAAATATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAA
1 TTTATAAGTTTTAAAAATATTTAAAAATATTAAATATTAAAATCAAATATTATTAATATAAAAAA
27494432 -AG
66 TAG
** * **** * * * * * *
27494434 AATAGTAA-TTTGAGTTTTATATTAAAATAAATTTAAATAAT-GATTAAAATTATTA-TATTGAT
1 TTTA-TAAGTTTTAAAAATAT-TTAAAA-ATA-TTAAATATTAAAATCAAA-TATTATTAAT-AT
27494496 AAAAAATA-
60 AAAAAATAG
*
27494504 TTTATAAGTTTTAAAAACATTTAAAAATATTAAATATTAAAATCAAATATTATTAATATAAAAAA
1 TTTATAAGTTTTAAAAATATTTAAAAATATTAAATATTAAAATCAAATATTATTAATATAAAAAA
27494569 T
66 T
27494570 TAATTAGTAT
Statistics
Matches: 98, Mismatches: 28, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
67 31 0.32
68 19 0.19
69 19 0.19
70 28 0.29
71 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (68 bp):
TTTATAAGTTTTAAAAATATTTAAAAATATTAAATATTAAAATCAAATATTATTAATATAAAAAA
TAG
Found at i:27495806 original size:28 final size:28
Alignment explanation
Indices: 27495762--27495877 Score: 126
Period size: 28 Copynumber: 4.1 Consensus size: 28
27495752 CGACAGTGTG
* *
27495762 TCCCTTATTTTTCAAATTTTACAATTTT
1 TCCCCTATTTTTCAAATTTTATAATTTT
* *
27495790 TCCCCTATTTTTTAAATTTTAT-AGTTT
1 TCCCCTATTTTTCAAATTTTATAATTTT
* * * * *
27495817 ACCTCTATTTTTTAGATTTTATAGTTTT
1 TCCCCTATTTTTCAAATTTTATAATTTT
*
27495845 TCCCCTATTTTTCAGATTTTATAATTTT
1 TCCCCTATTTTTCAAATTTTATAATTTT
27495873 CTCCC
1 -TCCC
27495878 TTGCTTCACA
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
27 23 0.32
28 46 0.63
29 4 0.05
ACGTcount: A:0.22, C:0.18, G:0.03, T:0.57
Consensus pattern (28 bp):
TCCCCTATTTTTCAAATTTTATAATTTT
Found at i:27498878 original size:154 final size:154
Alignment explanation
Indices: 27498638--27498944 Score: 551
Period size: 154 Copynumber: 2.0 Consensus size: 154
27498628 GAGATTCTGG
*
27498638 TTCTACTGACTCAAATTCTCATCCTATAAAACAAACTATAAAGGGTAGACCACAACAAGAGGTTG
1 TTCTACTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCACAACAAGAGGTTG
* * *
27498703 TTGTAACTAATTCGAGGGGTTAGACTCCTAGTTATGCGTATTGTGAAAAATACCACATAAGTAAG
66 TTGTAACTAATTCAAGAGGTTAGACTCCTAGTTATGCGTATTGAGAAAAATACCACATAAGTAAG
27498768 TGTTGGAAGAAATTGAGTGCTTGT
131 TGTTGGAAGAAATTGAGTGCTTGT
* *
27498792 TTCTACTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCGCAATAAGAGGTTG
1 TTCTACTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCACAACAAGAGGTTG
*
27498857 TTGTAACTAATTCAAGAGGTTAGACTCCTAGTTATGCGTATTGAGAAAAATACCACATAGGTAAG
66 TTGTAACTAATTCAAGAGGTTAGACTCCTAGTTATGCGTATTGAGAAAAATACCACATAAGTAAG
27498922 TGTTGGAAGAAATTGAGTGCTTG
131 TGTTGGAAGAAATTGAGTGCTTG
27498945 CTTAAAGTGT
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
154 146 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (154 bp):
TTCTACTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCACAACAAGAGGTTG
TTGTAACTAATTCAAGAGGTTAGACTCCTAGTTATGCGTATTGAGAAAAATACCACATAAGTAAG
TGTTGGAAGAAATTGAGTGCTTGT
Found at i:27499893 original size:19 final size:19
Alignment explanation
Indices: 27499857--27499898 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27499847 TAAATAGGGT
*
27499857 TTTTCCTCTCTTCTCTTTA
1 TTTTCCTCTCTTCCCTTTA
* *
27499876 TTTTCTTCTTTTCCCTTTA
1 TTTTCCTCTCTTCCCTTTA
27499895 TTTT
1 TTTT
27499899 TTTGTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTCCTCTCTTCCCTTTA
Found at i:27503858 original size:13 final size:13
Alignment explanation
Indices: 27503852--27503876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27503842 TTTTCTACAA
27503852 CACTTTTTAAAAT
1 CACTTTTTAAAAT
27503865 CACTTTTTAAAA
1 CACTTTTTAAAA
27503877 GCATTGCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
CACTTTTTAAAAT
Found at i:27505586 original size:6 final size:7
Alignment explanation
Indices: 27505560--27505585 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27505550 AAGTTTGGAG
27505560 TAAAAAT
1 TAAAAAT
27505567 TAAAAAT
1 TAAAAAT
27505574 TAAAAAT
1 TAAAAAT
27505581 TAAAA
1 TAAAA
27505586 TGGTCCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAAAT
Found at i:27508806 original size:19 final size:18
Alignment explanation
Indices: 27508782--27508824 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
27508772 TACATATTTT
27508782 TATATTTTTCAAAATTAAA
1 TATATTTTTC-AAATTAAA
*
27508801 TATA-TTTTCCAATTAAA
1 TATATTTTTCAAATTAAA
27508818 TA-ATTTT
1 TATATTTT
27508825 CTCATTCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 5 0.23
19 4 0.18
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATTTTTCAAATTAAA
Found at i:27508825 original size:16 final size:17
Alignment explanation
Indices: 27508794--27508825 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27508784 TATTTTTCAA
27508794 AATTAAATATATTTTCC
1 AATTAAATATATTTTCC
27508811 AATTAAATA-ATTTTC
1 AATTAAATATATTTTC
27508826 TCATTCCAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATATATTTTCC
Found at i:27509330 original size:23 final size:23
Alignment explanation
Indices: 27509304--27509376 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
27509294 TAATTAGGGC
27509304 TCGCATACATAAAATGTAAGGCT
1 TCGCATACATAAAATGTAAGGCT
* * * * *
27509327 TCGCCTGCA-AAATAGGTAGGGGT
1 TCGCATACATAAA-ATGTAAGGCT
*
27509350 TCGCATACATAAATTAGTAAGGCT
1 TCGCATACATAAAAT-GTAAGGCT
27509374 TCG
1 TCG
27509377 TATAAAGGGC
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
22 3 0.08
23 21 0.58
24 12 0.33
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (23 bp):
TCGCATACATAAAATGTAAGGCT
Found at i:27511377 original size:39 final size:39
Alignment explanation
Indices: 27511323--27511412 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
27511313 CATGGCACAA
** *
27511323 AAGTGCGATCAGGGGTACTGAAGTACAACAAGGACATGT
1 AAGTGCGATCAGGGGTACCAAAGTACAACAAGGACACGT
* * *
27511362 AAGTGCGATCAGGGGTACCAAAGTACAATAGGGGCACGT
1 AAGTGCGATCAGGGGTACCAAAGTACAACAAGGACACGT
27511401 AAGTGCGATCAG
1 AAGTGCGATCAG
27511413 AGGTGTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACCAAAGTACAACAAGGACACGT
Found at i:27514008 original size:27 final size:27
Alignment explanation
Indices: 27513962--27514019 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
27513952 GGTGTATACT
*
27513962 AGCTCGCCAAGCATTTTGGTAAACACC
1 AGCTCGCCAAGCATTCTGGTAAACACC
*
27513989 AGCTCGCCAAGTC-TTCTGGTGAACACC
1 AGCTCGCCAAG-CATTCTGGTAAACACC
27514016 AGCT
1 AGCT
27514020 TGATAATCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (27 bp):
AGCTCGCCAAGCATTCTGGTAAACACC
Found at i:27514046 original size:27 final size:27
Alignment explanation
Indices: 27513978--27514063 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
27513968 CCAAGCATTT
* * **
27513978 TGGTAAACACCAGCTCGCCAAGT-CTTC
1 TGGTGAACACCAGCTCACCAA-TCCTAG
* *
27514005 TGGTGAACACCAGCTTGA-TAATCCTAG
1 TGGTGAACACCAGC-TCACCAATCCTAG
* *
27514032 TGGTGAACTCTAGCTCACCAATCCTAG
1 TGGTGAACACCAGCTCACCAATCCTAG
27514059 TGGTG
1 TGGTG
27514064 TTCTCCTGCT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
26 3 0.07
27 42 0.91
28 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (27 bp):
TGGTGAACACCAGCTCACCAATCCTAG
Found at i:27518680 original size:44 final size:44
Alignment explanation
Indices: 27518529--27518687 Score: 116
Period size: 44 Copynumber: 3.7 Consensus size: 44
27518519 AGCTCTTACA
* *
27518529 ATGCCAACGTCCCATACGTGGTCTTACATGT-AATC-AAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCTAAA-ATCG
* *** *
27518572 ATGCC-ACTATCCCAGACAG-GGTCTTACAC--AAAT-TTGTATACA
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCTAAAAT-CG
** * * * *
27518614 ATGCTGATGTCCCAAACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCTAAAATCG
27518658 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
27518688 ATAACTCATA
Statistics
Matches: 85, Mismatches: 21, Indels: 19
0.68 0.17 0.15
Matches are distributed among these distances:
41 2 0.02
42 27 0.32
43 22 0.26
44 31 0.36
45 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCTAAAATCG
Found at i:27522176 original size:7 final size:7
Alignment explanation
Indices: 27522147--27522198 Score: 77
Period size: 7 Copynumber: 7.0 Consensus size: 7
27522137 TGCGATTTAA
27522147 AAAATTTT
1 AAAA-TTT
27522155 AAAATTTT
1 AAAA-TTT
27522163 AAAAATTT
1 -AAAATTT
27522171 AAAATTT
1 AAAATTT
27522178 AAAATTT
1 AAAATTT
27522185 AAAATTT
1 AAAATTT
27522192 AAAATTT
1 AAAATTT
27522199 TTTAATTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 28 0.65
8 11 0.26
9 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AAAATTT
Found at i:27522232 original size:9 final size:8
Alignment explanation
Indices: 27522147--27522233 Score: 90
Period size: 8 Copynumber: 11.0 Consensus size: 8
27522137 TGCGATTTAA
27522147 AAAATTTT
1 AAAATTTT
27522155 AAAATTTT
1 AAAATTTT
*
27522163 AAAAATTT
1 AAAATTTT
27522171 AAAA-TTT
1 AAAATTTT
27522178 AAAA-TTT
1 AAAATTTT
27522185 AAAA-TTT
1 AAAATTTT
27522192 AAAATTTT
1 AAAATTTT
**
27522200 TTAATTTT
1 AAAATTTT
27522208 ATAAATTTT
1 A-AAATTTT
**
27522217 ATGATTTT
1 AAAATTTT
27522225 AATAATTTT
1 AA-AATTTT
27522234 TTGTATTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
7 21 0.31
8 34 0.51
9 12 0.18
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (8 bp):
AAAATTTT
Found at i:27522710 original size:130 final size:130
Alignment explanation
Indices: 27522477--27522800 Score: 479
Period size: 130 Copynumber: 2.5 Consensus size: 130
27522467 ATGCTTGAAG
* * *
27522477 GTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTACTTGATTTAAAGTGATTGATTGAATCT
1 GTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTATTTGATTTAAAGTGATTGATTGAGTCA
* * **
27522542 ATATTTTCACAACTAAATTTGATGACATTAAAATATAATATTAAAATAACATATCATTTATAAAT
66 ATATTTCCACAACTAAATGTGACAACATTAAAATATAATATTAAAATAACATATCATTTATAAAT
* *
27522607 GTAGTTGATTGTTGATGTATTAGATTGGGTTGATGGTATTTGATTTAAAGTGATTGATTGAGTCA
1 GTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTATTTGATTTAAAGTGATTGATTGAGTCA
* *
27522672 ATATTTCCACAACTAAATGTGACAACATTAAAATATAATATTGAAATAACATATCATTTATACAT
66 ATATTTCCACAACTAAATGTGACAACATTAAAATATAATATTAAAATAACATATCATTTATAAAT
* * ** * *
27522737 GTAGTTGTTTGTTGATGTCTTAGATTAGGTTGA-CCAACTTTAATTTAAAATGATTGATTGAGTC
1 GTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTA-TTTGATTTAAAGTGATTGATTGAGTC
27522801 CAGGCTTCTA
Statistics
Matches: 174, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
129 1 0.01
130 173 0.99
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (130 bp):
GTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTATTTGATTTAAAGTGATTGATTGAGTCA
ATATTTCCACAACTAAATGTGACAACATTAAAATATAATATTAAAATAACATATCATTTATAAAT
Found at i:27525983 original size:50 final size:52
Alignment explanation
Indices: 27525844--27525998 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
27525834 GAACAAATGA
*
27525844 GATGCAGACTTAAACTAACATGGGAGTTACATAATGCAAGACTTAATTTAAT
1 GATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGACTTAATTTAAT
*
27525896 GATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGTCATT-ATTT-AT
1 GATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGAC-TTAATTTAAT
* * * * * *
27525947 GATGCATACTT-AACTAGCATGGAAGTTACATAATGCATAACTTTATTAAAT
1 GATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGACTTAATTTAAT
27525998 G
1 G
27525999 CAGAACACAC
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
49 2 0.02
50 29 0.32
51 15 0.16
52 44 0.48
53 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (52 bp):
GATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGACTTAATTTAAT
Found at i:27526079 original size:20 final size:19
Alignment explanation
Indices: 27526038--27526079 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
27526028 AAAAATATGC
*
27526038 AAACTTATTAATTTAAATA
1 AAACTTATTAATTTAAAAA
27526057 AAACTATATTGAA-TTAAAAA
1 AAACT-TATT-AATTTAAAAA
27526077 AAA
1 AAA
27526080 TTCCTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 13 0.65
21 2 0.10
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
AAACTTATTAATTTAAAAA
Found at i:27526334 original size:57 final size:57
Alignment explanation
Indices: 27526222--27526376 Score: 169
Period size: 57 Copynumber: 2.8 Consensus size: 57
27526212 ATTTGTTTCA
* * * *
27526222 TGTATTTATTTATTTA-TTATTCTTTTACCTTTTAAATATTTAAATTCGATTTTATT
1 TGTATTTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTCAATATTATT
* * * *
27526278 TTTATTTGTTTATCTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATT
1 TGTATTTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTCAATATTATT
* * *
27526335 TGT-TTTCTCTATTTATTTA-T-TTTT--TTTTGAAATACTTAAATT
1 TGTATTTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATT
27526377 GGATACTACT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
52 17 0.20
54 4 0.05
55 1 0.01
56 26 0.31
57 37 0.44
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.63
Consensus pattern (57 bp):
TGTATTTATTTATTTATTTATTCTTTTACTTTTTAAATACTTAAATTCAATATTATT
Found at i:27526369 original size:52 final size:51
Alignment explanation
Indices: 27526279--27526376 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 51
27526269 GATTTTATTT
27526279 TTATTTGTTTATCTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATA
1 TTATTTGTTTATCTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATA
* *
27526330 TTATTTGTTTTCTCTATTTATT-TATTT-TTTTTTGAAATACTTAAATT
1 TTATTTG-TTTATCTATTTATTCT-TTTACTTTTT-AAATACTTAAATT
27526377 GGATACTACT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
51 13 0.31
52 29 0.69
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (51 bp):
TTATTTGTTTATCTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATA
Found at i:27526773 original size:16 final size:16
Alignment explanation
Indices: 27526730--27526767 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
27526720 GAGGCAAATG
27526730 TTTATTTGTTTATCTA
1 TTTATTTGTTTATCTA
27526746 TTTATTTGTTTATCTA
1 TTTATTTGTTTATCTA
27526762 TTTATT
1 TTTATT
27526768 CTTTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTATTTGTTTATCTA
Found at i:27526831 original size:52 final size:52
Alignment explanation
Indices: 27526747--27526845 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
27526737 GTTTATCTAT
27526747 TTATTTGTTTATCTATTTATTCTTTTACTTTTT-AAATACTTAAATTTAATA
1 TTATTTGTTTATCTATTTATTCTTTTACTTTTTGAAATACTTAAATTTAATA
* **
27526798 TTATTTGTTTTCTCTATTTATT-TATTTTTTTTTTGAAATACTTAAATT
1 TTATTTG-TTTATCTATTTATTCT-TTTACTTTTTGAAATACTTAAATT
27526846 GGATACTACT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 8 0.19
52 21 0.50
53 13 0.31
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (52 bp):
TTATTTGTTTATCTATTTATTCTTTTACTTTTTGAAATACTTAAATTTAATA
Found at i:27527155 original size:469 final size:468
Alignment explanation
Indices: 27526278--27527200 Score: 1837
Period size: 469 Copynumber: 2.0 Consensus size: 468
27526268 CGATTTTATT
27526278 TTTATTTGTTTATCTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTGTTTTCT
1 TTTATTTGTTTATCTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTGTTTTCT
27526343 CTATTTATTTATTTTTTTTTGAAATACTTAAATTGGATACTACTTATACTTCCTTTCCATTAAGC
66 CTATTTATTTATTTTTTTTTGAAATACTTAAATTGGATACTACTTATACTTCCTTTCCATTAAGC
27526408 ACCTTTCATTTTTATTTTTTATTTTGAGTTACTTTATTTATTTTGTTCTTAATGCCATGAATTAA
131 ACCTTTCATTTTTATTTTTTATTTTGAGTTACTTTATTTATTTTGTTCTTAATGCCATGAATTAA
27526473 TATTCTTATTATTGCTATATTCACATTATTATTACTATAGTATTTATCCACTTATTTGTTAGTTA
196 TATTCTTATTATTGCTATATTCACATTATTATTACTATAGTATTTATCCACTTATTTGTTAGTTA
27526538 TCATTCTAATATAAATGTTCTATCCACATGGCCATCGTATATTACTTCGCTGTCATTATATCATA
261 TCATTCTAATATAAATGTTCTATCCACATGGCCATCGTATATTACTTCGCTGTCATTATATCATA
27526603 CATTAAGTTTAAGCATTCATCCATATTTATATCATGTCCGAATAAGTAAAATGCATATCGTTTTA
326 CATTAAGTTTAAGCATTCATCCATATTTATATCATGTCCGAATAAGTAAAATGCATATCGTTTTA
27526668 AGTATTACGCTCATTTTTTGCACGATGCATAAAAAAGTAAAATTTTTAAACCGAGGCAAATGTTT
391 AGTATTACGCTCATTTTTTGCACGATGCATAAAAAAGTAAAATTTTTAAACCGAGGCAAATGTTT
27526733 ATTTGTTTATCTA
456 ATTTGTTTATCTA
27526746 TTTATTTGTTTATCTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTGTTTTCT
1 TTTATTTGTTTATCTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTGTTTTCT
27526811 CTATTTATTTATTTTTTTTTTGAAATACTTAAATTGGATACTACTTATACTTCCTTTCCATTAAG
66 CTATTTATTTA-TTTTTTTTTGAAATACTTAAATTGGATACTACTTATACTTCCTTTCCATTAAG
27526876 CACCTTTCATTTTTATTTTTTATTTTGAGTTACTTTATTTATTTTGTTCTTAATGCCATGAATTA
130 CACCTTTCATTTTTATTTTTTATTTTGAGTTACTTTATTTATTTTGTTCTTAATGCCATGAATTA
27526941 ATATTCTTATTATTGCTATATTCACATTATTATTACTATAGTATTTATCCACTTATTTGTTAGTT
195 ATATTCTTATTATTGCTATATTCACATTATTATTACTATAGTATTTATCCACTTATTTGTTAGTT
27527006 ATCATTCTAATATAAATGTTCTATCCACATGGCCATCGTATATTACTTCGCTGTCATTATATCAT
260 ATCATTCTAATATAAATGTTCTATCCACATGGCCATCGTATATTACTTCGCTGTCATTATATCAT
27527071 ACATTAAGTTTAAGCATTCATCCATATTTATATCATGTCCGAATAAGTAAAATGCATATCGTTTT
325 ACATTAAGTTTAAGCATTCATCCATATTTATATCATGTCCGAATAAGTAAAATGCATATCGTTTT
27527136 AAGTATTACGCTCATTTTTTGCACGATGCATAAAAAAGTAAAATTTTTAAACCGAGGCAAATGTT
390 AAGTATTACGCTCATTTTTTGCACGATGCATAAAAAAGTAAAATTTTTAAACCGAGGCAAATGTT
27527201 CATTATTTTG
Statistics
Matches: 454, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
468 76 0.17
469 378 0.83
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (468 bp):
TTTATTTGTTTATCTATTTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTGTTTTCT
CTATTTATTTATTTTTTTTTGAAATACTTAAATTGGATACTACTTATACTTCCTTTCCATTAAGC
ACCTTTCATTTTTATTTTTTATTTTGAGTTACTTTATTTATTTTGTTCTTAATGCCATGAATTAA
TATTCTTATTATTGCTATATTCACATTATTATTACTATAGTATTTATCCACTTATTTGTTAGTTA
TCATTCTAATATAAATGTTCTATCCACATGGCCATCGTATATTACTTCGCTGTCATTATATCATA
CATTAAGTTTAAGCATTCATCCATATTTATATCATGTCCGAATAAGTAAAATGCATATCGTTTTA
AGTATTACGCTCATTTTTTGCACGATGCATAAAAAAGTAAAATTTTTAAACCGAGGCAAATGTTT
ATTTGTTTATCTA
Found at i:27528565 original size:7 final size:7
Alignment explanation
Indices: 27528554--27528590 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
27528544 TGTTAAGCTT
*
27528554 AATGGAT
1 AATGGAG
27528561 AATGGAG
1 AATGGAG
27528568 AATGGAG
1 AATGGAG
*
27528575 AATGTAG
1 AATGGAG
27528582 AATGGAG
1 AATGGAG
27528589 AA
1 AA
27528591 AGATATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (7 bp):
AATGGAG
Found at i:27540759 original size:16 final size:18
Alignment explanation
Indices: 27540718--27540759 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
27540708 CAACACTGTA
27540718 TGTGAAAAAGGAAGGGTG
1 TGTGAAAAAGGAAGGGTG
*
27540736 TTGTGAAAAATGAA-GGTG
1 -TGTGAAAAAGGAAGGGTG
27540754 -GTGAAA
1 TGTGAAA
27540760 CACTACTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
18 4 0.18
19 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.21
Consensus pattern (18 bp):
TGTGAAAAAGGAAGGGTG
Found at i:27550179 original size:34 final size:35
Alignment explanation
Indices: 27550114--27550181 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
27550104 TACAAAACAT
*
27550114 AAGGATACTAATCTTAATAAAATAAACATTAAATA
1 AAGGATACTAATATTAATAAAATAAACATTAAATA
* *
27550149 AAGGATACTAATATT-ATAAAATACAGATTAAAT
1 AAGGATACTAATATTAATAAAATAAACATTAAAT
27550182 TAGGGATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (35 bp):
AAGGATACTAATATTAATAAAATAAACATTAAATA
Found at i:27550652 original size:43 final size:43
Alignment explanation
Indices: 27550591--27550785 Score: 205
Period size: 43 Copynumber: 4.5 Consensus size: 43
27550581 AAATAAACGC
* * *
27550591 CGCTTATCCCACAAACGCCGCAATAGATCATGATTTTTAGCGG
1 CGCTTTTCCCACAAACGCCGCTATAGATCATGACTTTTAGCGG
* * *
27550634 CGCTTTTCCCAAAAACGCCGCTATAGGTCATGACTTTTAGCAG
1 CGCTTTTCCCACAAACGCCGCTATAGATCATGACTTTTAGCGG
* * * * *
27550677 TGTTTTTCCCACTAACGCCGCTATAGATCATCACTTTTAGCGA
1 CGCTTTTCCCACAAACGCCGCTATAGATCATGACTTTTAGCGG
*** * *
27550720 CGCTTTTTTGTACAAACGCCGCTATAGAACA-GACCTTTAGCGAG
1 CGC-TTTTCCCACAAACGCCGCTATAGATCATGACTTTTAGCG-G
*
27550764 -GCTTTTCACACAAACGCCGCTA
1 CGCTTTTCCCACAAACGCCGCTA
27550786 AAAACATATC
Statistics
Matches: 123, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
42 17 0.14
43 84 0.68
44 22 0.18
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (43 bp):
CGCTTTTCCCACAAACGCCGCTATAGATCATGACTTTTAGCGG
Found at i:27551119 original size:43 final size:42
Alignment explanation
Indices: 27551047--27551137 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
27551037 ACATATGCAA
* ** *
27551047 TGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCT
1 TGTAATAAAACATACAATACATTGACTTAATCAAGGAAATCT
* *
27551089 TGGTAATAAAAGATATAATACATTGACTTAATCAAGGAAATCT
1 T-GTAATAAAACATACAATACATTGACTTAATCAAGGAAATCT
27551132 TGTAAT
1 TGTAAT
27551138 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 6 0.14
43 36 0.86
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (42 bp):
TGTAATAAAACATACAATACATTGACTTAATCAAGGAAATCT
Found at i:27558008 original size:20 final size:21
Alignment explanation
Indices: 27557975--27558020 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
27557965 CTGTGACTAA
27557975 ATGTGATTAAATGTAATT-AT
1 ATGTGATTAAATGTAATTCAT
* * *
27557995 ATGTGCTTATATGTGATTCAT
1 ATGTGATTAAATGTAATTCAT
27558016 ATGTG
1 ATGTG
27558021 TTGAAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (21 bp):
ATGTGATTAAATGTAATTCAT
Found at i:27574545 original size:68 final size:67
Alignment explanation
Indices: 27574446--27574581 Score: 184
Period size: 68 Copynumber: 2.0 Consensus size: 67
27574436 AATTCAGGAT
* ** *
27574446 TACCAAAGTACAAACAGGGCACGTATATGCATTC-AGGGATACTTAAGTACAAATAGGGGCATGT
1 TACCAAAGTACAAACAGAGCACGTATATGCATTCAAGGG-TACCAAAGTACAAATAGGGGCACGT
27574510 ATG
65 ATG
* * *
27574513 TACCAAAGTACAATCAAGAGCACGTATGTGCATTCAAGGGTACCAAAGTACAATTAGGGGCACGT
1 TACCAAAGTACAAAC-AGAGCACGTATATGCATTCAAGGGTACCAAAGTACAAATAGGGGCACGT
27574578 ATG
65 ATG
27574581 T
1 T
27574582 GCATTCAGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
67 14 0.23
68 42 0.70
69 4 0.07
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (67 bp):
TACCAAAGTACAAACAGAGCACGTATATGCATTCAAGGGTACCAAAGTACAAATAGGGGCACGTA
TG
Found at i:27574576 original size:40 final size:40
Alignment explanation
Indices: 27574512--27574828 Score: 323
Period size: 40 Copynumber: 7.9 Consensus size: 40
27574502 GGGCATGTAT
* * *
27574512 GTACCAAAGTACAATCAAGAGCACGTATGTGCATTCAAGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* * *
27574552 GTACCAAAGTACAATTAGGGGCACGTATGTGCATTCAGGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
** * * *
27574592 GTATGGAAGTATAAACAGGGGCATGTATGTGCATTCAAGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* * * *
27574632 ATACCGAAATACAATCAGGAGCACGTGTGTGCATTCAAGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* * * * *
27574672 GTACTGAAGGACAATCAGAGGCACGTATGTGCATTTAGGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* * * *
27574712 GTATCGAAGTACAATCAGAGGCATGTATGTGCATCCAAGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* * *
27574752 GTACCGAAGTACAAACAAGGGCACGTATGTGCATT-TAGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* * * *
27574791 TGTATCGAAGTACAAAT-ATGGGAATGTATGTGCATTCA
1 -GTACCGAAGTAC-AATCAGGGGCACGTATGTGCATTCA
27574829 TTCAATAATT
Statistics
Matches: 224, Mismatches: 50, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
39 3 0.01
40 219 0.98
41 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (40 bp):
GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
Found at i:27574735 original size:120 final size:120
Alignment explanation
Indices: 27574513--27574786 Score: 372
Period size: 120 Copynumber: 2.3 Consensus size: 120
27574503 GGCATGTATG
* * * *
27574513 TACC-AAAGTACAATCAAGAGCACGTATGTGCATTCAAGGGTACCAAAGTACAATTAGGGGCACG
1 TACCGAAA-TACAATCAGGAGCACGTATGTGCATTCAAGGGTACCAAAGGACAATCAGAGGCACG
* * * *
27574577 TATGTGCATTCAGGGGTATGGAAGTATAAACAGGGGCATGTATGTGCATTCAAGGA
65 TATGTGCATTCAGGGGTATCGAAGTACAAACAGAGGCATGTATGTGCATCCAAGGA
* **
27574633 TACCGAAATACAATCAGGAGCACGTGTGTGCATTCAAGGGTACTGAAGGACAATCAGAGGCACGT
1 TACCGAAATACAATCAGGAGCACGTATGTGCATTCAAGGGTACCAAAGGACAATCAGAGGCACGT
* * *
27574698 ATGTGCATTTAGGGGTATCGAAGTACAATCAGAGGCATGTATGTGCATCCAAGGG
66 ATGTGCATTCAGGGGTATCGAAGTACAAACAGAGGCATGTATGTGCATCCAAGGA
* *
27574753 TACCGAAGTACAAACAAGG-GCACGTATGTGCATT
1 TACCGAAATACAATC-AGGAGCACGTATGTGCATT
27574787 TAGGTGTATC
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
120 129 0.96
121 6 0.04
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (120 bp):
TACCGAAATACAATCAGGAGCACGTATGTGCATTCAAGGGTACCAAAGGACAATCAGAGGCACGT
ATGTGCATTCAGGGGTATCGAAGTACAAACAGAGGCATGTATGTGCATCCAAGGA
Found at i:27574820 original size:120 final size:118
Alignment explanation
Indices: 27574512--27574828 Score: 370
Period size: 120 Copynumber: 2.6 Consensus size: 118
27574502 GGGCATGTAT
* * * *
27574512 GTACCAAAGTACAATCAAGAGCACGTATGTGCATTCAAGGGTACCAAAGTACAATTAGGGGCACG
1 GTACCGAAGTACAATCAAGGGCACGTATGTGCATTCAAGGGTA-CGAAGTACAAATA-GGGCACG
* * * *
27574577 TATGTGCATTCAGGGGTATGGAAGTATAAACAGGGGCATGTATGTGCATTCAAGG
64 TATGTGCATTCAGGGGTATCGAAGTACAAACAGAGGCATGTATGTGCATCCAAGG
* * * *
27574632 ATACCGAAATACAATC-AGGAGCACGTGTGTGCATTCAAGGGTACTGAAGGAC-AATCAGAGGCA
1 GTACCGAAGTACAATCAAGG-GCACGTATGTGCATTCAAGGGTAC-GAAGTACAAAT-AG-GGCA
* *
27574695 CGTATGTGCATTTAGGGGTATCGAAGTACAATCAGAGGCATGTATGTGCATCCAAGG
62 CGTATGTGCATTCAGGGGTATCGAAGTACAAACAGAGGCATGTATGTGCATCCAAGG
* * * *
27574752 GTACCGAAGTACAAACAAGGGCACGTATGTGCATT-TAGGTGTATCGAAGTACAAATATGGGAAT
1 GTACCGAAGTACAATCAAGGGCACGTATGTGCATTCAAGG-GTA-CGAAGTACAAATA-GGGCAC
27574816 GTATGTGCATTCA
63 GTATGTGCATTCA
27574829 TTCAATAATT
Statistics
Matches: 165, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
119 9 0.05
120 148 0.90
121 8 0.05
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (118 bp):
GTACCGAAGTACAATCAAGGGCACGTATGTGCATTCAAGGGTACGAAGTACAAATAGGGCACGTA
TGTGCATTCAGGGGTATCGAAGTACAAACAGAGGCATGTATGTGCATCCAAGG
Found at i:27577997 original size:95 final size:95
Alignment explanation
Indices: 27577831--27578007 Score: 266
Period size: 95 Copynumber: 1.9 Consensus size: 95
27577821 TATTCTCTAG
*
27577831 TTGGATATTTAATTGGACATTGGAAACCCATATGATCTTTTGAACTACACCAATAACATTGCACA
1 TTGGATATTTAATTGGACATTGGAAACCCATATGATCTTTTGAACTACACCAATAAAATTGCACA
* *
27577896 AAAGGTGATAGCTCAATCGTATTCACTCAA
66 AAAGGTGAAAGATCAATCGTATTCACTCAA
* **
27577926 TTGGATATTTAATTGGACATTGGAAACCC-TCCTGATCTTTTGAACTACACCAATAAAATTTTAC
1 TTGGATATTTAATTGGACATTGGAAACCCAT-ATGATCTTTTGAACTACACCAATAAAATTGCAC
* *
27577990 GATAGGTGAAAGATCAAT
65 AAAAGGTGAAAGATCAAT
27578008 TGTACTCCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 1 0.01
95 72 0.99
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.32
Consensus pattern (95 bp):
TTGGATATTTAATTGGACATTGGAAACCCATATGATCTTTTGAACTACACCAATAAAATTGCACA
AAAGGTGAAAGATCAATCGTATTCACTCAA
Found at i:27584769 original size:19 final size:19
Alignment explanation
Indices: 27584745--27584787 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
27584735 AGACTGAGAG
27584745 AAAAGAGACCTTTAGTGAT
1 AAAAGAGACCTTTAGTGAT
*
27584764 AAAAGAGACGTTTAGTGAT
1 AAAAGAGACCTTTAGTGAT
27584783 AAAAG
1 AAAAG
27584788 TTCACTTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (19 bp):
AAAAGAGACCTTTAGTGAT
Found at i:27586564 original size:191 final size:192
Alignment explanation
Indices: 27586240--27586626 Score: 740
Period size: 191 Copynumber: 2.0 Consensus size: 192
27586230 TGTTTTACTA
27586240 AAAACCTTATTTAATAAATATACAACTATTTTAAGTGCATGCATCCACAATGATATAGGTAAGAA
1 AAAACCTTATTTAATAAATATACAACTATTTTAAGTGCATGCATCCACAATGATATAGGTAAGAA
27586305 GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTACGCCTTTCTACAATATCA-
66 GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTACGCCTTTCTACAATATCAT
27586369 TTTTTGAGGTATGTCTGGTATGGTATACTATGCACATATGCCACAACTTTTGAGGAATTTAG
131 TTTTTGAGGTATGTCTGGTATGGTATACTATGCACATATGCCACAACTTTTGAGGAATTTAG
*
27586431 AAAACCTTATTTAATAAATATACAACTATTTTAAGTGCATGCATCCACAATGATATAGGTAATAA
1 AAAACCTTATTTAATAAATATACAACTATTTTAAGTGCATGCATCCACAATGATATAGGTAAGAA
*
27586496 GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTACGCCTTTCTGCAATATCAT
66 GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTACGCCTTTCTACAATATCAT
*
27586561 TTTTTGAGGTATGTCTGGTATGGTATACTGTGCACATATGCCACAACTTTTGAGGAATTTAG
131 TTTTTGAGGTATGTCTGGTATGGTATACTATGCACATATGCCACAACTTTTGAGGAATTTAG
27586623 AAAA
1 AAAA
27586627 TGGACCTGGA
Statistics
Matches: 192, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
191 127 0.66
192 65 0.34
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (192 bp):
AAAACCTTATTTAATAAATATACAACTATTTTAAGTGCATGCATCCACAATGATATAGGTAAGAA
GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTACGCCTTTCTACAATATCAT
TTTTTGAGGTATGTCTGGTATGGTATACTATGCACATATGCCACAACTTTTGAGGAATTTAG
Found at i:27591227 original size:195 final size:194
Alignment explanation
Indices: 27590697--27591274 Score: 858
Period size: 190 Copynumber: 3.0 Consensus size: 194
27590687 TAAAGGTGAA
* * *
27590697 AAAAAATGCCTCTATAAATAGAATTTCTTATAGTGGCAAGCAACAACATGGTACCAAAAGTGCAA
1 AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAGCAACAACATGGTACCAAAAGTGCAA
*
27590762 CTGATCCTGACAACATTAATCAAAGCTAGTAGTTGAATGAGGATATGTTCATGGAGAAAATGCAA
66 CTGATCCTGACAACATTAATCAAAGCTAGTAGTTGAATGAGGATATATTCATGGAGAAAATGCAA
* *
27590827 CAATTAAGGAAAGAAATGTATAAGTATAAGAAATCAAAATCATTTGGCTAACTAAGAAAATA-T
131 CAATTAAGGAAAGAAATGTAAAAGTATAAGAAATCAAAATCATTTGGCTAACTAATAAAATATT
*
27590890 AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAG---CAACATGGTACCAGAAGTGCAA
1 AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAGCAACAACATGGTACCAAAAGTGCAA
* * * **
27590952 CTGATCTTGACAACATTAATCAAAGCTAGTTGTTGAATAAGGATATATTCATAAAGAAAATGCAA
66 CTGATCCTGACAACATTAATCAAAGCTAGTAGTTGAATGAGGATATATTCATGGAGAAAATGCAA
* * * *
27591017 TAGTTAAGGAAAGAAATATAAAAGTATAAGAAACCAAAATCATTTGGCTAACTAATAAAATATTT
131 CAATTAAGGAAAGAAATGTAAAAGTATAAGAAATCAAAATCATTTGGCTAACTAATAAAATA-TT
* * *
27591082 AAAAAATGCCACTATAAACAAAATTTCTTGTAGTGGCAAGCAACAACATAGTACCAAAACTGCAA
1 AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAGCAACAACATGGTACCAAAAGTGCAA
* * ** * *
27591147 TTGATCCTAACAACATTAATCAAAGCTAACAATTGAATGAGGATATATCCATGGAGAAAATGCAA
66 CTGATCCTGACAACATTAATCAAAGCTAGTAGTTGAATGAGGATATATTCATGGAGAAAATGCAA
* * * *
27591212 CAATTAAGTAAAGAAATGTAAAAGTATAAGAAATCAACATCATTCGACTAACTAATAAAATAT
131 CAATTAAGGAAAGAAATGTAAAAGTATAAGAAATCAAAATCATTTGGCTAACTAATAAAATAT
27591275 ACCAAGAAGC
Statistics
Matches: 341, Mismatches: 39, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
190 136 0.40
192 40 0.12
193 37 0.11
194 1 0.00
195 127 0.37
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.25
Consensus pattern (194 bp):
AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAGCAACAACATGGTACCAAAAGTGCAA
CTGATCCTGACAACATTAATCAAAGCTAGTAGTTGAATGAGGATATATTCATGGAGAAAATGCAA
CAATTAAGGAAAGAAATGTAAAAGTATAAGAAATCAAAATCATTTGGCTAACTAATAAAATATT
Found at i:27595864 original size:71 final size:71
Alignment explanation
Indices: 27595715--27595865 Score: 160
Period size: 71 Copynumber: 2.1 Consensus size: 71
27595705 CATTGGTACA
* ** * * *
27595715 TTCAAAATAATATGCGCCCAGTGCTCATCGGTAGAAACTGAAGCCATGTATGCCCAACACTCATC
1 TTCAAAGTAATATGCGCCCAACGCTCATCGATAGAAACCGAAGCAATGTATGCCCAACACTCATC
*
27595780 AGAATG
66 AGAACG
* * * * *
27595786 -TCTAAAGTAATATGCGTCCAACGCTCATCGATATAAACCGAAGCAATGTGTGCCTAGCACTCAT
1 TTC-AAAGTAATATGCGCCCAACGCTCATCGATAGAAACCGAAGCAATGTATGCCCAACACTCAT
* *
27595850 TAGGACG
65 CAGAACG
27595857 TTCAAAGTA
1 TTCAAAGTA
27595866 TCCCTATATA
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
70 2 0.03
71 60 0.94
72 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (71 bp):
TTCAAAGTAATATGCGCCCAACGCTCATCGATAGAAACCGAAGCAATGTATGCCCAACACTCATC
AGAACG
Found at i:27599680 original size:40 final size:40
Alignment explanation
Indices: 27599636--27599713 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
27599626 TGGTTCGATA
27599636 GTAGATCAGAATTCTCATTACCGAGGCGTCACTGTCTATT
1 GTAGATCAGAATTCTCATTACCGAGGCGTCACTGTCTATT
27599676 GTAGATCAGAATTCTCATTACCGAGGCGTCACTGTCTA
1 GTAGATCAGAATTCTCATTACCGAGGCGTCACTGTCTA
27599714 CTCAGATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (40 bp):
GTAGATCAGAATTCTCATTACCGAGGCGTCACTGTCTATT
Found at i:27601633 original size:110 final size:110
Alignment explanation
Indices: 27601440--27601660 Score: 424
Period size: 110 Copynumber: 2.0 Consensus size: 110
27601430 ACAACTTCCA
*
27601440 TGAGTTCAAAAGTACCGAGAAATCGACTGGATAGTGTGATGCTTATCTCCGACGTCGTCCGAATC
1 TGAGTTCAAAAGTACCGAGAAATCGACTAGATAGTGTGATGCTTATCTCCGACGTCGTCCGAATC
27601505 AAGCTAGCTAATGAACCTCTATAATATACAAAGAAATAAACTAAG
66 AAGCTAGCTAATGAACCTCTATAATATACAAAGAAATAAACTAAG
27601550 TGAGTTCAAAAGTACCGAGAAATCGACTAGATAGTGTGATGCTTATCTCCGACGTCGTCCGAATC
1 TGAGTTCAAAAGTACCGAGAAATCGACTAGATAGTGTGATGCTTATCTCCGACGTCGTCCGAATC
*
27601615 GAGCTAGCTAATGAACCTCTATAATATACAAAGAAATAAACTAAG
66 AAGCTAGCTAATGAACCTCTATAATATACAAAGAAATAAACTAAG
27601660 T
1 T
27601661 AAGCATTAAT
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (110 bp):
TGAGTTCAAAAGTACCGAGAAATCGACTAGATAGTGTGATGCTTATCTCCGACGTCGTCCGAATC
AAGCTAGCTAATGAACCTCTATAATATACAAAGAAATAAACTAAG
Found at i:27602672 original size:23 final size:26
Alignment explanation
Indices: 27602618--27602678 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 26
27602608 GAGCCATGAT
27602618 CGGTAAGCTCATTCCGAGCTGAAGAA
1 CGGTAAGCTCATTCCGAGCTGAAGAA
27602644 CGGTAAGCTC-TAT-CGAGCTG-A-AA
1 CGGTAAGCTCAT-TCCGAGCTGAAGAA
27602667 CGGTAAGCTCAT
1 CGGTAAGCTCAT
27602679 AAGAGCTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.36
24 2 0.06
25 8 0.24
26 11 0.33
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (26 bp):
CGGTAAGCTCATTCCGAGCTGAAGAA
Found at i:27602684 original size:23 final size:24
Alignment explanation
Indices: 27602618--27602711 Score: 84
Period size: 26 Copynumber: 3.8 Consensus size: 24
27602608 GAGCCATGAT
*
27602618 CGGTAAGCTCATTCCGAGCTGAAGAA
1 CGGTAAGCTCA-TACGAGCTG-AGAA
27602644 CGGTAAGCTC-TATCGAGCTGA-AA
1 CGGTAAGCTCATA-CGAGCTGAGAA
* *
27602667 CGGTAAGCTCATAAGAGCTGATATA
1 CGGTAAGCTCATACGAGCTGAGA-A
* *
27602692 TCGATAAGCTCATACAAGCT
1 -CGGTAAGCTCATACGAGCT
27602712 ATGGTGAGTC
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
23 19 0.33
24 5 0.09
25 8 0.14
26 26 0.45
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (24 bp):
CGGTAAGCTCATACGAGCTGAGAA
Found at i:27612214 original size:9 final size:9
Alignment explanation
Indices: 27612200--27612224 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27612190 CCGATGTACT
27612200 GTCAGTCCA
1 GTCAGTCCA
27612209 GTCAGTCCA
1 GTCAGTCCA
27612218 GTCAGTC
1 GTCAGTC
27612225 ACATCTATGT
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:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (9 bp):
GTCAGTCCA
Found at i:27614155 original size:15 final size:16
Alignment explanation
Indices: 27614125--27614156 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27614115 TAAGTGTGTT
27614125 AATGTAATATTCTTTA
1 AATGTAATATTCTTTA
27614141 AATGTAATATT-TTTA
1 AATGTAATATTCTTTA
27614156 A
1 A
27614157 TAAATAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
AATGTAATATTCTTTA
Found at i:27614307 original size:22 final size:24
Alignment explanation
Indices: 27614276--27614330 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
27614266 TGAACTATTT
*
27614276 TTTATGTTTTT-CATAAGTT-AAA
1 TTTATATTTTTACATAAGTTAAAA
* *
27614298 TTTATATTTTTACATTATTTAAAA
1 TTTATATTTTTACATAAGTTAAAA
27614322 TTTA-ATTTT
1 TTTATATTTT
27614331 GTTCCAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.36
23 11 0.39
24 7 0.25
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTATATTTTTACATAAGTTAAAA
Found at i:27614778 original size:31 final size:31
Alignment explanation
Indices: 27614740--27614818 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
27614730 ACTACAAAAA
*
27614740 TAGTCACTTTTGTTTG-CTTCAAATTACATTT
1 TAGTCACTTATGTTTGAC-TCAAATTACATTT
**
27614771 TAGTCACTTATGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGACTCAAATTACATTT
*
27614802 TAGTCACTTATATTTGA
1 TAGTCACTTATGTTTGA
27614819 AATGTTACGC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (31 bp):
TAGTCACTTATGTTTGACTCAAATTACATTT
Found at i:27619464 original size:62 final size:62
Alignment explanation
Indices: 27619398--27619595 Score: 161
Period size: 62 Copynumber: 3.1 Consensus size: 62
27619388 TAATATTATT
* * *
27619398 TTAAAAGTTTAATATTAAATTTAATTTAATACTTATCTTAAT-AGTATTTTATTAATTTAATA
1 TTAAAA-TTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATA
* * *
27619460 TTAAAGTGATTATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAACATTCTATT-A
1 TT-AA---A--AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAATATTATATTAA
27619524 TTT--TA
56 TTTAATA
* * * * * *
27619529 ATAAGATTTAATATTATATTTAATATAATATTTATCTTGATAAATATTATATTAATATAATA
1 TTAAAATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATA
27619591 TTAAA
1 TTAAA
27619596 GTAATTAAGT
Statistics
Matches: 106, Mismatches: 16, Indels: 28
0.71 0.11 0.19
Matches are distributed among these distances:
59 12 0.11
60 4 0.04
61 1 0.01
62 33 0.31
63 4 0.04
66 1 0.01
67 1 0.01
68 30 0.28
69 4 0.04
70 2 0.02
71 6 0.06
72 8 0.08
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (62 bp):
TTAAAATTTAATATTAAATTTAATTTAATATTTATCTTAATAAATATTATATTAATTTAATA
Found at i:27619551 original size:12 final size:12
Alignment explanation
Indices: 27619529--27619562 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
27619519 TATTATTTTA
*
27619529 ATAAGATTTAAT
1 ATAATATTTAAT
*
27619541 ATTATATTTAAT
1 ATAATATTTAAT
27619553 ATAATATTTA
1 ATAATATTTA
27619563 TCTTGATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
ATAATATTTAAT
Found at i:27621929 original size:20 final size:21
Alignment explanation
Indices: 27621904--27621956 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
27621894 GATAACATTT
*
27621904 TATTTTGAATTTTTTG-TTTA
1 TATTTTGAATTTTTAGTTTTA
*
27621924 TATTTT-TATTTTTAGTTTTA
1 TATTTTGAATTTTTAGTTTTA
*
27621944 TTTTTTGAATTTT
1 TATTTTGAATTTT
27621957 AAAGTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.74
Consensus pattern (21 bp):
TATTTTGAATTTTTAGTTTTA
Found at i:27621936 original size:19 final size:18
Alignment explanation
Indices: 27621901--27621948 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
27621891 TTAGATAACA
* *
27621901 TTTTATTTTGAATTTTTTG
1 TTTTATTTT-TATTTTTAG
27621920 TTTATATTTTTATTTTTAG
1 TTT-TATTTTTATTTTTAG
27621939 TTTTATTTTT
1 TTTTATTTTT
27621949 TGAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 7 0.27
19 13 0.50
20 6 0.23
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTATTTTTAG
Found at i:27622622 original size:29 final size:29
Alignment explanation
Indices: 27622596--27622651 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
27622586 AAAAGCCATT
27622596 TTTTTTAA-AATTTACCGAAATGGGCCAC
1 TTTTTTAATAATTTACCGAAATGGGCCAC
* *
27622624 TTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTAATAATTTACCGAAATGGGCCA
27622652 ATTCCGCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCAC
Found at i:27622933 original size:24 final size:22
Alignment explanation
Indices: 27622906--27622970 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
27622896 CCCCTTATTT
27622906 TTTCACAAACAAATATTCTCTCAA
1 TTTC-CAAACAAA-ATTCTCTCAA
***
27622930 TTTCCTTCCAAAATTCTCTCAA
1 TTTCCAAACAAAATTCTCTCAA
***
27622952 TTTCCTTCCAAAATTCTCT
1 TTTCCAAACAAAATTCTCT
27622971 TAAACTCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 29 0.76
23 5 0.13
24 4 0.11
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTCCAAACAAAATTCTCTCAA
Found at i:27622948 original size:22 final size:22
Alignment explanation
Indices: 27622915--27622970 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
27622905 TTTTCACAAA
27622915 CAAATATTCTCTCAATTTCCTTC
1 CAAA-ATTCTCTCAATTTCCTTC
27622938 CAAAATTCTCTCAATTTCCTTC
1 CAAAATTCTCTCAATTTCCTTC
27622960 CAAAATTCTCT
1 CAAAATTCTCT
27622971 TAAACTCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
CAAAATTCTCTCAATTTCCTTC
Found at i:27622987 original size:52 final size:54
Alignment explanation
Indices: 27622923--27623023 Score: 170
Period size: 52 Copynumber: 1.9 Consensus size: 54
27622913 AACAAATATT
* *
27622923 CTCTCAATTTCCTTCCAAAATTCTCTCAATTTCCTTC-CAAAAT-TCTCTTAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCACAAAATCTCTCTTAAA
27622975 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCACAAAATCTCTC
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCACAAAATCTCTC
27623024 AAATCCATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 35 0.78
53 6 0.13
54 4 0.09
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.38
Consensus pattern (54 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCACAAAATCTCTCTTAAA
Found at i:27623000 original size:22 final size:22
Alignment explanation
Indices: 27622975--27623027 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
27622965 TTCTCTTAAA
27622975 CTCTCAAATTCCTTC-CAAAAT
1 CTCTCAAATTCCTTCACAAAAT
*
27622996 CCTCTCAATTTCCTTCACAAAAT
1 -CTCTCAAATTCCTTCACAAAAT
27623019 CTCTCAAAT
1 CTCTCAAAT
27623028 CCATATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCACAAAAT
Found at i:27623104 original size:29 final size:29
Alignment explanation
Indices: 27623060--27623116 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
27623050 TTCAATTTCA
27623060 TTTTTTAAAGAAAATTTTAAATATTTTTAT
1 TTTTTTAAAGAAAATTTTAAA-ATTTTTAT
*
27623090 TTTTTTAAA-ATAATTTTAAAATTTTTA
1 TTTTTTAAAGAAAATTTTAAAATTTTTA
27623117 ATACTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 7 0.27
29 10 0.38
30 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTTTAAAGAAAATTTTAAAATTTTTAT
Found at i:27624217 original size:7 final size:7
Alignment explanation
Indices: 27624205--27624229 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27624195 AGTGGATTGA
27624205 TATTTAG
1 TATTTAG
27624212 TATTTAG
1 TATTTAG
27624219 TATTTAG
1 TATTTAG
27624226 TATT
1 TATT
27624230 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:27624822 original size:13 final size:13
Alignment explanation
Indices: 27624800--27624836 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
27624790 CCAACGAGAG
27624800 CACC-GACGCAGT
1 CACCTGACGCAGT
27624812 CACCTGACGCAGT
1 CACCTGACGCAGT
27624825 CACCTGACGCAG
1 CACCTGACGCAG
27624837 CAATTCAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.24, C:0.41, G:0.24, T:0.11
Consensus pattern (13 bp):
CACCTGACGCAGT
Found at i:27625483 original size:29 final size:29
Alignment explanation
Indices: 27625404--27626141 Score: 1047
Period size: 29 Copynumber: 25.6 Consensus size: 29
27625394 TTTTGATATT
*
27625404 ATTTGATTAAAAACCCTAA-CCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
27625432 ATTTAATTAAAAACCC-AAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
27625460 ATTTAATTAAAAACCCCAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
27625489 ATTTAATT-AAAACCCCAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
27625517 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
27625546 ATTTAATTAAAAACCCCAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
27625575 ATTTAATTAAAAACCCCAACCCTAATTTG
1 ATTTAATTAAAAACCCTAACCCTAATTTA
27625604 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
27625633 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* * *
27625662 TTTTAATTAAAAACCCTAACCTTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
27625691 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
27625720 ATTTAATTAAAAACCCTAACCTTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
27625749 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
27625778 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
27625807 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
27625836 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* ***
27625865 ATTTAATTAAAAACTCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
27625894 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
27625923 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
27625952 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
*
27625981 ATTTAATT-AAAACCCTAAACCCTAACTTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
27626010 ATTTGATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
27626039 ATTTAATT-AAAACCCTAAACTCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
***
27626068 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
27626097 TTTTAATTAAAAACCCTAACCCTAAACTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
27626126 ATTTAATTAAAAACCC
1 ATTTAATTAAAAACCC
27626142 ATTTTAATTA
Statistics
Matches: 643, Mismatches: 60, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
27 2 0.00
28 84 0.13
29 541 0.84
30 16 0.02
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAATTTA
Found at i:27629564 original size:125 final size:126
Alignment explanation
Indices: 27629350--27629615 Score: 396
Period size: 125 Copynumber: 2.1 Consensus size: 126
27629340 GTGATTTGAC
* **
27629350 ACTATTTGCTCAG-AAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATTGCG
1 ACTATTTGCTCAGAAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTACCGAAAGCGCG
* * **
27629414 TCCACGAGGGCGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCACCGATTTTAT
66 TCCACGAGGGCACGATTTCACAATTTCTTCT-ATGATAGCATACTGGTAGAACCGATTTTAT
*
27629475 ACTATTTGCTCAGAAAACGTC-AAAAAAAATTATTTCTTACATGACCAACTGTACCGAAAGCGCG
1 ACTATTTGCTCAGAAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTACCGAAAGCGCG
* *
27629539 TCCACGAGGGCACGATTTCACAATTTCTTCTTTGATAGCATACTGGTAGAAGCGATTTTAT
66 TCCACGAGGGCACGATTTCACAATTTCTTCTATGATAGCATACTGGTAGAACCGATTTTAT
27629600 ACTATTTGAC-CAGAAA
1 ACTATTTG-CTCAGAAA
27629616 TGTCAACTCG
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
124 1 0.01
125 119 0.93
126 8 0.06
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (126 bp):
ACTATTTGCTCAGAAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTACCGAAAGCGCG
TCCACGAGGGCACGATTTCACAATTTCTTCTATGATAGCATACTGGTAGAACCGATTTTAT
Found at i:27629674 original size:23 final size:23
Alignment explanation
Indices: 27629645--27629705 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
27629635 TTCCCGGGAC
*
27629645 CCCTAAACCCTAAAAAGGCTGCA
1 CCCTAAACCCTAAAAAGGCTACA
27629668 CCCTAAACCCTAAAAAGGCTACA
1 CCCTAAACCCTAAAAAGGCTACA
27629691 CCCTAAACCCTAAAA
1 CCCTAAACCCTAAAA
27629706 CCCAGAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.43, C:0.36, G:0.08, T:0.13
Consensus pattern (23 bp):
CCCTAAACCCTAAAAAGGCTACA
Found at i:27630976 original size:10 final size:10
Alignment explanation
Indices: 27630946--27630979 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
27630936 GTTTTTTTCA
*
27630946 TTGTTGTTTT
1 TTGTTGTTTG
27630956 TTGTTGCTTTG
1 TTGTTG-TTTG
27630967 TTGTTGTTTG
1 TTGTTGTTTG
27630977 TTG
1 TTG
27630980 ACATTTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.00, C:0.03, G:0.26, T:0.71
Consensus pattern (10 bp):
TTGTTGTTTG
Found at i:27632611 original size:13 final size:12
Alignment explanation
Indices: 27632590--27632619 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
27632580 TATTTTGGAA
27632590 TTTTATTTTTAT
1 TTTTATTTTTAT
27632602 TTTTATTTTTTAT
1 TTTTA-TTTTTAT
27632615 TTTTA
1 TTTTA
27632620 AAGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:27632635 original size:6 final size:6
Alignment explanation
Indices: 27632590--27632619 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
27632580 TATTTTGGAA
27632590 TTTTAT TTTTAT TTTTATT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTA-T TTTTAT TTTTA
27632620 AAGATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:27632670 original size:25 final size:22
Alignment explanation
Indices: 27632642--27632702 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 22
27632632 TTTTTTCATA
27632642 TTTTTATTTTTAAACAAATTATAAT
1 TTTTTATTTTTAAA-AAA--ATAAT
* *
27632667 TTTTATTTTTTTAAAAAAATATT
1 TTTT-TATTTTTAAAAAAATAAT
27632690 TTTTTAATTTTTA
1 TTTTT-ATTTTTA
27632703 TGTTTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 14 0.45
25 7 0.23
26 9 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTATTTTTAAAAAAATAAT
Found at i:27632670 original size:34 final size:32
Alignment explanation
Indices: 27632601--27632677 Score: 84
Period size: 34 Copynumber: 2.4 Consensus size: 32
27632591 TTTATTTTTA
* ** * *
27632601 TTTTTATTTTTTATTTTTAAAGATTTTTTATT
1 TTTTTATTTTTTATTTTTAAACAAATTATAAT
27632633 TTTTTCATATTTTTATTTTTAAACAAATTATAA-
1 TTTTT-AT-TTTTTATTTTTAAACAAATTATAAT
27632666 TTTTTATTTTTT
1 TTTTTATTTTTT
27632678 TAAAAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 5 0.13
32 7 0.18
33 7 0.18
34 19 0.50
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (32 bp):
TTTTTATTTTTTATTTTTAAACAAATTATAAT
Found at i:27634275 original size:18 final size:18
Alignment explanation
Indices: 27634224--27634296 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 18
27634214 TTAGAATTTT
*
27634224 TTTTGAAATTTTTAT-AA
1 TTTTGAAATATTTATAAA
* * *
27634241 -TTTAAAAAATATATAAA
1 TTTTGAAATATTTATAAA
27634258 TTTTGAAATATTTATAAA
1 TTTTGAAATATTTATAAA
* * *
27634276 TATTTTAAATTTTTAAAAA
1 T-TTTGAAATATTTATAAA
27634295 TT
1 TT
27634297 ATTTTGTAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
16 10 0.23
17 2 0.05
18 16 0.37
19 15 0.35
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTTGAAATATTTATAAA
Found at i:27634280 original size:20 final size:21
Alignment explanation
Indices: 27634257--27634302 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
27634247 AAATATATAA
*
27634257 ATTTTGAAATATTTATAAA-T
1 ATTTTGAAATATTTAAAAATT
*
27634277 ATTTT-AAATTTTTAAAAATT
1 ATTTTGAAATATTTAAAAATT
27634297 ATTTTG
1 ATTTTG
27634303 TAATTTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
ATTTTGAAATATTTAAAAATT
Found at i:27645645 original size:116 final size:116
Alignment explanation
Indices: 27645482--27645732 Score: 421
Period size: 116 Copynumber: 2.2 Consensus size: 116
27645472 AGCCTAAACA
* * *
27645482 CCTCAAGCCCTAAGGCTTCTTGTCGTGTATTCTTGAAAGCTAATACTTCATATTTAAAGGGAGTT
1 CCTCAAGCCCCAAGGCTCCTTGTCGTGTATTCTTGAAAGCCAATACTTCATATTTAAAGGGAGTT
*
27645547 CAATTAGTTAAGGAAAACTATAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
66 CAAGTAGTTAAGGAAAACTATAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
* * *
27645598 TCTCAAGCCCCAAGGCTCCTTGTCGTGTATTCTTGAAAGCCAGTACTTCATATTTAAGGGGAGTT
1 CCTCAAGCCCCAAGGCTCCTTGTCGTGTATTCTTGAAAGCCAATACTTCATATTTAAAGGGAGTT
*
27645663 CAAGTAGTTAAGGAAAACTGTAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
66 CAAGTAGTTAAGGAAAACTATAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
27645714 CCTCAAGCCCTCAAGGCTC
1 CCTCAAGCCC-CAAGGCTC
27645733 TTCATCAACA
Statistics
Matches: 125, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
116 117 0.94
117 8 0.06
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (116 bp):
CCTCAAGCCCCAAGGCTCCTTGTCGTGTATTCTTGAAAGCCAATACTTCATATTTAAAGGGAGTT
CAAGTAGTTAAGGAAAACTATAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
Found at i:27646097 original size:36 final size:36
Alignment explanation
Indices: 27646056--27646127 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
27646046 CGAAAGTAAT
27646056 CAAATTGATTGAAAGGCTAATATGCCATCTATCAAG
1 CAAATTGATTGAAAGGCTAATATGCCATCTATCAAG
* *
27646092 CAAATTGATTGAAAGGCTAATATGCCGTTTATCAAG
1 CAAATTGATTGAAAGGCTAATATGCCATCTATCAAG
27646128 TCTAGAGGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (36 bp):
CAAATTGATTGAAAGGCTAATATGCCATCTATCAAG
Found at i:27650617 original size:17 final size:17
Alignment explanation
Indices: 27650597--27650634 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
27650587 AAAAGAGTCT
27650597 GCCAAGCCCTAGAGTTC
1 GCCAAGCCCTAGAGTTC
* *
27650614 GCC-AGCCTTAGAGTTT
1 GCCAAGCCCTAGAGTTC
27650630 GCCAA
1 GCCAA
27650635 ATGGTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (17 bp):
GCCAAGCCCTAGAGTTC
Found at i:27671744 original size:6 final size:6
Alignment explanation
Indices: 27671735--27671786 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
27671725 TATTTATATT
27671735 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
27671783 TTAA
1 TTAA
27671787 TATTGATTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TTAAAA
Found at i:27673180 original size:18 final size:20
Alignment explanation
Indices: 27673129--27673184 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
27673119 TTACACCACT
27673129 TTGTGGATAAACCACTTATCA
1 TTGTGGATAAACCAC-TATCA
** *
27673150 TTGTGGACGAACCACT-T-G
1 TTGTGGATAAACCACTATCA
27673168 TTGTGGATAAACCACTA
1 TTGTGGATAAACCACTA
27673185 GCAATAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 14 0.48
19 1 0.03
20 1 0.03
21 13 0.45
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
TTGTGGATAAACCACTATCA
Found at i:27676866 original size:22 final size:22
Alignment explanation
Indices: 27676835--27676886 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
27676825 TTAATAAATC
*
27676835 TATTAAAAAAAGAATTAACATTT
1 TATTAGAAAAA-AATTAACATTT
* *
27676858 T-TTAGAAAAAAATTGATATTT
1 TATTAGAAAAAAATTAACATTT
27676879 TATTAGAA
1 TATTAGAA
27676887 TTTCTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 10 0.40
22 14 0.56
23 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
TATTAGAAAAAAATTAACATTT
Found at i:27684481 original size:16 final size:17
Alignment explanation
Indices: 27684458--27684491 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27684448 AAAAGAAAGA
27684458 CAAAAAAATAACATTTT
1 CAAAAAAATAACATTTT
27684475 CAAAAAAATAACATTTT
1 CAAAAAAATAACATTTT
27684492 GTAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (17 bp):
CAAAAAAATAACATTTT
Found at i:27689343 original size:51 final size:50
Alignment explanation
Indices: 27689264--27689398 Score: 198
Period size: 50 Copynumber: 2.7 Consensus size: 50
27689254 GATAATAACA
* **
27689264 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCGG
* * * *
27689315 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
27689365 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
27689399 TGGCCAACGC
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 41 0.55
51 34 0.45
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:27689414 original size:35 final size:35
Alignment explanation
Indices: 27689366--27689433 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
27689356 TCATCTCGGT
*
27689366 GCCAACGCCATGTCCCAGACATGGTCTTACATGTG
1 GCCAACGCCATGTCCCAAACATGGTCTTACATGTG
*
27689401 GCCAACGCTATGTCCCAAACATGGTCTTACATG
1 GCCAACGCCATGTCCCAAACATGGTCTTACATG
27689434 GGACCTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.24
Consensus pattern (35 bp):
GCCAACGCCATGTCCCAAACATGGTCTTACATGTG
Found at i:27689809 original size:30 final size:30
Alignment explanation
Indices: 27689775--27689832 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
27689765 CCTCAACTCT
27689775 AACTTTGGA-AAAATTACAATTTTGCCCCTA
1 AACTTT-GACAAAATTACAATTTTGCCCCTA
* * *
27689805 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
27689833 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:27697038 original size:44 final size:44
Alignment explanation
Indices: 27696990--27697136 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
27696980 GAGCAAGATA
*
27696990 AAACTACAAATCCTATACCCTTGAAGTTACAGTGGGTTGGAATG
1 AAACTACAAATCCTATACCCTTGAAGTTGCAGTGGGTTGGAATG
* * ***
27697034 AAACTACATTGGTGAATCTTATCTCCCTT-AAGTTGCAGTGGAGCAAG-ATG
1 AAACTACA------AATCCTAT-ACCCTTGAAGTTGCAGTGG-GTTGGAATG
* * * *
27697084 AAGCTACAAATCCTATACCCTTGAAGTTGCAATAGGTTGGAATA
1 AAACTACAAATCCTATACCCTTGAAGTTGCAGTGGGTTGGAATG
27697128 AAACTACAA
1 AAACTACAA
27697137 CGAAAAATCT
Statistics
Matches: 77, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
43 7 0.09
44 35 0.45
50 28 0.36
51 7 0.09
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (44 bp):
AAACTACAAATCCTATACCCTTGAAGTTGCAGTGGGTTGGAATG
Found at i:27697054 original size:94 final size:93
Alignment explanation
Indices: 27696919--27697546 Score: 575
Period size: 94 Copynumber: 6.8 Consensus size: 93
27696909 AATCCCCCTA
* ** * *
27696919 AAGTTGTAGTGGGTCAGAAT-AAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAG
1 AAGTTGCAGTGGGTTGGAATGAAA-CTA-CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAG
* *
27696983 CAAGATAAAACTACAAATCCTATACCCTTG
64 CAAGATGAAGCTACAAATCCTATACCCTTG
* * *
27697013 AAGTTACAGTGGGTTGGAATGAAACTACATTGGTGAATCTTATCTCCCTTAAGTTGCAGTGGAGC
1 AAGTTGCAGTGGGTTGGAATGAAACTACA-TGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGC
27697078 AAGATGAAGCTACAAATCCTATACCCTTG
65 AAGATGAAGCTACAAATCCTATACCCTTG
* * * * *** * * *
27697107 AAGTTGCAATAGGTTGGAATAAAACTACAACGAAAAATCTTATCTCCTTGAAGATACAGTGGAGC
1 AAGTTGCAGTGGGTTGGAATGAAACTAC-ATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGC
*
27697172 AAGATGAAGTTACAAA--C--T--CC-TG
65 AAGATGAAGCTACAAATCCTATACCCTTG
* * * * * * *
27697194 AAGTTACAGTGGGTCGGAAT-AAAGCTACCATAGCAAATCTTCTCT-GCTAGAAGTTGTAGTGGA
1 AAGTTGCAGTGGGTTGGAATGAAA-CTA-CATGGCGAATCTTATCTCCCT-GAAGTTGCAGTGGA
* * *
27697257 GCAATATGAAGCTACAAATCCTATACCCCTA
63 GCAAGATGAAGCTACAAATCCTATACCCTTG
* * * * * * * * *
27697288 AAGTTGTAGTAGGTTGAAATGAAGCTACCATAGCGAATCTTATATCTCTGAAGTTGTAATGGAGC
1 AAGTTGCAGTGGGTTGGAATGAAACTA-CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* *
27697353 AAGATGAAGCTACAAATCTTATACCCCTGG
65 AAGATGAAGCTACAAATCCTATA-CCCTTG
* * *
27697383 AA-TTGTAGTGGGTTGGGATGAAACTACAATGGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGC
1 AAGTTGCAGTGGGTTGGAATGAAACTAC-ATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGC
27697447 AAGATGAAGCTACAAATCCTATACTCC-TG
65 AAGATGAAGCTACAAATCCTATAC-CCTTG
* * * * * *
27697476 AAGTTGCAGTGGGTTGGAATGAAAGTACAATAGCAAATATTATCT-CCTAGAAATTGCA--AGAG
1 AAGTTGCAGTGGGTTGGAATGAAACTAC-ATGGCGAATCTTATCTCCCT-GAAGTTGCAGTGGAG
27697538 CAAGATGAA
64 CAAGATGAA
27697547 ACTATGACAT
Statistics
Matches: 438, Mismatches: 76, Indels: 42
0.79 0.14 0.08
Matches are distributed among these distances:
86 4 0.01
87 59 0.13
88 3 0.01
89 1 0.00
90 1 0.00
91 1 0.00
92 13 0.03
93 11 0.03
94 332 0.76
95 13 0.03
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (93 bp):
AAGTTGCAGTGGGTTGGAATGAAACTACATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
AGATGAAGCTACAAATCCTATACCCTTG
Found at i:27697085 original size:50 final size:45
Alignment explanation
Indices: 27696953--27697114 Score: 118
Period size: 44 Copynumber: 3.5 Consensus size: 45
27696943 CTACCATAGC
* *
27696953 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAACTACA
1 GAATCTTATCTCCCTTAAGTTGCAGTGGAGCAAGATGAAACTACA
* * * ***
27696998 -AATCCTAT-ACCCTTGAAGTTACAGTGG-GTTGGAATGAAACTACA
1 GAATCTTATCTCCCTT-AAGTTGCAGTGGAGCAAG-ATGAAACTACA
*
27697042 TTGGTGAATCTTATCTCCCTTAAGTTGCAGTGGAGCAAGATGAAGCTACA
1 -----GAATCTTATCTCCCTTAAGTTGCAGTGGAGCAAGATGAAACTACA
* *
27697092 -AATCCTAT-ACCCTTGAAGTTGCA
1 GAATCTTATCTCCCTT-AAGTTGCA
27697115 ATAGGTTGGA
Statistics
Matches: 89, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
43 11 0.12
44 43 0.48
50 28 0.31
51 7 0.08
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (45 bp):
GAATCTTATCTCCCTTAAGTTGCAGTGGAGCAAGATGAAACTACA
Found at i:27697293 original size:44 final size:43
Alignment explanation
Indices: 27697243--27697487 Score: 138
Period size: 44 Copynumber: 5.3 Consensus size: 43
27697233 TTCTCTGCTA
*
27697243 GAAGTTGTAGTGGAGCAATATGAAGCTACAAATCCTATACCCCT
1 GAAGTTGTAGTGGAGCAA-ATGAAGCTACAAATCTTATACCCCT
* * * *
27697287 AAAGTTGTAGTAGGTTG-AAATGAAGCTACCATAGCGAATCTTATATCTCT
1 GAAGTTGTAGT-GG-AGCAAATGAAGCTA-C--A---AATCTTATACCCCT
*
27697337 GAAGTTGTAATGGAGCAAGATGAAGCTACAAATCTTATACCCCT
1 GAAGTTGTAGTGGAGCAA-ATGAAGCTACAAATCTTATACCCCT
*** * *
27697381 GGAA-TTGTAGTGG-GTTGGGATGAAACTACAATGGCGAATCTTAT-CTCCTT
1 -GAAGTTGTAGTGGAG--CAAATGAAGCTAC-A-----AATCTTATAC-CCCT
* * *
27697431 GAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACTCCT
1 GAAGTTGTAGTGGAGCAA-ATGAAGCTACAAATCTTATACCCCT
*
27697475 GAAGTTGCAGTGG
1 GAAGTTGTAGTGG
27697488 GTTGGAATGA
Statistics
Matches: 153, Mismatches: 24, Indels: 48
0.68 0.11 0.21
Matches are distributed among these distances:
43 1 0.01
44 70 0.46
45 10 0.07
46 1 0.01
47 2 0.01
48 1 0.01
49 10 0.07
50 57 0.37
51 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
GAAGTTGTAGTGGAGCAAATGAAGCTACAAATCTTATACCCCT
Found at i:27697423 original size:275 final size:274
Alignment explanation
Indices: 27696926--27697466 Score: 701
Period size: 275 Copynumber: 2.0 Consensus size: 274
27696916 CTAAAGTTGT
*
27696926 AGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAA
1 AGTGGGTCAGAATAAAGCTACCATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAA
* * * * * *
27696991 AACTACAAATCCTATACCCTTGAAGTTACAGTGGGTTGGAATGAAACTACATTGGTGAATCTTAT
66 AACTACAAATCCTATACCCCTAAAGTTACAGTAGGTTGAAATGAAACTACATTAGCGAATCTTAT
* * * *
27697056 CTCCCTTAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCTTGAAGTTGCAATAGGT
131 ATCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCTGGAAGTTGCAATAGGT
*
27697121 TGGAATAAAACTACAACGAAAAATCTTATCTCCTTGAAGATACAGTGGAGCAAGATGAAGTTACA
196 TGGAATAAAACTACAACGAAAAATCTTATCTCCTTGAAGATACAGTGGAGCAAGATGAAGCTACA
27697186 AACTCCTGAAGTTAC
261 AA-TCCTGAAGTTAC
* * * * * *
27697201 AGTGGGTCGGAATAAAGCTACCATAGCAAATCTTCTCT-GCTAGAAGTTGTAGTGGAGCAATATG
1 AGTGGGTCAGAATAAAGCTACCATAGCAAATCTTATCTCCCTA-AAGTTGCAGTGGAGCAAGATA
* ** *
27697265 AAGCTACAAATCCTATACCCCTAAAGTTGTAGTAGGTTGAAATGAAGCTACCA-TAGCGAATCTT
65 AAACTACAAATCCTATACCCCTAAAGTTACAGTAGGTTGAAATGAAACTA-CATTAGCGAATCTT
* * * * * *
27697329 ATATCTCTGAAGTTGTAATGGAGCAAGATGAAGCTACAAATCTTATACCCCTGGAA-TTGTAGTG
129 ATATCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATA-CCCTGGAAGTTGCAATA
* * * *** * *
27697393 GGTTGGGATGAAACTACAATGGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCT
193 GGTTGGAATAAAACTACAACGAAAAATCTTATCTCCTTGAAGATACAGTGGAGCAAGATGAAGCT
27697458 ACAAATCCT
258 ACAAATCCT
27697467 ATACTCCTGA
Statistics
Matches: 227, Mismatches: 36, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
274 7 0.03
275 211 0.93
276 9 0.04
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (274 bp):
AGTGGGTCAGAATAAAGCTACCATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAA
AACTACAAATCCTATACCCCTAAAGTTACAGTAGGTTGAAATGAAACTACATTAGCGAATCTTAT
ATCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCTGGAAGTTGCAATAGGT
TGGAATAAAACTACAACGAAAAATCTTATCTCCTTGAAGATACAGTGGAGCAAGATGAAGCTACA
AATCCTGAAGTTAC
Found at i:27699218 original size:9 final size:9
Alignment explanation
Indices: 27699204--27699238 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
27699194 TTAAATGTTG
27699204 ATACTATTA
1 ATACTATTA
27699213 ATACTATTA
1 ATACTATTA
27699222 ATACTATTA
1 ATACTATTA
*
27699231 GTACTATT
1 ATACTATT
27699239 TTATTTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (9 bp):
ATACTATTA
Found at i:27699365 original size:28 final size:26
Alignment explanation
Indices: 27699324--27699395 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 26
27699314 TATTAATTGA
27699324 ATTATTATTA-TTTCTTATTGTTATATTC
1 ATTA-TATTATTTTCTTATT-TTAT-TTC
27699352 ATTATATTATTTTC--ATTTTATTTC
1 ATTATATTATTTTCTTATTTTATTTC
* *
27699376 ATTAT-TTATGTTGTTATTTT
1 ATTATATTATTTTCTTATTTT
27699396 GTTAATGTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 6 0.15
24 8 0.21
25 9 0.23
26 3 0.08
27 5 0.13
28 8 0.21
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (26 bp):
ATTATATTATTTTCTTATTTTATTTC
Found at i:27699376 original size:24 final size:27
Alignment explanation
Indices: 27699324--27699384 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 27
27699314 TATTAATTGA
*
27699324 ATTATTATTATTTCTTATTGTTATATTC
1 ATTA-TATTATTTCTCATTGTTATATTC
27699352 ATTATATTATTT-TCATT-TTAT-TTC
1 ATTATATTATTTCTCATTGTTATATTC
27699376 ATTAT-TTAT
1 ATTATATTAT
27699385 GTTGTTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 4 0.12
24 8 0.25
25 4 0.12
26 4 0.12
27 8 0.25
28 4 0.12
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTATATTATTTCTCATTGTTATATTC
Found at i:27703685 original size:25 final size:25
Alignment explanation
Indices: 27703657--27703705 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
27703647 TATGAACAGT
*
27703657 TATGGTATTAATGCTATTTA-AATTG
1 TATGGTATT-ATGCTACTTATAATTG
*
27703682 TATGTTATTATGCTACTTATAATT
1 TATGGTATTATGCTACTTATAATT
27703706 TTAATTGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (25 bp):
TATGGTATTATGCTACTTATAATTG
Done.