Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 122 of 144
Found at i:37956635 original size:39 final size:40
Alignment explanation
Indices: 37956592--37956688 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 40
37956582 TGGGCTTAGG
*
37956592 TTTTTTGCGGCGCTTTTTGAAAAA-CGCCGCTAATGCTT-A
1 TTTTTAGCGGCG-TTTTTGAAAAAGCGCCGCTAATGCTTGA
37956631 TTTTTAGCGGCGTTTTCT-AAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCTTGA
*
37956671 TTTTTAGTGGCGTTTTTG
1 TTTTTAGCGGCGTTTTTG
37956689 TCCAAACGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
38 9 0.17
39 27 0.52
40 16 0.31
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.41
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTTGA
Found at i:37964193 original size:30 final size:30
Alignment explanation
Indices: 37964157--37964244 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
37964147 GATACTAATC
*
37964157 ATAATAATAAGAATAATAAAATAATAAACA
1 ATAATAAAAAGAATAATAAAATAATAAACA
* *
37964187 ATAATAAAAAAGAA-AGAAAAAATAAT-AAGA
1 ATAAT-AAAAAGAATA-ATAAAATAATAAACA
* *
37964217 ATAATAAAAATAATAGTAAAAATAATAA
1 ATAATAAAAAGAATAAT-AAAATAATAA
37964245 TAGAAATAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
29 7 0.15
30 23 0.49
31 17 0.36
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (30 bp):
ATAATAAAAAGAATAATAAAATAATAAACA
Found at i:37964231 original size:21 final size:20
Alignment explanation
Indices: 37964157--37964244 Score: 83
Period size: 20 Copynumber: 4.3 Consensus size: 20
37964147 GATACTAATC
* *
37964157 ATAATAATAAGAATAATAAA
1 ATAATAAAAATAATAATAAA
37964177 ATAATAAACAATAATAA-AAA
1 ATAATAAA-AATAATAATAAA
*
37964197 AGAA-AGAAAA-AATAATAAGA
1 ATAATA-AAAATAATAATAA-A
*
37964217 ATAATAAAAATAATAGTAAAA
1 ATAATAAAAATAATAAT-AAA
37964238 ATAATAA
1 ATAATAA
37964245 TAGAAATAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
18 5 0.09
19 5 0.09
20 23 0.41
21 21 0.38
22 2 0.04
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (20 bp):
ATAATAAAAATAATAATAAA
Found at i:37964251 original size:12 final size:12
Alignment explanation
Indices: 37964152--37964253 Score: 62
Period size: 12 Copynumber: 8.2 Consensus size: 12
37964142 AAATTGATAC
* *
37964152 TAATCATAATAA
1 TAATAATAAAAA
* *
37964164 TAAGAATAATAA
1 TAATAATAAAAA
37964176 -AATAATAAACAA
1 TAATAATAAA-AA
*
37964188 TAATAAAAAAGAAA
1 TAAT-AATAA-AAA
* * *
37964202 GAAAAAATAATAA
1 -TAATAATAAAAA
*
37964215 GAATAATAAAAA
1 TAATAATAAAAA
*
37964227 TAATAGTAAAAA
1 TAATAATAAAAA
*
37964239 TAATAATAGAAA
1 TAATAATAAAAA
37964251 TAA
1 TAA
37964254 ACAATAATAA
Statistics
Matches: 69, Mismatches: 16, Indels: 10
0.73 0.17 0.11
Matches are distributed among these distances:
11 7 0.10
12 44 0.64
13 5 0.07
14 10 0.14
15 3 0.04
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.22
Consensus pattern (12 bp):
TAATAATAAAAA
Found at i:37964263 original size:3 final size:3
Alignment explanation
Indices: 37964152--37964246 Score: 56
Period size: 3 Copynumber: 32.7 Consensus size: 3
37964142 AAATTGATAC
* * *
37964152 TAA TCA TAA TAA TAA GAA TAA TAA -AA TAA TAAA CAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * * * * *
37964196 -AA GAA -AGA -AA AAA TAA TAA GAA TAA TAA AAA TAA TAG TAA AAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37964239 TAA TAA TA
1 TAA TAA TA
37964247 GAAATAAACA
Statistics
Matches: 72, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
2 8 0.11
3 62 0.86
4 2 0.03
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (3 bp):
TAA
Found at i:37969784 original size:27 final size:27
Alignment explanation
Indices: 37969754--37969993 Score: 237
Period size: 27 Copynumber: 8.8 Consensus size: 27
37969744 TTCACCCTAT
* * *
37969754 GGGGGCATTTTGGTAATTTTACCCTTC
1 GGGGGTATTTCGGTAATTTTACCCATC
* *
37969781 GGGGGGTATTTCAGTAATTTAACCCATC
1 -GGGGGTATTTCGGTAATTTTACCCATC
** * *
37969809 GAAGATATTTCGGTAATTTTACCCTTC
1 GGGGGTATTTCGGTAATTTTACCCATC
*
37969836 AGGGGGTATTTCAGTAATTTTACCCATC
1 -GGGGGTATTTCGGTAATTTTACCCATC
* * *
37969864 GAGGCTATTTTGGTAATTTTACCCATC
1 GGGGGTATTTCGGTAATTTTACCCATC
* ** * *
37969891 GAGGGTATTTCAATACTTTTACCCTTC
1 GGGGGTATTTCGGTAATTTTACCCATC
*
37969918 GGGGGTATTTCGATAATTTTACCCATC
1 GGGGGTATTTCGGTAATTTTACCCATC
* * *
37969945 GAGGGTATTTTGGTAATTTTACCCTTC
1 GGGGGTATTTCGGTAATTTTACCCATC
** *
37969972 AAGGGTATTTCGGTAATCTTAC
1 GGGGGTATTTCGGTAATTTTAC
37969994 AACCTTTCCA
Statistics
Matches: 174, Mismatches: 37, Indels: 3
0.81 0.17 0.01
Matches are distributed among these distances:
27 130 0.75
28 44 0.25
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGGGTATTTCGGTAATTTTACCCATC
Found at i:37969927 original size:54 final size:55
Alignment explanation
Indices: 37969760--37969993 Score: 265
Period size: 54 Copynumber: 4.3 Consensus size: 55
37969750 CTATGGGGGC
* * * * * * *
37969760 ATTTTGGTAATTTTACCCTTCGGGGGGTATTTCAGTAATTTAACCCATCGAAGAT
1 ATTTCGGTAATTTTACCCATCAGAGGGTATTTCAGTAATTTTACCCATCGAGGGT
* * *
37969815 ATTTCGGTAATTTTACCCTTCAGGGGGTATTTCAGTAATTTTACCCATCGAGGCT
1 ATTTCGGTAATTTTACCCATCAGAGGGTATTTCAGTAATTTTACCCATCGAGGGT
* * * * *
37969870 ATTTTGGTAATTTTACCCATC-GAGGGTATTTCAATACTTTTACCCTTCGGGGGT
1 ATTTCGGTAATTTTACCCATCAGAGGGTATTTCAGTAATTTTACCCATCGAGGGT
* ** * *
37969924 ATTTCGATAATTTTACCCATC-GAGGGTATTTTGGTAATTTTACCCTTCAAGGGT
1 ATTTCGGTAATTTTACCCATCAGAGGGTATTTCAGTAATTTTACCCATCGAGGGT
*
37969978 ATTTCGGTAATCTTAC
1 ATTTCGGTAATTTTAC
37969994 AACCTTTCCA
Statistics
Matches: 156, Mismatches: 23, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
54 87 0.56
55 69 0.44
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (55 bp):
ATTTCGGTAATTTTACCCATCAGAGGGTATTTCAGTAATTTTACCCATCGAGGGT
Found at i:37974867 original size:22 final size:22
Alignment explanation
Indices: 37974839--37974885 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
37974829 GATTGTCAAT
*
37974839 GAATGGTTTTTAAACGGTGGAA
1 GAATGGTTTTTAAACGGTAGAA
*
37974861 GAATGGTTTTTAAATGGTAGAA
1 GAATGGTTTTTAAACGGTAGAA
37974883 GAA
1 GAA
37974886 GGTGCGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (22 bp):
GAATGGTTTTTAAACGGTAGAA
Found at i:37981579 original size:20 final size:20
Alignment explanation
Indices: 37981566--37981603 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
37981556 AAAATAATTT
37981566 ATAAAATATTAAAATAAAGA
1 ATAAAATATTAAAATAAAGA
*
37981586 ATCAAATATTAAAATAAA
1 ATAAAATATTAAAATAAA
37981604 AATGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
ATAAAATATTAAAATAAAGA
Found at i:37994411 original size:37 final size:37
Alignment explanation
Indices: 37994370--37994457 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 37
37994360 GGTGTATTTC
*
37994370 ATGCATACTTTTCATTTGTCAATGATGTTGGAATTCA
1 ATGCATACTTTTCAGTTGTCAATGATGTTGGAATTCA
37994407 ATGCATACTTTTCAGTTGTCAATGATGTTGGAATTCA
1 ATGCATACTTTTCAGTTGTCAATGATGTTGGAATTCA
*
37994444 AT-CATGC-TTTCAGT
1 ATGCATACTTTTCAGT
37994458 ACATGTTCGG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
35 7 0.14
36 4 0.08
37 38 0.78
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (37 bp):
ATGCATACTTTTCAGTTGTCAATGATGTTGGAATTCA
Found at i:38000467 original size:39 final size:39
Alignment explanation
Indices: 38000371--38000471 Score: 105
Period size: 45 Copynumber: 2.4 Consensus size: 39
38000361 TAATTAGTAA
* *
38000371 CGGTAGCAGTAATAGTATTCAACACACAAAGTGCTCAAT
1 CGGTAACAGTAACAGTATTCAACACACAAAGTGCTCAAT
*
38000410 CTGTAGCAATAACGGTAACAGTATTCAACACACAAAGTG-TCGAAT
1 C-G--G---TAACAGTAACAGTATTCAACACACAAAGTGCTC-AAT
38000455 CGGTAACAGTAACAGTA
1 CGGTAACAGTAACAGTA
38000472 GTCGGCATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
39 14 0.27
40 1 0.02
42 2 0.04
44 3 0.06
45 31 0.61
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (39 bp):
CGGTAACAGTAACAGTATTCAACACACAAAGTGCTCAAT
Found at i:38000725 original size:23 final size:22
Alignment explanation
Indices: 38000699--38000758 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
38000689 CAATGCAGTA
38000699 CACAAAACAATATTCAGTAACTT
1 CACAAAACAATATTCAGTAAC-T
**
38000722 CACAATTC-A-ATTCAGT-ACT
1 CACAAAACAATATTCAGTAACT
38000741 CA-AAAACAATATTCAGTA
1 CACAAAACAATATTCAGTA
38000759 TTCCATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
18 3 0.10
19 4 0.13
20 9 0.30
21 7 0.23
22 1 0.03
23 6 0.20
ACGTcount: A:0.47, C:0.22, G:0.05, T:0.27
Consensus pattern (22 bp):
CACAAAACAATATTCAGTAACT
Found at i:38000731 original size:40 final size:41
Alignment explanation
Indices: 38000674--38000758 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 41
38000664 TCATTACTTT
*
38000674 AGTAATTTCAAAGTTCAATGCAGTACAC-AAAACAATATTC
1 AGTAACTTCAAAGTTCAATGCAGTACACAAAAACAATATTC
* *
38000714 AGTAACTTCACAA-TTCAATTCAGTACTCAAAAACAATATTC
1 AGTAACTTCA-AAGTTCAATGCAGTACACAAAAACAATATTC
38000755 AGTA
1 AGTA
38000759 TTCCATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
40 22 0.55
41 18 0.45
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (41 bp):
AGTAACTTCAAAGTTCAATGCAGTACACAAAAACAATATTC
Found at i:38004285 original size:66 final size:66
Alignment explanation
Indices: 38004174--38004302 Score: 240
Period size: 66 Copynumber: 2.0 Consensus size: 66
38004164 ACAATACATT
* *
38004174 GATTAATGTAATAAATGTTGTATTAAAAAGTTTGTACTAAGAACTTAAAGCTTAAGTTTATTAAA
1 GATTAATGTAATAAATGTTGTATTAAAAAGTTTCTACTAACAACTTAAAGCTTAAGTTTATTAAA
38004239 A
66 A
38004240 GATTAATGTAATAAATGTTGTATTAAAAAGTTTCTACTAACAACTTAAAGCTTAAGTTTATTA
1 GATTAATGTAATAAATGTTGTATTAAAAAGTTTCTACTAACAACTTAAAGCTTAAGTTTATTA
38004303 GAAACAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (66 bp):
GATTAATGTAATAAATGTTGTATTAAAAAGTTTCTACTAACAACTTAAAGCTTAAGTTTATTAAA
A
Found at i:38010791 original size:16 final size:16
Alignment explanation
Indices: 38010770--38010800 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38010760 ATTTATAGGC
38010770 ATAAGAAGTATAAATG
1 ATAAGAAGTATAAATG
38010786 ATAAGAAGTATAAAT
1 ATAAGAAGTATAAAT
38010801 AAAGTAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26
Consensus pattern (16 bp):
ATAAGAAGTATAAATG
Found at i:38011234 original size:20 final size:21
Alignment explanation
Indices: 38011199--38011237 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
38011189 TTCTGCTTCT
*
38011199 TTTTCTTTCTTTTTATTTTTC
1 TTTTCTTTCCTTTTATTTTTC
38011220 TTTTC-TTCCTTTTATTTT
1 TTTTCTTTCCTTTTATTTT
38011238 ACTTCTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCCTTTTATTTTTC
Found at i:38031061 original size:3 final size:3
Alignment explanation
Indices: 38031053--38031082 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
38031043 ACCTTGAACC
*
38031053 CAT CAT CAT CAT CAT CAT CAC CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
38031083 AGTGATTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:38036645 original size:65 final size:65
Alignment explanation
Indices: 38036541--38036679 Score: 242
Period size: 65 Copynumber: 2.1 Consensus size: 65
38036531 ATGGACAAAT
*
38036541 ATCGACATCCTAGTCCTACACCATTCGATTTCTACATCTCTGGCAAGAACTGATTGTGATTCTTG
1 ATCGACATCCTAGTCCTACACCATTCGATTTCTACATCTCTGGCAAGAACTGATAGTGATTCTTG
* *
38036606 ATCGACATCCTATTCCTACATCATTCGATTTCTACATCTCTGGCAAGAACTGATAGTGATTCTTG
1 ATCGACATCCTAGTCCTACACCATTCGATTTCTACATCTCTGGCAAGAACTGATAGTGATTCTTG
38036671 ATCAGACAT
1 ATC-GACAT
38036680 GTTATGGCTT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
65 65 0.93
66 5 0.07
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (65 bp):
ATCGACATCCTAGTCCTACACCATTCGATTTCTACATCTCTGGCAAGAACTGATAGTGATTCTTG
Found at i:38044302 original size:22 final size:23
Alignment explanation
Indices: 38044277--38044320 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
38044267 TTTAAGGGTT
38044277 TGAAAAAATC-ATCAAACTTTTC
1 TGAAAAAATCAATCAAACTTTTC
* *
38044299 TGAAGAAATCAATTAAACTTTT
1 TGAAAAAATCAATCAAACTTTT
38044321 ACCTTTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (23 bp):
TGAAAAAATCAATCAAACTTTTC
Found at i:38045624 original size:17 final size:17
Alignment explanation
Indices: 38045602--38045636 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
38045592 CATTGCTACC
38045602 TAAGTCAAAAGAAATCA
1 TAAGTCAAAAGAAATCA
*
38045619 TAAGTCACAAGAAATCA
1 TAAGTCAAAAGAAATCA
38045636 T
1 T
38045637 GATTCAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.20
Consensus pattern (17 bp):
TAAGTCAAAAGAAATCA
Found at i:38054020 original size:15 final size:15
Alignment explanation
Indices: 38053985--38054036 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38053975 TTAAGAATTT
*
38053985 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38053999 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38054013 TATTTAATAATAAT-
1 TATTTAATTATAATA
38054027 TATGTTAATT
1 TAT-TTAATT
38054037 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:38054070 original size:120 final size:120
Alignment explanation
Indices: 38053923--38054152 Score: 433
Period size: 120 Copynumber: 1.9 Consensus size: 120
38053913 TTTGAGTAAA
38053923 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
*
38053988 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATT
*
38054043 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
*
38054108 TAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTT
66 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
38054153 TAAATATGAT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 107 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:38054118 original size:61 final size:61
Alignment explanation
Indices: 38053933--38054120 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
38053923 TTATAGTATC
*
38053933 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
38053994 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
38054053 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
38054114 ATATATT
1 ATATATT
38054121 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 25 0.26
61 36 0.38
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:38054129 original size:18 final size:18
Alignment explanation
Indices: 38054101--38054149 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
38054091 ATTATTAAGA
38054101 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
38054118 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
38054134 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
38054150 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:38054135 original size:16 final size:16
Alignment explanation
Indices: 38054101--38054155 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
38054091 ATTATTAAGA
38054101 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
38054118 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
38054134 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
38054148 ATGTTTAA
1 AT-TTTAA
38054156 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:38054365 original size:44 final size:45
Alignment explanation
Indices: 38054300--38054390 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
38054290 ACCTCTATTC
* * *
38054300 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
38054344 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
38054389 CA
1 CA
38054391 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:38054392 original size:16 final size:16
Alignment explanation
Indices: 38054371--38054439 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
38054361 GATTAGCTAT
38054371 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38054387 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
38054404 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38054420 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38054436 TACA
1 TACA
38054440 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:38054413 original size:33 final size:32
Alignment explanation
Indices: 38054371--38054439 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
38054361 GATTAGCTAT
38054371 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
38054404 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
38054436 TACA
1 TACA
38054440 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:38056182 original size:29 final size:30
Alignment explanation
Indices: 38056143--38056209 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
38056133 CGGGCAAGTG
* * **
38056143 ACACGGGCGTGTGTCAGGTCGTGTGG-GAC
1 ACACAGGCGTGTGCCAGACCGTGTGGAGAC
*
38056172 ACACAGGCGTGTGCCAGACCGTGTGGAGTC
1 ACACAGGCGTGTGCCAGACCGTGTGGAGAC
38056202 ACACAGGC
1 ACACAGGC
38056210 CAGTTCTCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.19, C:0.25, G:0.39, T:0.16
Consensus pattern (30 bp):
ACACAGGCGTGTGCCAGACCGTGTGGAGAC
Found at i:38057111 original size:20 final size:20
Alignment explanation
Indices: 38057073--38057112 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38057063 TTCTACTCTA
*
38057073 CTCTGCTCTATTCAGTTCTG
1 CTCTGCTCTATCCAGTTCTG
38057093 CTCTGCTCTATACCA-TTCTG
1 CTCTGCTCTAT-CCAGTTCTG
38057113 TTTTGTTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.12, C:0.33, G:0.12, T:0.42
Consensus pattern (20 bp):
CTCTGCTCTATCCAGTTCTG
Found at i:38057137 original size:19 final size:20
Alignment explanation
Indices: 38057113--38057157 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
38057103 TACCATTCTG
38057113 TTTTGTTCTG-TTTAGTTTA
1 TTTTGTTCTGCTTTAGTTTA
* *
38057132 TTTTGTTCTGCTTTATTTTG
1 TTTTGTTCTGCTTTAGTTTA
38057152 TTTTGT
1 TTTTGT
38057158 GTTGTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.07, C:0.07, G:0.16, T:0.71
Consensus pattern (20 bp):
TTTTGTTCTGCTTTAGTTTA
Found at i:38057839 original size:17 final size:17
Alignment explanation
Indices: 38057817--38057857 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
38057807 TATTTTGTGA
38057817 ATTATTTTTTAAAAACT
1 ATTATTTTTTAAAAACT
* *
38057834 ATTATTTTTTAAATATT
1 ATTATTTTTTAAAAACT
38057851 ATTATTT
1 ATTATTT
38057858 AAATACGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATTTTTTAAAAACT
Found at i:38057850 original size:14 final size:14
Alignment explanation
Indices: 38057817--38057862 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
38057807 TATTTTGTGA
38057817 ATTATTTTTTAAAAACT
1 ATTATTTTTT--AAA-T
38057834 ATTATTTTTTAAAT
1 ATTATTTTTTAAAT
*
38057848 ATTATTATTTAAAT
1 ATTATTTTTTAAAT
38057862 A
1 A
38057863 CGAATTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 15 0.54
15 3 0.11
17 10 0.36
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTATTTTTTAAAT
Found at i:38058299 original size:44 final size:43
Alignment explanation
Indices: 38058240--38058328 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
38058230 GTTGAAATAA
* * *
38058240 AATAGAAATTTTGATAATTATACATTTAAAAATAATTATAATTT
1 AATAGAAATTGTGATAATTACACATTT-AAAATAATTAGAATTT
*
38058284 AATAGAAGTTGTGATAATTACACATTTAAAATAATTAGAATTT
1 AATAGAAATTGTGATAATTACACATTTAAAATAATTAGAATTT
38058327 AA
1 AA
38058329 GTTACAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 17 0.41
44 24 0.59
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (43 bp):
AATAGAAATTGTGATAATTACACATTTAAAATAATTAGAATTT
Found at i:38059066 original size:8 final size:9
Alignment explanation
Indices: 38059039--38059067 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
38059029 ATATATTATT
38059039 AATTAATAA
1 AATTAATAA
38059048 AATTAATAA
1 AATTAATAA
38059057 AATT-ATAA
1 AATTAATAA
38059065 AAT
1 AAT
38059068 CATTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AATTAATAA
Found at i:38068348 original size:34 final size:34
Alignment explanation
Indices: 38068310--38068395 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
38068300 TTACAGTGTT
*
38068310 ATTTGATGTGCTAGATGGATTAGCTCATACGAGC
1 ATTTGGTGTGCTAGATGGATTAGCTCATACGAGC
**
38068344 ATTTGGTGTGC-AGGATGGATTAGCTTGTACGAGC
1 ATTTGGTGTGCTA-GATGGATTAGCTCATACGAGC
* *
38068378 ATCTGGTGTGCTGGATGG
1 ATTTGGTGTGCTAGATGG
38068396 TTAACTGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
33 1 0.02
34 44 0.98
ACGTcount: A:0.21, C:0.13, G:0.34, T:0.33
Consensus pattern (34 bp):
ATTTGGTGTGCTAGATGGATTAGCTCATACGAGC
Found at i:38068407 original size:34 final size:34
Alignment explanation
Indices: 38068323--38068407 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
38068313 TGATGTGCTA
* ** *
38068323 GATGGATTAGCTCATACGAGCATTTGGTGTGCAG
1 GATGGATTAACTTGTACGAGCATCTGGTGTGCAG
* *
38068357 GATGGATTAGCTTGTACGAGCATCTGGTGTGCTG
1 GATGGATTAACTTGTACGAGCATCTGGTGTGCAG
38068391 GATGG-TTAACTGTGTAC
1 GATGGATTAACT-TGTAC
38068408 TAGTATCCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
33 5 0.11
34 40 0.89
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.32
Consensus pattern (34 bp):
GATGGATTAACTTGTACGAGCATCTGGTGTGCAG
Found at i:38073018 original size:16 final size:16
Alignment explanation
Indices: 38072989--38073047 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
38072979 GTTATTATTA
38072989 TTATTATTATTTTATG
1 TTATTATTATTTTATG
38073005 TTATATATTA-TTTATG
1 TTAT-TATTATTTTATG
38073021 TTA-T-TTATTTTATG
1 TTATTATTATTTTATG
* *
38073035 GTATTTTTATTTT
1 TTATTATTATTTT
38073048 TGGAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 3 0.08
14 9 0.24
15 1 0.03
16 20 0.53
17 5 0.13
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (16 bp):
TTATTATTATTTTATG
Found at i:38080984 original size:21 final size:22
Alignment explanation
Indices: 38080947--38080991 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
38080937 AAAAAAAAAC
38080947 ATTGTTAAATTTAAAG-ATTAA
1 ATTGTTAAATTTAAAGAATTAA
38080968 ATTGATTAAATTT-AAGAATTAA
1 ATTG-TTAAATTTAAAGAATTAA
38080990 AT
1 AT
38080992 ATTATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (22 bp):
ATTGTTAAATTTAAAGAATTAA
Found at i:38081552 original size:17 final size:17
Alignment explanation
Indices: 38081514--38081546 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38081504 AAAATATTTA
*
38081514 CAAATATTAAATACTCT
1 CAAATATAAAATACTCT
38081531 CAAATATAAAATACTC
1 CAAATATAAAATACTC
38081547 ATAAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (17 bp):
CAAATATAAAATACTCT
Found at i:38086925 original size:25 final size:25
Alignment explanation
Indices: 38086836--38086917 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
38086826 TTGTATATTA
**
38086836 GGAAGCTCATA-AGAGCCAAAAATCG
1 GGAAGCTCA-AGAGAGCCAATTATCG
** * *
38086861 AAAAGCTCATGCGAGCCAATTATCG
1 GGAAGCTCAAGAGAGCCAATTATCG
38086886 GGAAGCTCAAGAGAGCC-ATTAATCG
1 GGAAGCTCAAGAGAGCCAATT-ATCG
38086911 GGAAGCT
1 GGAAGCT
38086918 TGTGAGAGTC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
24 3 0.07
25 42 0.93
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.16
Consensus pattern (25 bp):
GGAAGCTCAAGAGAGCCAATTATCG
Found at i:38091932 original size:29 final size:29
Alignment explanation
Indices: 38091891--38091957 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
38091881 TCATCGACAA
* *
38091891 ATGAAAATGAATAGCTTCGGCTATCGAAT
1 ATGAAAAGGAATAACTTCGGCTATCGAAT
* *
38091920 ATGGAAAGGAATAACTTCGGCTATCGATT
1 ATGAAAAGGAATAACTTCGGCTATCGAAT
38091949 ATGAAAAGG
1 ATGAAAAGG
38091958 GATGGTGACG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGAATAACTTCGGCTATCGAAT
Found at i:38091984 original size:30 final size:30
Alignment explanation
Indices: 38091948--38092020 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
38091938 GGCTATCGAT
*
38091948 TATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCAAAC
*
38091978 TATGAAAAGGGATGGTGACGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCAAAC
*
38092008 TATAAAAAGGGAT
1 TATGAAAAGGGAT
38092021 AGCTTTGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.19
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCAAAC
Found at i:38093283 original size:30 final size:30
Alignment explanation
Indices: 38093243--38093312 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
38093233 GCTGGGACAC
* *
38093243 GGCCATGTGAGTTACACGGCCTAGCCACAT
1 GGCCGTGTGAGCTACACGGCCTAGCCACAT
*
38093273 TGCCGTGTGAGCTACACGGCCTAGCCACAT
1 GGCCGTGTGAGCTACACGGCCTAGCCACAT
38093303 GGCCGTGTGA
1 GGCCGTGTGA
38093313 CCCTTGTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (30 bp):
GGCCGTGTGAGCTACACGGCCTAGCCACAT
Found at i:38102288 original size:120 final size:120
Alignment explanation
Indices: 38102120--38102358 Score: 460
Period size: 120 Copynumber: 2.0 Consensus size: 120
38102110 CCAATTAGAC
38102120 TTGCATATTTCAATTGATCAATTTTCCTACCAGCATTAGATACTAATTTTAATTGAGGATCCATG
1 TTGCATATTTCAATTGATCAATTTTCCTACCAGCATTAGATACTAATTTTAATTGAGGATCCATG
38102185 AGTGTAGATGCTGGTATACAGTTGAAAAAATCAAACTTTTTAAGCACATTTTCAT
66 AGTGTAGATGCTGGTATACAGTTGAAAAAATCAAACTTTTTAAGCACATTTTCAT
38102240 TTGCATATTTCAATTGATCAATTTTCCTACCAGCATTAGATACTAATTTTAATTGAGGATCCATG
1 TTGCATATTTCAATTGATCAATTTTCCTACCAGCATTAGATACTAATTTTAATTGAGGATCCATG
* *
38102305 GGTGTAGATGCTGGTATACAGTTGAAAAGATCAAACTTTTTAAGCACATTTTCA
66 AGTGTAGATGCTGGTATACAGTTGAAAAAATCAAACTTTTTAAGCACATTTTCA
38102359 ATGTAATGTG
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (120 bp):
TTGCATATTTCAATTGATCAATTTTCCTACCAGCATTAGATACTAATTTTAATTGAGGATCCATG
AGTGTAGATGCTGGTATACAGTTGAAAAAATCAAACTTTTTAAGCACATTTTCAT
Found at i:38106665 original size:9 final size:9
Alignment explanation
Indices: 38106651--38106675 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
38106641 TTATCAAAAG
38106651 AATAAAATT
1 AATAAAATT
38106660 AATAAAATT
1 AATAAAATT
38106669 AATAAAA
1 AATAAAA
38106676 ATAAATTATA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AATAAAATT
Found at i:38106725 original size:13 final size:14
Alignment explanation
Indices: 38106677--38106726 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
38106667 TTAATAAAAA
38106677 TAAATTATACCAAAT
1 TAAA-TATACCAAAT
*
38106692 TAAAATATAACAAA-
1 T-AAATATACCAAAT
*
38106706 TACATAT-CCAAAT
1 TAAATATACCAAAT
38106719 TAAATATA
1 TAAATATA
38106727 TCATAGAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 4 0.14
13 11 0.39
14 1 0.04
15 9 0.32
16 3 0.11
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATATACCAAAT
Found at i:38111122 original size:28 final size:28
Alignment explanation
Indices: 38111086--38111194 Score: 121
Period size: 28 Copynumber: 3.9 Consensus size: 28
38111076 AGTAAGAACC
* * * *
38111086 TTCATGCAATAGTCCACATGGGCTATCT
1 TTCAAGCAAGAGTCCGCATGGACTATCT
* *
38111114 TTCAAGCAAGAGTCTGCATAGACTATCT
1 TTCAAGCAAGAGTCCGCATGGACTATCT
*
38111142 CTT-AAGCAAGAGTCTGCATGGACTATCT
1 -TTCAAGCAAGAGTCCGCATGGACTATCT
* *
38111170 CTCAAGCAAGAGTCCGCATGAACTA
1 TTCAAGCAAGAGTCCGCATGGACTA
38111195 ATTGAAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 66 0.96
29 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (28 bp):
TTCAAGCAAGAGTCCGCATGGACTATCT
Found at i:38111311 original size:28 final size:28
Alignment explanation
Indices: 38111280--38111365 Score: 91
Period size: 28 Copynumber: 3.1 Consensus size: 28
38111270 CGCATGCACA
* **
38111280 AATCCGCATATACAAATTTGCATGTATG
1 AATCCGTATATACAAATTCACATGTATG
* * *
38111308 AATCTGTATCTATAAATTCACATGTATG
1 AATCCGTATATACAAATTCACATGTATG
** *
38111336 AATCCGTATATATGAATCCACATGTATG
1 AATCCGTATATACAAATTCACATGTATG
38111364 AA
1 AA
38111366 ATCAATACAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (28 bp):
AATCCGTATATACAAATTCACATGTATG
Found at i:38111363 original size:14 final size:14
Alignment explanation
Indices: 38111326--38111365 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
38111316 TCTATAAATT
38111326 CACATGTATGAATC
1 CACATGTATGAATC
** *
38111340 CGTATATATGAATC
1 CACATGTATGAATC
38111354 CACATGTATGAA
1 CACATGTATGAA
38111366 ATCAATACAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (14 bp):
CACATGTATGAATC
Found at i:38114437 original size:25 final size:26
Alignment explanation
Indices: 38114381--38114447 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
38114371 TATACAAACA
*
38114381 TGTA-AACGGGAAGCTCTTGTCCGAGC
1 TGTATAACGGGAAGCTCATGT-CGAGC
**
38114407 CATATAACGGGAAGCTCATGT-GAGC
1 TGTATAACGGGAAGCTCATGTCGAGC
*
38114432 TGTATAACAGGAAGCT
1 TGTATAACGGGAAGCT
38114448 TAATCAAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 17 0.50
26 2 0.06
27 15 0.44
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.22
Consensus pattern (26 bp):
TGTATAACGGGAAGCTCATGTCGAGC
Found at i:38117435 original size:39 final size:39
Alignment explanation
Indices: 38117392--38117491 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 39
38117382 TTAAGTGTTG
* *
38117392 TGATATATGCTTAAATGTTATGTAATTATATGAGTATTA
1 TGATATATGCTTAAATGTTACGTAATTATATGAGTAATA
* * * *
38117431 TGATATATGCTTGAATATTACGTGATTATATGTGTAATA
1 TGATATATGCTTAAATGTTACGTAATTATATGAGTAATA
*
38117470 TGATATATATGCTTAAAAGTTA
1 TG--ATATATGCTTAAATGTTA
38117492 ATATGATTAC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 35 0.70
41 15 0.30
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (39 bp):
TGATATATGCTTAAATGTTACGTAATTATATGAGTAATA
Found at i:38119106 original size:41 final size:40
Alignment explanation
Indices: 38119016--38119135 Score: 123
Period size: 41 Copynumber: 2.9 Consensus size: 40
38119006 TGATTTAATA
* * * * * * *
38119016 CACCGGCTTTTAGCCTGTTAGACTTATAGTCCGAATAATTT
1 CACCGGCATTAAGCCTGCTAGAC-AATAGTCTGAATTATAT
*
38119057 CACTGGCATTAAGCCTGCTAGACAATGAGTCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGACAAT-AGTCTGAATTATAT
* *
38119098 CACCGGCATCAAGCCTGCTAGACAATAAGTTTGAATTA
1 CACCGGCATTAAGCCTGCTAGACAAT-AGTCTGAATTA
38119136 CATTCGATCA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 2 0.03
41 64 0.97
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACAATAGTCTGAATTATAT
Found at i:38120426 original size:10 final size:10
Alignment explanation
Indices: 38120413--38120438 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
38120403 AAAAAACATA
38120413 AAAATCGAAC
1 AAAATCGAAC
38120423 AAAATCGAAC
1 AAAATCGAAC
38120433 AAAATC
1 AAAATC
38120439 CATACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAATCGAAC
Found at i:38120573 original size:23 final size:23
Alignment explanation
Indices: 38120546--38120591 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
38120536 TAATTTGTTA
38120546 TATTAA-ACATATATTAACCTTAT
1 TATTAATAC-TATATTAACCTTAT
38120569 TATTAATTTACTATATTAACCTT
1 TATTAA--TACTATATTAACCTT
38120592 TACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATACTATATTAACCTTAT
Found at i:38124421 original size:911 final size:911
Alignment explanation
Indices: 38122661--38124482 Score: 3635
Period size: 911 Copynumber: 2.0 Consensus size: 911
38122651 ATATAAAATA
38122661 CACTGAAAACGTTAAAATAAATATTTCTCAACAAATCAAAAATCCATTAACCAAAATCTTTATAC
1 CACTGAAAACGTTAAAATAAATATTTCTCAACAAATCAAAAATCCATTAACCAAAATCTTTATAC
38122726 TTAAATAATACTAATATATTTGCAACTTAGCAAGCAAATGTCTCAACAATAGTAGCAAAATTAAT
66 TTAAATAATACTAATATATTTGCAACTTAGCAAGCAAATGTCTCAACAATAGTAGCAAAATTAAT
38122791 AATAAAACAAAATTTATATAATATCCAAACAGTAACAAGAAAATGATAGCAAACTAATGGCAACA
131 AATAAAACAAAATTTATATAATATCCAAACAGTAACAAGAAAATGATAGCAAACTAATGGCAACA
38122856 AAATAGCATCGAAATGACAACAAAACAGTTAATTCGGCCTGAGTCAAAAAATCCTATTTGAGGCC
196 AAATAGCATCGAAATGACAACAAAACAGTTAATTCGGCCTGAGTCAAAAAATCCTATTTGAGGCC
38122921 TAGCCTATTTAAAAAAAACAAGTCTTATTTTTCGTTCAAACCCAGTTTTTGAACTTATATTTTTA
261 TAGCCTATTTAAAAAAAACAAGTCTTATTTTTCGTTCAAACCCAGTTTTTGAACTTATATTTTTA
38122986 CTCAAGTACTCTCACTTTTCAAACGAAATTTTTGCGCATGTCCCATTTATCTTCAAGTTTTCTTA
326 CTCAAGTACTCTCACTTTTCAAACGAAATTTTTGCGCATGTCCCATTTATCTTCAAGTTTTCTTA
38123051 CATGTATTTTATTTCAAAGGTTTTTTCTCAGTGATTTACTGAGAATTTTGGCTTGAGTTAAGTTA
391 CATGTATTTTATTTCAAAGGTTTTTTCTCAGTGATTTACTGAGAATTTTGGCTTGAGTTAAGTTA
38123116 TAAGAACAAGGCGTTCTCAAGAGAAACCAGTAAACATTTTATTCATAACTTTACATCCATGTATT
456 TAAGAACAAGGCGTTCTCAAGAGAAACCAGTAAACATTTTATTCATAACTTTACATCCATGTATT
38123181 ACATGCCAGAAGCATAGACATTACATGAAAATGCAGCAACAACAACACACATGAAACACACCAAA
521 ACATGCCAGAAGCATAGACATTACATGAAAATGCAGCAACAACAACACACATGAAACACACCAAA
38123246 GGAAACACTGAAACAAAACATGAAAATTTTCTCAAATGTCTTTCACTCAACCCTTGATCTCCTCA
586 GGAAACACTGAAACAAAACATGAAAATTTTCTCAAATGTCTTTCACTCAACCCTTGATCTCCTCA
38123311 ATCTCAATCATTTTCTTCTCTGGTTTCTTCACTTCTTGTTTGGGGACAGTCACCACAAGCACACC
651 ATCTCAATCATTTTCTTCTCTGGTTTCTTCACTTCTTGTTTGGGGACAGTCACCACAAGCACACC
*
38123376 ATCCTCCATTGATGCCTTAACTCCATCGGTCTTCACATTCTCCGGCAACCTAAAACTCCTACGGA
716 ATCCTCCATTGATGCCTTAACTCCATCGGTCTTCACATTCTCCGGCAACCAAAAACTCCTACGGA
38123441 ACTCGCCTCTGCAACGCTCAACTCTATGCCACTTAACATTTTTATCATCTTTCTCCTCCTTCCTT
781 ACTCGCCTCTGCAACGCTCAACTCTATGCCACTTAACATTTTTATCATCTTTCTCCTCCTTCCTT
38123506 TCTCCATATATTTTGAGCACCCTTTCATCATCAATCTCAACGTTCACTTCCTTTTTGTTGAGCCC
846 TCTCCATATATTTTGAGCACCCTTTCATCATCAATCTCAACGTTCACTTCCTTTTTGTTGAGCCC
38123571 T
911 T
38123572 CACTGAAAACGTTAAAATAAATATTTCTCAACAAATCAAAAATCCATTAACCAAAATCTTTATAC
1 CACTGAAAACGTTAAAATAAATATTTCTCAACAAATCAAAAATCCATTAACCAAAATCTTTATAC
38123637 TTAAATAATACTAATATATTTGCAACTTAGCAAGCAAATGTCTCAACAATAGTAGCAAAATTAAT
66 TTAAATAATACTAATATATTTGCAACTTAGCAAGCAAATGTCTCAACAATAGTAGCAAAATTAAT
38123702 AATAAAACAAAATTTATATAATATCCAAACAGTAACAAGAAAATGATAGCAAACTAATGGCAACA
131 AATAAAACAAAATTTATATAATATCCAAACAGTAACAAGAAAATGATAGCAAACTAATGGCAACA
38123767 AAATAGCATCGAAATGACAACAAAACAGTTAATTCGGCCTGAGTCAAAAAATCCTATTTGAGGCC
196 AAATAGCATCGAAATGACAACAAAACAGTTAATTCGGCCTGAGTCAAAAAATCCTATTTGAGGCC
38123832 TAGCCTATTTAAAAAAAACAAGTCTTATTTTTCGTTCAAACCCAGTTTTTGAACTTATATTTTTA
261 TAGCCTATTTAAAAAAAACAAGTCTTATTTTTCGTTCAAACCCAGTTTTTGAACTTATATTTTTA
38123897 CTCAAGTACTCTCACTTTTCAAACGAAATTTTTGCGCATGTCCCATTTATCTTCAAGTTTTCTTA
326 CTCAAGTACTCTCACTTTTCAAACGAAATTTTTGCGCATGTCCCATTTATCTTCAAGTTTTCTTA
38123962 CATGTATTTTATTTCAAAGGTTTTTTCTCAGTGATTTACTGAGAATTTTGGCTTGAGTTAAGTTA
391 CATGTATTTTATTTCAAAGGTTTTTTCTCAGTGATTTACTGAGAATTTTGGCTTGAGTTAAGTTA
38124027 TAAGAACAAGGCGTTCTCAAGAGAAACCAGTAAACATTTTATTCATAACTTTACATCCATGTATT
456 TAAGAACAAGGCGTTCTCAAGAGAAACCAGTAAACATTTTATTCATAACTTTACATCCATGTATT
38124092 ACATGCCAGAAGCATAGACATTACATGAAAATGCAGCAACAACAACACACATGAAACACACCAAA
521 ACATGCCAGAAGCATAGACATTACATGAAAATGCAGCAACAACAACACACATGAAACACACCAAA
38124157 GGAAACACTGAAACAAAACATGAAAATTTTCTCAAATGTCTTTCACTCAACCCTTGATCTCCTCA
586 GGAAACACTGAAACAAAACATGAAAATTTTCTCAAATGTCTTTCACTCAACCCTTGATCTCCTCA
38124222 ATCTCAATCATTTTCTTCTCTGGTTTCTTCACTTCTTGTTTGGGGACAGTCACCACAAGCACACC
651 ATCTCAATCATTTTCTTCTCTGGTTTCTTCACTTCTTGTTTGGGGACAGTCACCACAAGCACACC
38124287 ATCCTCCATTGATGCCTTAACTCCATCGGTCTTCACATTCTCCGGCAACCAAAAACTCCTACGGA
716 ATCCTCCATTGATGCCTTAACTCCATCGGTCTTCACATTCTCCGGCAACCAAAAACTCCTACGGA
38124352 ACTCGCCTCTGCAACGCTCAACTCTATGCCACTTAACATTTTTATCATCTTTCTCCTCCTTCCTT
781 ACTCGCCTCTGCAACGCTCAACTCTATGCCACTTAACATTTTTATCATCTTTCTCCTCCTTCCTT
38124417 TCTCCATATATTTTGAGCACCCTTTCATCATCAATCTCAACGTTCACTTCCTTTTTGTTGAGCCC
846 TCTCCATATATTTTGAGCACCCTTTCATCATCAATCTCAACGTTCACTTCCTTTTTGTTGAGCCC
38124482 T
911 T
38124483 GGAAGATCAG
Statistics
Matches: 910, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
911 910 1.00
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (911 bp):
CACTGAAAACGTTAAAATAAATATTTCTCAACAAATCAAAAATCCATTAACCAAAATCTTTATAC
TTAAATAATACTAATATATTTGCAACTTAGCAAGCAAATGTCTCAACAATAGTAGCAAAATTAAT
AATAAAACAAAATTTATATAATATCCAAACAGTAACAAGAAAATGATAGCAAACTAATGGCAACA
AAATAGCATCGAAATGACAACAAAACAGTTAATTCGGCCTGAGTCAAAAAATCCTATTTGAGGCC
TAGCCTATTTAAAAAAAACAAGTCTTATTTTTCGTTCAAACCCAGTTTTTGAACTTATATTTTTA
CTCAAGTACTCTCACTTTTCAAACGAAATTTTTGCGCATGTCCCATTTATCTTCAAGTTTTCTTA
CATGTATTTTATTTCAAAGGTTTTTTCTCAGTGATTTACTGAGAATTTTGGCTTGAGTTAAGTTA
TAAGAACAAGGCGTTCTCAAGAGAAACCAGTAAACATTTTATTCATAACTTTACATCCATGTATT
ACATGCCAGAAGCATAGACATTACATGAAAATGCAGCAACAACAACACACATGAAACACACCAAA
GGAAACACTGAAACAAAACATGAAAATTTTCTCAAATGTCTTTCACTCAACCCTTGATCTCCTCA
ATCTCAATCATTTTCTTCTCTGGTTTCTTCACTTCTTGTTTGGGGACAGTCACCACAAGCACACC
ATCCTCCATTGATGCCTTAACTCCATCGGTCTTCACATTCTCCGGCAACCAAAAACTCCTACGGA
ACTCGCCTCTGCAACGCTCAACTCTATGCCACTTAACATTTTTATCATCTTTCTCCTCCTTCCTT
TCTCCATATATTTTGAGCACCCTTTCATCATCAATCTCAACGTTCACTTCCTTTTTGTTGAGCCC
T
Found at i:38125084 original size:12 final size:12
Alignment explanation
Indices: 38125064--38125110 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
38125054 TGGGGAGTGA
38125064 TTTTT-TTTAAT
1 TTTTTATTTAAT
38125075 TTTTTATTTAAT
1 TTTTTATTTAAT
* *
38125087 TTTATTAATGTATT
1 TTT-TT-ATTTAAT
38125101 TTTTTATTTA
1 TTTTTATTTA
38125111 TCTTCTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 5 0.17
12 13 0.43
13 4 0.13
14 8 0.27
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTTTATTTAAT
Found at i:38128595 original size:13 final size:14
Alignment explanation
Indices: 38128573--38128605 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
38128563 AATAAGTCAT
38128573 TTTTCAG-AAATCA
1 TTTTCAGAAAATCA
*
38128586 TTTTCTGAAAATCA
1 TTTTCAGAAAATCA
38128600 TTTTCA
1 TTTTCA
38128606 ATCAAACAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (14 bp):
TTTTCAGAAAATCA
Found at i:38130761 original size:94 final size:94
Alignment explanation
Indices: 38130554--38130762 Score: 233
Period size: 94 Copynumber: 2.2 Consensus size: 94
38130544 TAACCTTGTG
* * ** * *
38130554 TTTACTGTCCTGACAGACTACCCCATGTTTACTGTTCCGGTGGACTACCTATGTCGTCATAATCG
1 TTTAATGTCTTGACAGACTACCCCATGTTTACTGTTCCAATGGACTACCTATGTCGCCATAACCG
* *
38130619 AGCTAAGGTCTTACACATATAATCCCTTA
66 AGCTAAGGTCTTACACATATAACCCCATA
** * * * *
38130648 TTTAATGTCTTGATGGACTACCCCGTGTTTATTG-TCCTAATGGATTACCTATGTCGCCATAGCC
1 TTTAATGTCTTGACAGACTACCCCATGTTTACTGTTCC-AATGGACTACCTATGTCGCCATAACC
* *
38130712 GAGCTAATGTCTTACACATGTAACCCCATA
65 GAGCTAAGGTCTTACACATATAACCCCATA
*
38130742 TTTAA-GATCTTGGCAGACTAC
1 TTTAATG-TCTTGACAGACTAC
38130763 TTTGGTTTCC
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
93 4 0.04
94 90 0.96
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (94 bp):
TTTAATGTCTTGACAGACTACCCCATGTTTACTGTTCCAATGGACTACCTATGTCGCCATAACCG
AGCTAAGGTCTTACACATATAACCCCATA
Found at i:38133909 original size:21 final size:21
Alignment explanation
Indices: 38133883--38133937 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
38133873 TTATTGCTTT
38133883 AAATGATTGGTATATGTATGG
1 AAATGATTGGTATATGTATGG
* *
38133904 AAATGATTGGTATGTGTTTGG
1 AAATGATTGGTATATGTATGG
* *
38133925 AGATGTTTGGTAT
1 AAATGATTGGTAT
38133938 TGAATTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (21 bp):
AAATGATTGGTATATGTATGG
Found at i:38134815 original size:20 final size:21
Alignment explanation
Indices: 38134783--38134821 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
38134773 TATATTTCAA
38134783 TAAAATATTAAAAATATTATT
1 TAAAATATTAAAAATATTATT
*
38134804 TAAAAT-TTAAAATTATTA
1 TAAAATATTAAAAATATTA
38134822 AAATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAATATTAAAAATATTATT
Found at i:38134911 original size:16 final size:18
Alignment explanation
Indices: 38134870--38134964 Score: 60
Period size: 17 Copynumber: 5.4 Consensus size: 18
38134860 TAAAATTATA
38134870 TTAAATA-TATTAATAAT
1 TTAAATATTATTAATAAT
*
38134887 TTATTATATTATT-A-AAT
1 TTA-AATATTATTAATAAT
*
38134904 TTAAATATGTGTTTAATAAT
1 TTAAATAT-T-ATTAATAAT
*
38134924 ATTTAATATTA-TAAT-AT
1 -TTAAATATTATTAATAAT
*
38134941 TTGAAATATT-TTAA-AAA
1 TT-AAATATTATTAATAAT
38134958 TTAAATA
1 TTAAATA
38134965 AAATTTTACT
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
16 11 0.18
17 24 0.39
18 10 0.16
19 5 0.08
20 4 0.07
21 7 0.11
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TTAAATATTATTAATAAT
Found at i:38144910 original size:19 final size:18
Alignment explanation
Indices: 38144886--38144921 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
38144876 GTAATGGACG
*
38144886 AAAGAACGAAAATAAAAAT
1 AAAGAAAGAAAA-AAAAAT
38144905 AAAGAAAGAAAAAAAAA
1 AAAGAAAGAAAAAAAAA
38144922 CCTTATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAGAAAGAAAAAAAAAT
Found at i:38145481 original size:16 final size:17
Alignment explanation
Indices: 38145441--38145484 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
38145431 TTTGGACTAT
*
38145441 TTTTATTTATTTGGCTTT
1 TTTT-TTTATTTGGCTTG
38145459 TTATTTTTATTT-GCTTG
1 TT-TTTTTATTTGGCTTG
38145476 TTTTTTTAT
1 TTTTTTTAT
38145485 ATGCATGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 7 0.29
17 6 0.25
18 9 0.38
19 2 0.08
ACGTcount: A:0.11, C:0.05, G:0.09, T:0.75
Consensus pattern (17 bp):
TTTTTTTATTTGGCTTG
Found at i:38145481 original size:22 final size:22
Alignment explanation
Indices: 38145438--38145484 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
38145428 GTTTTTGGAC
*
38145438 TATTTTTATTTATTTGGCTTTT
1 TATTTTTATTTACTTGGCTTTT
* **
38145460 TATTTTTATTTGCTTGTTTTTT
1 TATTTTTATTTACTTGGCTTTT
38145482 TAT
1 TAT
38145485 ATGCATGTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.13, C:0.04, G:0.09, T:0.74
Consensus pattern (22 bp):
TATTTTTATTTACTTGGCTTTT
Found at i:38147397 original size:31 final size:31
Alignment explanation
Indices: 38147353--38147461 Score: 121
Period size: 31 Copynumber: 3.5 Consensus size: 31
38147343 GTTCATGCTT
* *
38147353 TAATTTGAGAACAATT-TTCAAGTTCAAGCCC
1 TAATATGAAAACAATTGTT-AAGTTCAAGCCC
* *
38147384 TAATATGAAAACAATTGTTTAGTTCAAACCC
1 TAATATGAAAACAATTGTTAAGTTCAAGCCC
** *
38147415 TAATATGCGAACAATTGTTAAGTTCGAGCCC
1 TAATATGAAAACAATTGTTAAGTTCAAGCCC
* *
38147446 TAATGTGGAAACAATT
1 TAATATGAAAACAATT
38147462 ATCAAGTTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 63 0.97
32 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (31 bp):
TAATATGAAAACAATTGTTAAGTTCAAGCCC
Found at i:38158688 original size:7 final size:7
Alignment explanation
Indices: 38158676--38158740 Score: 53
Period size: 7 Copynumber: 9.0 Consensus size: 7
38158666 CAGTGGAGGA
38158676 AAAAAAC
1 AAAAAAC
38158683 AAAAAAC
1 AAAAAAC
38158690 AAAAAAAC
1 -AAAAAAC
38158698 AAAAAAAAC
1 --AAAAAAC
*
38158707 AAGAAAAT
1 AA-AAAAC
38158715 AAAAAA-
1 AAAAAAC
*
38158721 TAAAAA-
1 AAAAAAC
*
38158727 AAAAATC
1 AAAAAAC
38158734 AAAAAAC
1 AAAAAAC
38158741 CTCTACCGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
6 9 0.18
7 19 0.39
8 13 0.27
9 8 0.16
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.05
Consensus pattern (7 bp):
AAAAAAC
Found at i:38158688 original size:8 final size:8
Alignment explanation
Indices: 38158675--38158739 Score: 62
Period size: 9 Copynumber: 7.8 Consensus size: 8
38158665 ACAGTGGAGG
38158675 AAAAAAAC
1 AAAAAAAC
38158683 -AAAAAAC
1 AAAAAAAC
38158690 AAAAAAAC
1 AAAAAAAC
38158698 AAAAAAAAC
1 -AAAAAAAC
38158707 AAGAAAATA-
1 AA-AAAA-AC
*
38158716 AAAAATAAA
1 AAAAA-AAC
38158725 AAAAAAATC
1 AAAAAAA-C
38158734 AAAAAA
1 AAAAAA
38158740 CCTCTACCGG
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
7 7 0.14
8 15 0.31
9 26 0.53
10 1 0.02
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.05
Consensus pattern (8 bp):
AAAAAAAC
Found at i:38158739 original size:1 final size:1
Alignment explanation
Indices: 38158675--38158731 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
38158665 ACAGTGGAGG
* * * * * * *
38158675 AAAAAAACAAAAAACAAAAAAACAAAAAAAACAAGAAAATAAAAAATAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
38158732 TCAAAAAACC
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:38159667 original size:93 final size:96
Alignment explanation
Indices: 38159494--38159679 Score: 270
Period size: 93 Copynumber: 2.0 Consensus size: 96
38159484 TTTATTTTGA
* * * * *
38159494 ATCTTGGCAAAATTTGTTATCTTGATTAGTTTATTCATTTTGAGCTTTGTTCTTAATAAAATTTC
1 ATCTTAGCAAAATTTGCTATCTTGA-TAGTTAATTCATTTCGAGCTTTGTTCTCAATAAAATTTC
*
38159559 ATCTTATCCATTGTGATAATCTTTTTCATCTT
65 ATCTTATCCACTGTGATAATCTTTTTCATCTT
38159591 ATCTTAGCAAAATTTGCTATCTT-A-A-TTAATTCATTTCGAGCTTTGTTCTCAATAAAATTTCA
1 ATCTTAGCAAAATTTGCTATCTTGATAGTTAATTCATTTCGAGCTTTGTTCTCAATAAAATTTCA
* *
38159653 TGTTGTCCACTGTGATAATCTTTTTCA
66 TCTTATCCACTGTGATAATCTTTTTCA
38159680 AGTATTTTTC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
93 58 0.72
94 1 0.01
96 1 0.01
97 21 0.26
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.48
Consensus pattern (96 bp):
ATCTTAGCAAAATTTGCTATCTTGATAGTTAATTCATTTCGAGCTTTGTTCTCAATAAAATTTCA
TCTTATCCACTGTGATAATCTTTTTCATCTT
Found at i:38160541 original size:44 final size:43
Alignment explanation
Indices: 38160487--38161107 Score: 324
Period size: 44 Copynumber: 14.5 Consensus size: 43
38160477 ACAATCCTAA
* * *
38160487 CTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTAT
* * * * *** * *
38160531 CTCTCTAAAGTTGTAGTAGAGCAGATCGCATC-TAG-TCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
* * *
38160572 CTCCCTGAAGTTGCAGTGGAGCAGCAAAAGAAAC-CA-ATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAG-ATAA-AACCACAGATCTTAT
* *
38160615 CTCCCTGAAGTTGCAGTGGAGCGGATAAAAACCATAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGAT-AAAACCACAGATCTTAT
* * *** * *
38160659 CTCTCTGAAGTTGCAGTAGAGCAGATCGCATC-TAG-TCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
* * ** *
38160700 CTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAACCA-ATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAA-CCA-CAGATCTTAT
* * * *
38160744 CTCCTTGAAGTTGCAATGGAGCGGATTAAAACCATAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTAT
* * * * * * *
38160788 CTCTCTAAAGTTGCAGTAGAGTAGATCACATC-CAG-TCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
* * * ** *
38160829 CTCCCCGAAGTTGTAGTGGAGCAGACAAAAGGAACCA-ATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAA-CCA-CAGATCTTAT
* * *
38160873 CTCCCTGAAGTTGTAGTGGAG-AGGATTAAAACCATAGATCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCA-GA-TAAAACCACAGATCTTAT
* * *** *
38160917 C-CCTCTGAAGTTACAGTAGAGCAGATCGCATC-CAG-TCTTAT
1 CTCC-CTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
** * * *
38160958 CTCCCTGAAGTTATAGTGGAGCAGACGAAAGA-AACCA-ATCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TAAA-ACCA-CAGATCTTAT
* **
38161002 CTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAGATCTTAT
* * * *** *
38161046 CTCTCTGAAGTTGCAGTAGAGTAGATCGCATC-CAG-TCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
* *
38161087 CTCCCTAAAGTTGCATTGGAG
1 CTCCCTGAAGTTGCAGTGGAG
38161108 TAGACTGAAG
Statistics
Matches: 433, Mismatches: 115, Indels: 61
0.71 0.19 0.10
Matches are distributed among these distances:
41 130 0.30
42 19 0.04
43 58 0.13
44 217 0.50
45 9 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAGATCTTAT
Found at i:38161010 original size:85 final size:84
Alignment explanation
Indices: 38160569--38161018 Score: 256
Period size: 85 Copynumber: 5.2 Consensus size: 84
38160559 CATCTAGTCT
* ** * * *
38160569 TATCTCCCTGAAGTTGCAGTGGAGCAGCAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGTAGAGCAG--ATCGCAACCAGTCTTATCTCCCTGAAGTTGCAGTGG
*
38160634 AGC-G--GATAAAAACCATAGATCT
64 AGCAGACGA-AAAAACC--A-ATCC
* * * *
38160656 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCGCAACCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
*
38160721 CAGACAAAAGAAACCAATCC
66 CAGACGAAA-AAACCAATCC
* * * * *** * * *
38160741 TATCTCCTTGAAGTTGCAATGGAGCGGATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCGCAACC--AG-TCTTATCTCCCTGAAGTTGCAGTG
* * * * *
38160806 GAGTAGATC---ACATCCAGTCT
63 GAGCAGA-CGAAAAAACCAATCC
* * * * * * *
38160826 TATCTCCCCGAAGTTGTAGTGGAGCAGA-CAAAAGGAACCAATCCTATCTCCCTGAAGTTGTAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATC----GCAACCAGTCTTATCTCCCTGAAGTTGCAGT
* *
38160890 GGAG-AG--GATTAAAACCATAGATCT
62 GGAGCAGACGA-AAAAACC--A-ATCC
* * * **
38160914 TGTC-CCTCTGAAGTTACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTATAGTGGA
1 TATCTCC-CTGAAGTTGCAGTAGAGCAGATCGCAACCAGTCTTATCTCCCTGAAGTTGCAGTGGA
38160978 GCAGACGAAAGAAACCAATCC
65 GCAGACGAAA-AAACCAATCC
*
38160999 TATCTCCCTGAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGT
38161019 GGAGTGGATT
Statistics
Matches: 276, Mismatches: 61, Indels: 54
0.71 0.16 0.14
Matches are distributed among these distances:
84 2 0.01
85 164 0.59
86 9 0.03
87 33 0.12
88 66 0.24
89 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATCGCAACCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CAGACGAAAAAACCAATCC
Found at i:38161190 original size:129 final size:129
Alignment explanation
Indices: 38160478--38161162 Score: 985
Period size: 129 Copynumber: 5.3 Consensus size: 129
38160468 AGTAAAGCTA
* * * * *
38160478 CAATCCTAACTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
* *
38160543 GTAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG-CAAAAGAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
*
38160606 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATAAAAACCATAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
* *
38160671 GCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
* * *
38160735 CAATCCTATCTCCTTGAAGTTGCAATGGAGCGGATTAAAACCATAGATCTTATCTCTCTAAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
* * * * *
38160800 GCAGTAGAGTAGATCACATCCAGTCTTATCTCCCCGAAGTTGTAGTGGAGCAGACAAAAGGAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
* * * *
38160864 CAATCCTATCTCCCTGAAGTTGTAGTGGAGAGGATTAAAACCATAGATCTTGTCCCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
* ** *
38160929 ACAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACGAAAGAAAC
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
* * *
38160993 CAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
* * * * ** ** *
38161058 GCAGTAGAGTAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCATTGGAGTAGACTGAAGCTAT
66 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
* * * *
38161122 TAATCCTATCTCCCTGAACTTACAGTGGAGCGTATTAAAAC
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
38161163 GATGAATCCT
Statistics
Matches: 501, Mismatches: 55, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
128 110 0.22
129 391 0.78
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (129 bp):
CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAC
Found at i:38168165 original size:55 final size:55
Alignment explanation
Indices: 38168074--38168194 Score: 179
Period size: 55 Copynumber: 2.2 Consensus size: 55
38168064 ACAGAATCAA
* * *
38168074 CACAAAAGCTCTCAATTAACATATTTTTCCATGAAAGCGCATTCATAGAGTCGAC
1 CACAAAGGCTCTCAATTAACATATTTTGCCACGAAAGCGCATTCATAGAGTCGAC
* * *
38168129 CACAAAGGCTTTCACTTAACATATTTTGCCACGAAAGCGCATTCATAGAGTCGAT
1 CACAAAGGCTCTCAATTAACATATTTTGCCACGAAAGCGCATTCATAGAGTCGAC
*
38168184 CACTAAGGCTC
1 CACAAAGGCTC
38168195 CATATAACAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (55 bp):
CACAAAGGCTCTCAATTAACATATTTTGCCACGAAAGCGCATTCATAGAGTCGAC
Found at i:38172150 original size:26 final size:26
Alignment explanation
Indices: 38172104--38172159 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
38172094 TTAACTCTTA
* *
38172104 TGAGCGTCCCGTTATATGGCTCTTCG
1 TGAGCGTCCCGTTATAAGGCTATTCG
* *
38172130 TGAGCTTCCCGATTA-AAGGCTATTTG
1 TGAGCGTCCCG-TTATAAGGCTATTCG
38172156 TGAG
1 TGAG
38172160 TTTCTCAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (26 bp):
TGAGCGTCCCGTTATAAGGCTATTCG
Found at i:38172295 original size:23 final size:24
Alignment explanation
Indices: 38172251--38172295 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
38172241 ATTAGCTCGC
*
38172251 ATGAGCTTCCTGATTATGGCTCTT
1 ATGAGCTTCCTGATTATAGCTCTT
38172275 ATGAGCTTCCT-ATTATAGCTC
1 ATGAGCTTCCTGATTATAGCTC
38172296 GAATAAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (24 bp):
ATGAGCTTCCTGATTATAGCTCTT
Found at i:38172304 original size:23 final size:24
Alignment explanation
Indices: 38172243--38172305 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
38172233 TACCCGTTAT
*
38172243 TAGCTCGCATGAGCTTCCTGATTA
1 TAGCTCGAATGAGCTTCCTGATTA
* **
38172267 TGGCTCTTATGAGCTTCCT-ATTA
1 TAGCTCGAATGAGCTTCCTGATTA
*
38172290 TAGCTCGAATAAGCTT
1 TAGCTCGAATGAGCTT
38172306 TCCGTTACAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 16 0.50
24 16 0.50
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (24 bp):
TAGCTCGAATGAGCTTCCTGATTA
Found at i:38173466 original size:35 final size:35
Alignment explanation
Indices: 38173420--38173489 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
38173410 TATATGTCAA
38173420 ATTTAGTAAATGTGAATTTTGGCTTTGGAAAGTTG
1 ATTTAGTAAATGTGAATTTTGGCTTTGGAAAGTTG
38173455 ATTTAGTAAATGTGAATTTTGGCTTTGGAAAGTTG
1 ATTTAGTAAATGTGAATTTTGGCTTTGGAAAGTTG
38173490 GTTTTCTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.43
Consensus pattern (35 bp):
ATTTAGTAAATGTGAATTTTGGCTTTGGAAAGTTG
Found at i:38176927 original size:25 final size:25
Alignment explanation
Indices: 38176880--38176938 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
38176870 CGAAAGAGTA
38176880 TCCCGTTAT-TGACTCTTATGAGCT
1 TCCCGTTATATGACTCTTATGAGCT
** *
38176904 TCCCGTTATATGGTTCTTGTGAGCT
1 TCCCGTTATATGACTCTTATGAGCT
*
38176929 TCACGTTATA
1 TCCCGTTATA
38176939 GCTCTTTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 9 0.30
25 21 0.70
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (25 bp):
TCCCGTTATATGACTCTTATGAGCT
Found at i:38178244 original size:42 final size:42
Alignment explanation
Indices: 38178197--38178276 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
38178187 GGTAATTTTC
*
38178197 ACACGGGCAAAG-ACACGGGCGTGTGTCTCAGCCGTGTGTGAT
1 ACAC-GGCAAAGCACACGGGCATGTGTCTCAGCCGTGTGTGAT
** **
38178239 ACACGGCCTAGCACACGGGCATGTGTCTTGGCCGTGTG
1 ACACGGCAAAGCACACGGGCATGTGTCTCAGCCGTGTG
38178277 ATCCTTACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 5 0.16
42 27 0.84
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.20
Consensus pattern (42 bp):
ACACGGCAAAGCACACGGGCATGTGTCTCAGCCGTGTGTGAT
Found at i:38182975 original size:17 final size:18
Alignment explanation
Indices: 38182952--38182993 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
38182942 TTTTACCCAG
*
38182952 AATTTTTTAG-GAA-AAA
1 AATTTTTGAGTGAATAAA
38182968 ATATTTTTGAGTGAATAAA
1 A-ATTTTTGAGTGAATAAA
38182987 AATTTTT
1 AATTTTT
38182994 CAATTGATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 8 0.36
18 9 0.41
19 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
AATTTTTGAGTGAATAAA
Found at i:38190500 original size:40 final size:38
Alignment explanation
Indices: 38190456--38190590 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 38
38190446 ACTAGGTTGG
38190456 CACCCAGTGCCTCATCGGATAATTCAAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGGATAA-TCAAAGTAATAA-TTGA
** * * *
38190496 CACCCAGTGTTTCATCGGTTAAACCAAAGT-A-AATTGG
1 CACCCAGTGCCTCATCGGAT-AATCAAAGTAATAATTGA
* * *
38190533 CACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATC-AAAGTAAT-AATTGA
*
38190574 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
38190591 ACTCGAAGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
37 21 0.28
38 7 0.09
39 1 0.01
40 23 0.31
41 23 0.31
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAATCAAAGTAATAATTGA
Found at i:38190578 original size:41 final size:41
Alignment explanation
Indices: 38190456--38190591 Score: 122
Period size: 41 Copynumber: 3.4 Consensus size: 41
38190446 ACTAGGTTGG
* * *
38190456 CACCCAGTGCCTCATCGGA-TAAT-TCAAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATTAATCT-AAAGTAGTAAATTGA
** * * * *
38190496 CACCCAGTGTTTCATCG-GTTAAAC-CAA--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATTAATCTAAAGTAGTAAATTGA
*
38190533 CACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATTAATCTAAAGTAGTAAATTGA
*
38190574 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
38190592 CTCGAAGTCG
Statistics
Matches: 75, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
37 22 0.29
38 5 0.07
39 4 0.05
40 18 0.24
41 26 0.35
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAATTAATCTAAAGTAGTAAATTGA
Found at i:38191567 original size:5 final size:5
Alignment explanation
Indices: 38191559--38191641 Score: 84
Period size: 5 Copynumber: 17.0 Consensus size: 5
38191549 TTTACTTATT
*
38191559 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT- ATATA CT-TA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * *
38191607 ATA-A TTA-A GATATA ATATT ATAATA TTATA ATATA
1 ATATA ATATA -ATATA ATATA AT-ATA ATATA ATATA
38191642 TATTTTAACT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
4 11 0.17
5 50 0.77
6 4 0.06
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:38195434 original size:16 final size:16
Alignment explanation
Indices: 38195403--38195439 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
38195393 ATGTGATGAA
38195403 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
38195419 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
38195435 TATTA
1 TATTA
38195440 AATAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:38203559 original size:34 final size:34
Alignment explanation
Indices: 38203513--38203580 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
38203503 GGGAAAGAAG
* *
38203513 AATATTGGAGGACAATAGCAAATGAGAGTAATTA
1 AATATTGAAGGACAATAGCAAATGACAGTAATTA
38203547 AATATTGAAGGACAATAGCAAATGACAGTAATTA
1 AATATTGAAGGACAATAGCAAATGACAGTAATTA
38203581 GACTCTACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.21, T:0.24
Consensus pattern (34 bp):
AATATTGAAGGACAATAGCAAATGACAGTAATTA
Found at i:38207442 original size:30 final size:29
Alignment explanation
Indices: 38207400--38207472 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 29
38207390 ACATAACCAG
*
38207400 GCACACAAGCGTGTAACTAAGCCGTGTAA
1 GCACACAGGCGTGTAACTAAGCCGTGTAA
* * * *
38207429 GCCACACGGGCGTGTGACTAGGCCGTGTGA
1 G-CACACAGGCGTGTAACTAAGCCGTGTAA
38207459 GCACACAGGCGTGT
1 GCACACAGGCGTGT
38207473 GGCAAGCCGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.25, C:0.26, G:0.33, T:0.16
Consensus pattern (29 bp):
GCACACAGGCGTGTAACTAAGCCGTGTAA
Found at i:38223729 original size:20 final size:20
Alignment explanation
Indices: 38223704--38223742 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
38223694 CAGTAAAATG
38223704 TTTTCTGAAAAATGATTTAC
1 TTTTCTGAAAAATGATTTAC
38223724 TTTTCTGAAAAATGATTTA
1 TTTTCTGAAAAATGATTTA
38223743 TTGAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTTCTGAAAAATGATTTAC
Found at i:38223865 original size:20 final size:20
Alignment explanation
Indices: 38223840--38223878 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
38223830 GTTTTTACAT
38223840 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
38223860 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
38223879 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:38223941 original size:18 final size:18
Alignment explanation
Indices: 38223918--38223953 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38223908 GATTTATTTA
38223918 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
38223936 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
38223954 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:38227812 original size:28 final size:28
Alignment explanation
Indices: 38227780--38227839 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
38227770 ATTAATTAAT
**
38227780 TTATTATTATTTTTATTATTACTATTT-A
1 TTATTATTATTGATATTATTA-TATTTGA
*
38227808 TTATTGTTATTGATATTATTATATTTGA
1 TTATTATTATTGATATTATTATATTTGA
38227836 TTAT
1 TTAT
38227840 ATTTCTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (28 bp):
TTATTATTATTGATATTATTATATTTGA
Found at i:38237630 original size:23 final size:23
Alignment explanation
Indices: 38237585--38237630 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
38237575 GATTTTCTTA
**
38237585 TACTTTATTTTCTTATTTCTTTT
1 TACTTTATTTTCTTATTAATTTT
38237608 TACTTTATTTTACTT-TTAATTTT
1 TACTTTATTTT-CTTATTAATTTT
38237631 AGTTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (23 bp):
TACTTTATTTTCTTATTAATTTT
Found at i:38249186 original size:18 final size:16
Alignment explanation
Indices: 38249149--38249190 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
38249139 CATTTGGGCC
38249149 TTTAATTTTTTTAATT
1 TTTAATTTTTTTAATT
*
38249165 TTTAATTTTTGTTTATT
1 TTTAATTTTT-TTAATT
38249182 ATTTAATTT
1 -TTTAATTT
38249191 GGGCCGGGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 5 0.22
18 8 0.35
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTAATTTTTTTAATT
Found at i:38249672 original size:40 final size:41
Alignment explanation
Indices: 38249565--38249673 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
38249555 AATTCTTCGG
* * *
38249565 TCTATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATGCAA
* * * * *
38249606 TTTACTCTACTGTAATTTCAGAGAGATAAGATCCTG-T-TAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGA-CCTGATGCAA
*
38249646 TCTGCTCCACTGTAATCTCAGGGAGATA
1 TCTACTCCACTGTAATCTCAGGGAGATA
38249674 GGATTACCGG
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
40 24 0.44
41 26 0.48
42 4 0.07
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (41 bp):
TCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATGCAA
Found at i:38249895 original size:44 final size:43
Alignment explanation
Indices: 38249749--38249897 Score: 124
Period size: 44 Copynumber: 3.4 Consensus size: 43
38249739 GCTAGTGCTT
* *
38249749 AGGGAGATAAGATCTGCTTCCTTAGTCTGC-CTCACT-ATGACTTC
1 AGGGAGATAAGACCTGCTTACTTAGTCTGCTC-CACTGA--ACTTC
* * * * *
38249793 AGGGGGATAAGACTTG-TCATCTTTGATCTGCCCCACTGTAACTTC
1 AGGGAGATAAGACCTGCTTA-CTTAG-TCTGCTCCACTG-AACTTC
* * *
38249838 AGGGGGATAAGACCTGCTTACTTAGTCTGCTCCGCTGCAACTTT
1 AGGGAGATAAGACCTGCTTACTTAGTCTGCTCCACTG-AACTTC
38249882 AGGGAGATAAGACCTG
1 AGGGAGATAAGACCTG
38249898 ATGCAATCCA
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 47 0.55
45 33 0.39
46 3 0.04
47 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (43 bp):
AGGGAGATAAGACCTGCTTACTTAGTCTGCTCCACTGAACTTC
Found at i:38250055 original size:216 final size:217
Alignment explanation
Indices: 38249819--38250246 Score: 687
Period size: 216 Copynumber: 2.0 Consensus size: 217
38249809 TCATCTTTGA
* * * * *
38249819 TCTGCCCCACTGTAACTTCAGGGGGATAAGACCTGCTTACTTAGTCTGCTCCGCTGCAACTTTAG
1 TCTGCCCCACTGTAACTTCAGGGGCATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
*
38249884 GGAGATAAGACCTGATGCAATCCACTCTGCTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
* *
38249949 CCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTTCCTTACACTTGAAGA
131 CCGCTCAACTACAACTTCAGGGAGATAAGATTATCGGCTTCAATCTGCTTCCTTACACTTGAAGA
38250014 TAAGATCCGCCG-CTTCTTCAG
196 TAAGATCCGCCGTCTTCTTCAG
* * * *
38250035 TCTGCCCCACTGTGACTTCAGGGGCATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAG
1 TCTGCCCCACTGTAACTTCAGGGGCATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
* * *
38250100 GGAGATAAGACCTGATGCGATCCACTCTACTGTAACTTTAGAGAGATAAGATCTATTACTTTAAT
66 GGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
* *
38250165 CTGCTCAACTACAACTTCAGGGAGATAAGATTATCGGCTTCAATCTGCTTCCTTACACTTGAAGG
131 CCGCTCAACTACAACTTCAGGGAGATAAGATTATCGGCTTCAATCTGCTTCCTTACACTTGAAGA
*
38250230 TAAGATTCGCCGTCTTC
196 TAAGATCCGCCGTCTTC
38250247 GATCTGCTCC
Statistics
Matches: 193, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
216 189 0.98
217 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (217 bp):
TCTGCCCCACTGTAACTTCAGGGGCATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
GGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
CCGCTCAACTACAACTTCAGGGAGATAAGATTATCGGCTTCAATCTGCTTCCTTACACTTGAAGA
TAAGATCCGCCGTCTTCTTCAG
Found at i:38250397 original size:131 final size:131
Alignment explanation
Indices: 38250225--38250541 Score: 517
Period size: 131 Copynumber: 2.4 Consensus size: 131
38250215 CCTTACACTT
* *
38250225 GAAGGTAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCAATTTC
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGCAATTTC
* * * *
38250290 CAGCCTATTCCACTGCTGGTCAGGGACATGGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGG
66 CAACCTATTCCACTACTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGATTCCCTACTCCTGG
38250355 G
131 G
* * *
38250356 GAAGATAAGATTCGCCATCTTCGATCTACTCCACTATTGCTTAGGGAGACAAGATCTGCAATTTC
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGCAATTTC
* *
38250421 CAACCTATTCCACTACTGGTTAGGGACATAGGACTTGTGGCTTAAATCTGATTCCCTACTCTTGG
66 CAACCTATTCCACTACTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGATTCCCTACTCCTGG
38250486 G
131 G
* *
38250487 GAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGATAAGAT
1 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGAT
38250542 ATGTAATATT
Statistics
Matches: 170, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 170 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (131 bp):
GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGCAATTTC
CAACCTATTCCACTACTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGATTCCCTACTCCTGG
G
Found at i:38261285 original size:17 final size:17
Alignment explanation
Indices: 38261263--38261295 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38261253 ATTTTTTAAT
38261263 TATATTATTTACTATTA
1 TATATTATTTACTATTA
*
38261280 TATATTATTTATTATT
1 TATATTATTTACTATT
38261296 TATTTAGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATTATTTACTATTA
Found at i:38269399 original size:11 final size:11
Alignment explanation
Indices: 38269379--38269415 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
38269369 AGCCCGGCCC
38269379 ATATTAAATAT
1 ATATTAAATAT
*
38269390 ATATTTAATAT
1 ATATTAAATAT
*
38269401 ATATAAAATAT
1 ATATTAAATAT
38269412 ATAT
1 ATAT
38269416 GTTTGATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:38269409 original size:22 final size:22
Alignment explanation
Indices: 38269379--38269473 Score: 66
Period size: 24 Copynumber: 4.1 Consensus size: 22
38269369 AGCCCGGCCC
*
38269379 ATATTAAATATATATTTAATAT
1 ATATAAAATATATATTTAATAT
*
38269401 ATATAAAATATATATGTTTGAT-T
1 ATATAAAATATATA--TTTAATAT
* * * *
38269424 AAAAATAAATATATATTTGATTAA
1 ATATA-AAATATATATTT-AATAT
* *
38269448 AAATAAAAATAAATATTTAATAT
1 ATAT-AAAATATATATTTAATAT
38269471 ATA
1 ATA
38269474 ATTCATACCG
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
22 16 0.29
23 10 0.18
24 28 0.51
25 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (22 bp):
ATATAAAATATATATTTAATAT
Found at i:38269433 original size:24 final size:22
Alignment explanation
Indices: 38269383--38269454 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
38269373 CGGCCCATAT
*
38269383 TAAATATATATTTAATATATATAAA
1 TAAATATATATTTGAT-TA-A-AAA
* *
38269408 -ATATATATGTTTGATTAAAAA
1 TAAATATATATTTGATTAAAAA
38269429 TAAATATATATTTGATTAAAAA
1 TAAATATATATTTGATTAAAAA
38269451 TAAA
1 TAAA
38269455 AATAAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.07
22 24 0.59
23 2 0.05
24 12 0.29
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TAAATATATATTTGATTAAAAA
Found at i:38269457 original size:24 final size:24
Alignment explanation
Indices: 38269384--38269465 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
38269374 GGCCCATATT
* * *
38269384 AAATATATATTT-AATATATATAA
1 AAATATATATTTGATTAAAAATAA
*
38269407 AATATATATGTTTGATTAAAAAT--
1 AA-ATATATATTTGATTAAAAATAA
38269430 AAATATATATTTGATTAAAAATAA
1 AAATATATATTTGATTAAAAATAA
*
38269454 AAATAAATATTT
1 AAATATATATTT
38269466 AATATATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
22 19 0.39
23 4 0.08
24 20 0.41
25 6 0.12
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATATATATTTGATTAAAAATAA
Found at i:38274541 original size:20 final size:20
Alignment explanation
Indices: 38274495--38274534 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38274485 GTTATAGATT
*
38274495 CAAAGCATATTCAGATAGTG
1 CAAATCATATTCAGATAGTG
*
38274515 CAAATCATATTCATATAGTG
1 CAAATCATATTCAGATAGTG
38274535 TATATCACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
CAAATCATATTCAGATAGTG
Found at i:38286734 original size:30 final size:30
Alignment explanation
Indices: 38286698--38286756 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
38286688 TCTGTAGCTC
*
38286698 AAGATATAAATAATTTAGGAACAGTGACTT
1 AAGATATAAATAATTTAGGAACAGCGACTT
*
38286728 AAGATATAAATAATTTAGTAACAGCGACT
1 AAGATATAAATAATTTAGGAACAGCGACT
38286757 CAAGTGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.29
Consensus pattern (30 bp):
AAGATATAAATAATTTAGGAACAGCGACTT
Found at i:38287984 original size:3 final size:3
Alignment explanation
Indices: 38287978--38288021 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
38287968 ATTATTGAAT
*
38287978 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38288022 GCATTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:38300657 original size:49 final size:50
Alignment explanation
Indices: 38300578--38301441 Score: 328
Period size: 49 Copynumber: 17.7 Consensus size: 50
38300568 TCAATTTAAA
* * * * *
38300578 AGATCGAAGCCACGACGGCGAATCTTACTTCCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * ** * * ** *
38300627 AGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
** * * * *
38300677 AGATCAAAGCCATAACGGTGAATCTTACCTT-CTGG-CATTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTA-CTTCCAGGCCATTGCAGTGGAAC
* * * * ** *
38300726 AGATTGAAGCTACAACAGCGAGTCTCACTTCC---CCATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * * * *
38300773 AGATCGAGGCCACAACGGCGAATCTTACTTCCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * ** *
38300822 AGATTGAAGCTACAACGGCGAGTCTTACTTCC---CCATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * * * * * *
38300869 AGATCGAAGCCACAACGACAAATCTTACTTTCAGG-CAATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * * ** *
38300918 AGATTGAAGCTACAACGGCGAGTCTCACTTCC---CCATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * * * * * *
38300965 AGATCGAAGCCACAACGACAAATCTTACTTTCAGG-CAATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * * ** *
38301014 AGATTGAAGCTACAACGGCGAGTCTCACTTCC---CCATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * * * * * ***
38301061 AGATCGAGGCCACGACGGC-AGATCTTACTTACTTA-GCGA-TGCAGCAAAAC
1 AGATTGAAGCTACAACGGCGA-ATCTTACTT-C-CAGGCCATTGCAGTGGAAC
* * ** * * ** *
38301111 AGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * * * * ***
38301161 AGATTGAGGCCACGACGGC-AGATCTTACTTACTTA-GCGA-TGCAGCAAAAC
1 AGATTGAAGCTACAACGGCGA-ATCTTACTT-C-CAGGCCATTGCAGTGGAAC
* * ** * * ** *
38301211 AGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * * * * * *
38301261 AGATTGAGGCCACGACGGC-AGATCTTACTTCCAAG-CAATGCAGCGTAAC
1 AGATTGAAGCTACAACGGCGA-ATCTTACTTCCAGGCCATTGCAGTGGAAC
* * ** * * * *
38301310 AGATTGAAGCTACAATGGCGAATCTCACTTCCCTGACATTGCAAT-TAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
* * ** * * *
38301359 AGATTGAGGCCACAACGGTAAATCTTA-TTCCTAAG-CAGGTACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCC-AGGCCA-TTGCAGTGGAAC
* * *
38301409 AGATTAAAGCTACAATGGCGAATCTCACTTCCA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCA
38301442 TGATATTTTA
Statistics
Matches: 567, Mismatches: 211, Indels: 73
0.67 0.25 0.09
Matches are distributed among these distances:
46 3 0.01
47 131 0.23
48 10 0.02
49 231 0.41
50 178 0.31
51 14 0.02
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCAGGCCATTGCAGTGGAAC
Found at i:38300821 original size:96 final size:96
Alignment explanation
Indices: 38300569--38301440 Score: 1017
Period size: 96 Copynumber: 8.9 Consensus size: 96
38300559 CCATAGTTTT
* *
38300569 CAATTTAAAAGATCGAAGCCACGACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGA
1 CAATTTAAAAGATCGAGGCCACAACGGC-AATCTTACTTCCAGGCGATGCAGCGGAACAGATTGA
*
38300634 AGCTACAACAGCGAATCTCACTTCCCCGACATTG
65 AGCTACAACGGCGAATCTCACTT-CCC-ACATTG
* * * * * *
38300668 CAATTTAAAAGATCAAAGCCATAACGGTGAATCTTACCTT-CTGGC-ATTGCAGTGGAACAGATT
1 CAATTTAAAAGATCGAGGCCACAACGG-CAATCTTA-CTTCCAGGCGA-TGCAGCGGAACAGATT
* *
38300731 GAAGCTACAACAGCGAGTCTCACTTCCC-CATTG
63 GAAGCTACAACGGCGAATCTCACTTCCCACATTG
38300764 CAATTTAAAAGATCGAGGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGA
1 CAATTTAAAAGATCGAGGCCACAACGGC-AATCTTACTTCCAGGCGATGCAGCGGAACAGATTGA
* *
38300829 AGCTACAACGGCGAGTCTTACTTCCC-CATTG
65 AGCTACAACGGCGAATCTCACTTCCCACATTG
* * * *
38300860 CAATTTAAAAGATCGAAGCCACAACGACAAATCTTACTTTCAGGCAATGCAGCGGAACAGATTGA
1 CAATTTAAAAGATCGAGGCCACAACGGC-AATCTTACTTCCAGGCGATGCAGCGGAACAGATTGA
*
38300925 AGCTACAACGGCGAGTCTCACTTCCC-CATTG
65 AGCTACAACGGCGAATCTCACTTCCCACATTG
* * * *
38300956 CAATTTAAAAGATCGAAGCCACAACGACAAATCTTACTTTCAGGCAATGCAGCGGAACAGATTGA
1 CAATTTAAAAGATCGAGGCCACAACGGC-AATCTTACTTCCAGGCGATGCAGCGGAACAGATTGA
*
38301021 AGCTACAACGGCGAGTCTCACTTCCC-CATTG
65 AGCTACAACGGCGAATCTCACTTCCCACATTG
* * **
38301052 CAATTTAAAAGATCGAGGCCACGACGGCAGATCTTACTTACTTA-GCGATGCAGCAAAACAGATT
1 CAATTTAAAAGATCGAGGCCACAACGGCA-ATCTTACTT-C-CAGGCGATGCAGCGGAACAGATT
*
38301116 GAAGCTACAACGGTGAATCTCACTTCCCCGACATTG
63 GAAGCTACAACGGCGAATCTCACTT-CCC-ACATTG
* * * **
38301152 CAATTTAAAAGATTGAGGCCACGACGGCAGATCTTACTTACTTA-GCGATGCAGCAAAACAGATT
1 CAATTTAAAAGATCGAGGCCACAACGGCA-ATCTTACTT-C-CAGGCGATGCAGCGGAACAGATT
*
38301216 GAAGCTACAACGGTGAATCTCACTTCCCCGACATTG
63 GAAGCTACAACGGCGAATCTCACTT-CCC-ACATTG
* * * * *
38301252 CAATTTAAAAGATTGAGGCCACGACGGCAGATCTTACTTCCAAGCAATGCAGCGTAACAGATTGA
1 CAATTTAAAAGATCGAGGCCACAACGGCA-ATCTTACTTCCAGGCGATGCAGCGGAACAGATTGA
*
38301317 AGCTACAATGGCGAATCTCACTTCCCTGACATTG
65 AGCTACAACGGCGAATCTCACTTCCC--ACATTG
* * * * * *
38301351 CAA-TTAAAAGATTGAGGCCACAACGGTAAATCTTA-TTCCTAAGCAGGTACAGTGGAACAGATT
1 CAATTTAAAAGATCGAGGCCACAACGG-CAATCTTACTTCC-AGGC-GATGCAGCGGAACAGATT
* *
38301414 AAAGCTACAATGGCGAATCTCACTTCC
63 GAAGCTACAACGGCGAATCTCACTTCC
38301441 ATGATATTTT
Statistics
Matches: 710, Mismatches: 46, Indels: 34
0.90 0.06 0.04
Matches are distributed among these distances:
95 4 0.01
96 306 0.43
97 45 0.06
98 44 0.06
99 165 0.23
100 146 0.21
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (96 bp):
CAATTTAAAAGATCGAGGCCACAACGGCAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAA
GCTACAACGGCGAATCTCACTTCCCACATTG
Found at i:38302904 original size:3 final size:3
Alignment explanation
Indices: 38302898--38302962 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
38302888 ATTATTGAAT
38302898 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
38302946 TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
38302963 GCATTTTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:38302906 original size:15 final size:13
Alignment explanation
Indices: 38302882--38302962 Score: 100
Period size: 12 Copynumber: 6.4 Consensus size: 13
38302872 TCCTGTCATT
38302882 TTATTTATTATTGA
1 TTATTTATTATT-A
38302896 --ATTTATTATTA
1 TTATTTATTATTA
38302907 TTA-TTATTATTA
1 TTATTTATTATTA
38302919 TTA-TTATTATTA
1 TTATTTATTATTA
38302931 TTA-TTATTATTA
1 TTATTTATTATTA
38302943 TTATTATCATTATTA
1 TTATT-T-ATTATTA
38302958 TTATT
1 TTATT
38302963 GCATTTTATT
Statistics
Matches: 62, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.02
12 46 0.74
13 2 0.03
14 1 0.02
15 12 0.19
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:38311304 original size:67 final size:66
Alignment explanation
Indices: 38311221--38311345 Score: 198
Period size: 67 Copynumber: 1.9 Consensus size: 66
38311211 ATTGTTTAAA
* *
38311221 GAGAAATTATTTTATGGA-CCTTTCCCACCATATCATTTATGGTCCCTTTTCAATTATTTCTCGA
1 GAGAAATTATTTTATGGATCC-TTCCCACCACATCATTCATGGT-CCTTTTCAATTATTTCTCGA
38311285 AAC
64 AAC
*
38311288 GAGAAATTATTTTATGGATCCTTCCCACCGCATCATTCATGGTCCTTTTCAATTATTT
1 GAGAAATTATTTTATGGATCCTTCCCACCACATCATTCATGGTCCTTTTCAATTATTT
38311346 AATGAAATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
66 15 0.28
67 37 0.69
68 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (66 bp):
GAGAAATTATTTTATGGATCCTTCCCACCACATCATTCATGGTCCTTTTCAATTATTTCTCGAAA
C
Found at i:38317824 original size:27 final size:26
Alignment explanation
Indices: 38317762--38317827 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
38317752 TCCTGTCAAC
*
38317762 CTTTGTGGCATACTCTGTATGAATCG
1 CTTTGTGGCATACTCTATATGAATCG
* *
38317788 CATTTTTGGCATACTCTATATGAATTG
1 C-TTTGTGGCATACTCTATATGAATCG
38317815 TCTTTGTGGCATA
1 -CTTTGTGGCATA
38317828 TTTTGTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (26 bp):
CTTTGTGGCATACTCTATATGAATCG
Found at i:38328804 original size:26 final size:26
Alignment explanation
Indices: 38328774--38328826 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
38328764 ATTTTAACAC
38328774 ATATTT-TATA-ATTTCTATATATTTTT
1 ATATTTCTATATATTTCT-T-TATTTTT
*
38328800 ATATTTCTATATTTTTCTTTATTTTT
1 ATATTTCTATATATTTCTTTATTTTT
38328826 A
1 A
38328827 CAAATATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 14 0.58
27 5 0.21
28 5 0.21
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (26 bp):
ATATTTCTATATATTTCTTTATTTTT
Found at i:38328823 original size:18 final size:18
Alignment explanation
Indices: 38328777--38328815 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
38328767 TTAACACATA
38328777 TTTTATAATTTCTATATAT
1 TTTTAT-ATTTCTATATAT
38328796 TTTTATATTTCTATAT-T
1 TTTTATATTTCTATATAT
38328813 TTT
1 TTT
38328816 CTTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATATTTCTATATAT
Found at i:38328861 original size:10 final size:12
Alignment explanation
Indices: 38328844--38328875 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
38328834 GTATTTTGTT
38328844 TATATAAATTT-
1 TATATAAATTTA
38328855 T-TATAAATTTA
1 TATATAAATTTA
38328866 TATATAAATT
1 TATATAAATT
38328876 CATGTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.47
11 2 0.11
12 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TATATAAATTTA
Found at i:38328954 original size:19 final size:19
Alignment explanation
Indices: 38328917--38328968 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
38328907 TGTCATGTAC
* *
38328917 CTTTATTTTTTTGTTTTTT
1 CTTTATTTTTTTATGTTTT
*
38328936 TTTTATTTTTTTATGTTTT
1 CTTTATTTTTTTATGTTTT
* *
38328955 CATTAATTTTTTAT
1 CTTTATTTTTTTAT
38328969 CTTGCTCGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (19 bp):
CTTTATTTTTTTATGTTTT
Found at i:38335211 original size:88 final size:88
Alignment explanation
Indices: 38335049--38335726 Score: 865
Period size: 88 Copynumber: 7.7 Consensus size: 88
38335039 GTGAAGATAA
* * *
38335049 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
* *
38335114 GTAGTGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * **
38335137 CAGATCTTGCCTTCCTGCGTCGACAGCAAAGCAGATAAAAGACACCAACCTTGCCTCCCTAAGTT
1 CAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
38335202 GCAGCGGAGCAGGTTTAAAAATAG
66 GCAGCGGAGCAGG-TTAAAAATAG
* * * * * *
38335226 CAGATCTTGCCTTCCTCCACCGATAGCGAAGCAGATCGAAGACACCAACCTTACCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
*
38335291 GCAGTGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * ** *
38335314 CAGATCTTGCTTTCCTGCGCCGACAGTGAAATAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
* * *
38335379 GTAGCAGAGCAGGTTAAAAAAAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * *
38335402 TAGATCTTGCCTTCCTGCGCCAACAACGAAACAAATCAAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
*
38335467 GCAGTGGAGCAGGTT-AAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * *
38335489 CATATTTTGCCTTCCTACGCCGACAGCGAAGCAGATCGAAA-ACACCAGCCTTACCTCCCTGGGT
1 CAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATC-AAAGACACCAACCTTGCCTCCCTGGGT
*
38335553 TGCAGCGGAGCAGGTTAAAAATAC
65 TGCAGCGGAGCAGGTTAAAAATAG
* *
38335577 CAGATCTTGCCTTCCTGAGTCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
**
38335642 GCAGCGGAATAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * * * * *
38335665 TAGATCTTGCCTTCCTGCACTGACAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGG
1 CAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGG
38335727 ACAGCAGTGG
Statistics
Matches: 509, Mismatches: 77, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
87 74 0.15
88 357 0.70
89 78 0.15
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:38335358 original size:177 final size:176
Alignment explanation
Indices: 38335049--38335726 Score: 885
Period size: 175 Copynumber: 3.9 Consensus size: 176
38335039 GTGAAGATAA
*
38335049 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTAGGTT
* * * **
38335114 GTAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGTCGACAG-CAAAGCAGATAAAAG
66 GCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGTGAAA-CAGATCGAAG
**
38335178 ACACCAACCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTTAAAAATAG
130 ACACCAACCTTGCCTCCCTGGGTTGCAGCGGAGCAGG-TTAAAAATAG
* * * *
38335226 CAGATCTTGCCTTCCTCCACCGATAGCGAAGCAGATCGAAGACACCAACCTTACCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTAGGTT
* *
38335291 GCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCTTTCCTGCGCCGACAGTGAAATAGATCGAAGA
66 GCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGTGAAACAGATCGAAGA
* * *
38335356 CACCAACCTTGCCTCCCTGGGTTGTAGCAGAGCAGGTTAAAAAAAG
131 CACCAACCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAG
* * * * * * *
38335402 TAGATCTTGCCTTCCTGCGCCAACAACGAAACAAATCAAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTAGGTT
* * * * * *
38335467 GCAGTGGAGCAGGTT-AAAATAGCATATTTTGCCTTCCTACGCCGACAGCGAAGCAGATCGAAAA
66 GCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGTGAAACAGATCGAAGA
* * *
38335531 CACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAC
131 CACCAACCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAG
* *
38335577 CAGATCTTGCCTTCCTG-AGTCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGT
1 CAGATCTTGCCTTCCTGCA-CCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTAGGT
* ** * * * * *
38335641 TGCAGCGGAATAGGTTAAAAATAGTAGATCTTGCCTTCCTGCACTGACAGTGGAGCAGATCGAAG
65 TGCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGTGAAACAGATCGAAG
* * * *
38335706 TCCCCAGCCTTGTCTCCCTGG
130 ACACCAACCTTGCCTCCCTGG
38335727 ACAGCAGTGG
Statistics
Matches: 435, Mismatches: 63, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
175 150 0.34
176 134 0.31
177 148 0.34
178 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (176 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTAGGTT
GCAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCCGACAGTGAAACAGATCGAAGA
CACCAACCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAG
Found at i:38335565 original size:43 final size:42
Alignment explanation
Indices: 38335512--38335647 Score: 137
Period size: 44 Copynumber: 3.1 Consensus size: 42
38335502 CCTACGCCGA
*
38335512 CAGCGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGGGTTG
1 CAGCGAAGCAGATC-AAAACACCAGCCTTGCCTCCCTGGGTTG
* * * * * * * *
38335555 CAGCGGAGCAGGTTAAAAATACCAGATCTTGCCTTCCTGAGTCG
1 CAGCGAAGCA-GATCAAAACACCAG-CCTTGCCTCCCTGGGTTG
*
38335599 ACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTTG
1 -CAGCGAAGCAGATCAAA-ACACCAGCCTTGCCTCCCTGGGTTG
38335643 CAGCG
1 CAGCG
38335648 GAATAGGTTA
Statistics
Matches: 71, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
43 23 0.32
44 34 0.48
45 14 0.20
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (42 bp):
CAGCGAAGCAGATCAAAACACCAGCCTTGCCTCCCTGGGTTG
Found at i:38335638 original size:263 final size:265
Alignment explanation
Indices: 38335049--38335682 Score: 925
Period size: 263 Copynumber: 2.4 Consensus size: 265
38335039 GTGAAGATAA
*
38335049 CAGATCTTGCCTTCCTGCA-CCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGT
1 CAGATCTTGCCTTCCTG-AGCCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGT
* * * * * *
38335113 TGTAGTGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGTCGACAGCAAAGCAGATAAAAG
65 TGTAGCGGAGCAGGTTAAAAATAGTAGATCTTGCCTTCCTGCGCCAACAACAAAGCAAATAAAAG
*
38335178 ACACCAACCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTTAAAAATAGCAGATCTTGCCTTCCTC
130 ACACCAACCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTTAAAAATAGCAGATCTTGCCTTCCTA
* * *
38335243 CACCGATAGCGAAGCAGATCGAAGACACCAACCTTACCTCCCTAGGTTGCAGTGGAGCAGGTTAA
195 CACCGACAGCGAAGCAGATCGAAAACACCAACCTTACCTCCCTAGGTTGCAGCGGAGCAGGTTAA
*
38335308 AAATAG
260 AAATAC
* * * **
38335314 CAGATCTTGCTTTCCTGCGCCGACAGTGAAATAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGAGCCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
* * *
38335379 GTAGCAGAGCAGGTTAAAAAAAGTAGATCTTGCCTTCCTGCGCCAACAACGAAA-CAAATCAAAG
66 GTAGCGGAGCAGGTTAAAAATAGTAGATCTTGCCTTCCTGCGCCAACAAC-AAAGCAAATAAAAG
** * * *
38335443 ACACCAACCTTGCCTCCCTGGGTTGCAGTGGAGCAGG-TT-AAAATAGCATATTTTGCCTTCCTA
130 ACACCAACCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTTAAAAATAGCAGATCTTGCCTTCCTA
* * *
38335506 CGCCGACAGCGAAGCAGATCGAAAACACCAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGTTAA
195 CACCGACAGCGAAGCAGATCGAAAACACCAACCTTACCTCCCTAGGTTGCAGCGGAGCAGGTTAA
38335571 AAATAC
260 AAATAC
* *
38335577 CAGATCTTGCCTTCCTGAGTCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGAGCCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
* **
38335642 GCAGCGGAATAGGTTAAAAATAGTAGATCTTGCCTTCCTGC
66 GTAGCGGAGCAGGTTAAAAATAGTAGATCTTGCCTTCCTGC
38335683 ACTGACAGTG
Statistics
Matches: 327, Mismatches: 40, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
263 179 0.55
264 2 0.01
265 143 0.44
266 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (265 bp):
CAGATCTTGCCTTCCTGAGCCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTGGGTT
GTAGCGGAGCAGGTTAAAAATAGTAGATCTTGCCTTCCTGCGCCAACAACAAAGCAAATAAAAGA
CACCAACCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTTAAAAATAGCAGATCTTGCCTTCCTAC
ACCGACAGCGAAGCAGATCGAAAACACCAACCTTACCTCCCTAGGTTGCAGCGGAGCAGGTTAAA
AATAC
Found at i:38335674 original size:44 final size:44
Alignment explanation
Indices: 38335542--38335681 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
38335532 ACCAGCCTTA
*
38335542 CCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATACCAGATCTTG
1 CCTCCCTGGGTTGCAGCGGAACAGGTTAAAAATACCAGATCTTG
* * * * * * * *
38335586 CCTTCCTGAGTCGACAGC-GAAGCAGATCAAAGACACCA-ACCTTG
1 CCTCCCTGGGTTG-CAGCGGAA-CAGGTTAAAAATACCAGATCTTG
* **
38335630 CCTCCCTGGGTTGCAGCGGAATAGGTTAAAAATAGTAGATCTTG
1 CCTCCCTGGGTTGCAGCGGAACAGGTTAAAAATACCAGATCTTG
*
38335674 CCTTCCTG
1 CCTCCCTG
38335682 CACTGACAGT
Statistics
Matches: 71, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 13 0.18
44 42 0.59
45 16 0.23
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (44 bp):
CCTCCCTGGGTTGCAGCGGAACAGGTTAAAAATACCAGATCTTG
Done.