Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 188 of 207
Found at i:57103142 original size:62 final size:60
Alignment explanation
Indices: 57103006--57103142 Score: 168
Period size: 62 Copynumber: 2.2 Consensus size: 60
57102996 ATTTTACAAG
* * * * *
57103006 TAGTCATCCAATTATTAGTAAATTTATTTTTTGATCACTCAACTACGAAATGTTATAAAA
1 TAGTCACCCAACTATTAGTAAATTTATTTTTTGATCACCCAACTAAGAAAAGTTATAAAA
* *
57103066 TAGTCACCCAACTATTAGTAAATTTCTTTTTTCTAGTCACCCAACTAAGAAAAGTTA-AGAAA
1 TAGTCACCCAACTATTAGTAAATTTATTTTTT-GA-TCACCCAACTAAGAAAAGTTATA-AAA
*
57103128 TGGTCACCCAACTAT
1 TAGTCACCCAACTAT
57103143 CCAATTTTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 29 0.44
61 2 0.03
62 35 0.53
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (60 bp):
TAGTCACCCAACTATTAGTAAATTTATTTTTTGATCACCCAACTAAGAAAAGTTATAAAA
Found at i:57108032 original size:21 final size:19
Alignment explanation
Indices: 57107989--57108035 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
57107979 CGAATACGCC
*
57107989 AACAGAAGCTCAAAAGTTG
1 AACAGAAGCTCAAAAGCTG
*
57108008 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTC--AAAAGCTG
57108029 AACAGAA
1 AACAGAA
57108036 AGTAATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
21 13 0.54
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (19 bp):
AACAGAAGCTCAAAAGCTG
Found at i:57110666 original size:27 final size:30
Alignment explanation
Indices: 57110602--57110673 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
57110592 TATTTTAATA
* *
57110602 TATATACATTATTTAGTTTAAATTGTCTTT
1 TATATATATTATTTAGTTTAAATTGTATTT
57110632 TAATATATATTATTTAGTTTAAA-T-TATTT
1 T-ATATATATTATTTAGTTTAAATTGTATTT
*
57110661 T-TATATGTTATTT
1 TATATATATTATTT
57110674 CAAAATTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 11 0.29
29 5 0.13
30 2 0.05
31 20 0.53
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.60
Consensus pattern (30 bp):
TATATATATTATTTAGTTTAAATTGTATTT
Found at i:57110943 original size:22 final size:22
Alignment explanation
Indices: 57110895--57110944 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
57110885 TTTTCACGTA
* *
57110895 CTATTTATTTGTTTTTTATCAC
1 CTATTTAATTGTTTTCTATCAC
*
57110917 TTATTTAAATTGTTTTCTAT-AC
1 CTATTT-AATTGTTTTCTATCAC
57110939 CTATTT
1 CTATTT
57110945 TTAAACCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.22, C:0.12, G:0.04, T:0.62
Consensus pattern (22 bp):
CTATTTAATTGTTTTCTATCAC
Found at i:57119829 original size:13 final size:13
Alignment explanation
Indices: 57119804--57119837 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
57119794 TCTAACTTAG
57119804 GTCACACGACCAA
1 GTCACACGACCAA
* *
57119817 GTTACACGGCCAA
1 GTCACACGACCAA
57119830 GTCACACG
1 GTCACACG
57119838 TTCGTGTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.35, G:0.21, T:0.12
Consensus pattern (13 bp):
GTCACACGACCAA
Found at i:57120813 original size:21 final size:21
Alignment explanation
Indices: 57120765--57120834 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
57120755 CGAATACACC
**
57120765 AACAGAAGCTCGTAAGAATTG
1 AACAGAAGCTCGTAAGAGCTG
* *
57120786 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
57120807 AACAGAAGCTCAG-AAGAGCTG
1 AACAGAAGCTC-GTAAGAGCTG
57120828 AACAGAA
1 AACAGAA
57120835 AGTAAAACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:57124126 original size:3 final size:3
Alignment explanation
Indices: 57124110--57124186 Score: 66
Period size: 3 Copynumber: 25.3 Consensus size: 3
57124100 TATGATAAAT
* * *
57124110 ATA ATA ATCT ATA ATA ATA AGA GTA ATA ATA TATA ATA ATA ATA A-A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
** * *
57124156 AGG CTA ATA ATA ATA ATA ATA ATA TTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
57124187 ACTAATATTA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.03
3 51 0.88
4 5 0.09
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:57124191 original size:29 final size:30
Alignment explanation
Indices: 57124133--57124193 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
57124123 ATAATAAGAG
*
57124133 TAATAATATATAATAATAATAAAAGGCTAA
1 TAATAATATATAATAATAATAAAAGACTAA
*
57124163 TAATAATA-ATAATAATATTAATAA-ACTAA
1 TAATAATATATAATAATAATAA-AAGACTAA
57124192 TA
1 TA
57124194 TTAAACAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (30 bp):
TAATAATATATAATAATAATAAAAGACTAA
Found at i:57134579 original size:12 final size:13
Alignment explanation
Indices: 57134552--57134582 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
57134542 TCATTTAATC
57134552 ATCAAGTTTTTCA
1 ATCAAGTTTTTCA
57134565 ATCAAGTTTTT-A
1 ATCAAGTTTTTCA
57134577 ATCAAG
1 ATCAAG
57134583 CTTTCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (13 bp):
ATCAAGTTTTTCA
Found at i:57136578 original size:20 final size:22
Alignment explanation
Indices: 57136527--57136578 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 22
57136517 ATTCAAATTT
*
57136527 TAAAGGTAAAATCTTTAAAAGAA
1 TAAA-GTAAAATATTTAAAAGAA
57136550 TAATA-TAAAATATTT-AAA-AA
1 TAA-AGTAAAATATTTAAAAGAA
57136570 TAAAGTAAA
1 TAAAGTAAA
57136579 CTAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.04
20 9 0.35
21 3 0.12
22 9 0.35
23 3 0.12
24 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (22 bp):
TAAAGTAAAATATTTAAAAGAA
Found at i:57137273 original size:14 final size:14
Alignment explanation
Indices: 57137252--57137285 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
57137242 TGGTATGGGT
57137252 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
57137265 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
57137279 TTATAGG
1 TTATAGG
57137286 TAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:57138600 original size:33 final size:33
Alignment explanation
Indices: 57138555--57138625 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
57138545 TATTATGGGT
*
57138555 TTATAACGATTATCTTTCTATAACAATATACTA
1 TTATAACAATTATCTTTCTATAACAATATACTA
* * *
57138588 TTATAACAATTATTTTTCTGTAACAATGTACTA
1 TTATAACAATTATCTTTCTATAACAATATACTA
57138621 TTATA
1 TTATA
57138626 CGAGACTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (33 bp):
TTATAACAATTATCTTTCTATAACAATATACTA
Found at i:57141805 original size:15 final size:15
Alignment explanation
Indices: 57141785--57141813 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57141775 ATGCGTGGCC
57141785 CCCTCGTCTGCCACA
1 CCCTCGTCTGCCACA
57141800 CCCTCGTCTGCCAC
1 CCCTCGTCTGCCAC
57141814 GCCTCCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.55, G:0.14, T:0.21
Consensus pattern (15 bp):
CCCTCGTCTGCCACA
Found at i:57142900 original size:16 final size:16
Alignment explanation
Indices: 57142881--57142911 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57142871 TATTGTTATC
*
57142881 TATTTATTTATATTTA
1 TATTTATTTAAATTTA
57142897 TATTTATTTAAATTT
1 TATTTATTTAAATTT
57142912 TCGGTACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATTTAAATTTA
Found at i:57145219 original size:266 final size:266
Alignment explanation
Indices: 57144745--57145274 Score: 988
Period size: 266 Copynumber: 2.0 Consensus size: 266
57144735 CGTGATAAGA
*
57144745 GAAGGATGATAGTTTAATGAAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGAAGGACCACACAACCATTGCTCCATGGCCCGAGAATTTAATGTGAC
*
57144810 AAGGATTATTTGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
*
57144875 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACTTCCCTTTTGAAGAGTT
131 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
*
57144940 CGTGAGACTTATCTTAACGCTCGAATGAAGAAAATGATCGAATGTCTCCACATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCACATATGAGGGCAAAG
57145005 CCGTGT
261 CCGTGT
* *
57145011 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCATGGCCCTAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGAAGGACCACACAACCATTGCTCCATGGCCCGAGAATTTAATGTGAC
57145076 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
*
57145141 GAGCAGCGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
131 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
*
57145206 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCACATATGAGGGCAAAG
57145271 CCGT
261 CCGT
57145275 ATATGTATCC
Statistics
Matches: 256, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 256 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (266 bp):
GAAGGATGATAGTTTAATGAAGGACCACACAACCATTGCTCCATGGCCCGAGAATTTAATGTGAC
AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCACATATGAGGGCAAAG
CCGTGT
Found at i:57150484 original size:132 final size:132
Alignment explanation
Indices: 57150247--57150987 Score: 1279
Period size: 132 Copynumber: 5.6 Consensus size: 132
57150237 TGAAGTCATT
* *
57150247 AAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAGGATAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
*
57150312 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
57150377 AG
131 AG
*
57150379 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
*
57150444 TATTGGTAGGAAGTGGATCGAAGATGCAGATCATGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
57150509 AG
131 AG
*
57150511 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* * *
57150576 TATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
57150641 AG
131 AG
*
57150643 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
57150708 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
57150773 AG
131 AG
* *
57150775 AAAGCAGATCTTGCCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* * *
57150840 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGT-G-GAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
57150903 AG
131 AG
* * * * **
57150905 AAAGCAGATCTTGTATTCATATATTGGTGTGAAATAGATCGAAGATAGCAGATCCTGCCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
57150970 TATTGGTAGGAAGTGGAT
66 TATTGGTAGGAAGTGGAT
57150988 TGAAAAACAG
Statistics
Matches: 578, Mismatches: 31, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
130 87 0.15
131 1 0.00
132 490 0.85
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
AG
Found at i:57151184 original size:40 final size:40
Alignment explanation
Indices: 57151139--57151373 Score: 251
Period size: 40 Copynumber: 5.8 Consensus size: 40
57151129 AAGATTTCAG
* *
57151139 GTCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAA
1 GTCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCACCAA
* * *
57151179 GTCTTATCTCCCTAAGTAGTAGCGAAG-AGGA-CGAAACCACA
1 GTCTTATCTCCCTAAGTAGTAGTGGAGCA-GATCG-CACCA-A
* * *
57151220 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAA
1 G-TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCACCAA
* * * * *
57151261 GTCTTATCTCCTTAAGCAGTAGCGGAGCAGA-AGAAACCACA
1 GTCTTATCTCCCTAAGTAGTAGTGGAGCAGATCG-CACCA-A
*
57151302 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACACCAA
1 G-TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCACCAA
*
57151343 GTCTTATCTCCCTAAATAGTAGTGGAGCAGA
1 GTCTTATCTCCCTAAGTAGTAGTGGAGCAGA
57151374 CTAAAAACAC
Statistics
Matches: 161, Mismatches: 24, Indels: 20
0.79 0.12 0.10
Matches are distributed among these distances:
39 3 0.02
40 89 0.55
41 8 0.05
42 59 0.37
43 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (40 bp):
GTCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCACCAA
Found at i:57151236 original size:82 final size:82
Alignment explanation
Indices: 57151140--57151373 Score: 353
Period size: 82 Copynumber: 2.9 Consensus size: 82
57151130 AGATTTCAGG
* *
57151140 TCTTATCTCCCTAAGTAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGTAGCGAA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAGTAGCGAA
*
57151205 G-AGGACGAAACCACAGA
66 GCA-GAAGAAACCACAGA
* * * *
57151222 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCTTAAGCAGTAGCGGA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAGTAGCGAA
57151287 GCAGAAGAAACCACAGA
66 GCAGAAGAAACCACAGA
* * * *
57151304 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACACCAAGTCTTATCTCCCTAAATAGTAGTGGA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAGTAGCGAA
57151369 GCAGA
66 GCAGA
57151374 CTAAAAACAC
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
82 137 0.99
83 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (82 bp):
TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGTAGTAGCGAA
GCAGAAGAAACCACAGA
Found at i:57151863 original size:15 final size:15
Alignment explanation
Indices: 57151843--57151874 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
57151833 ATGCGTGGCC
57151843 CCCTCGTCTGCCACG
1 CCCTCGTCTGCCACG
57151858 CCCTCGTCTGCCACG
1 CCCTCGTCTGCCACG
57151873 CC
1 CC
57151875 TCCAACTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.56, G:0.19, T:0.19
Consensus pattern (15 bp):
CCCTCGTCTGCCACG
Found at i:57152957 original size:16 final size:16
Alignment explanation
Indices: 57152938--57152968 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57152928 TATTGTTATC
*
57152938 TATTTATTTATATTTA
1 TATTTATTTAAATTTA
57152954 TATTTATTTAAATTT
1 TATTTATTTAAATTT
57152969 TCGGTACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATTTAAATTTA
Found at i:57155736 original size:24 final size:24
Alignment explanation
Indices: 57155691--57155738 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
57155681 GAATAGCCGT
* *
57155691 ATATCGAGAAGTTCAAGTGAGCCA
1 ATATCGAGAAGCTCAAGAGAGCCA
* *
57155715 ATATTGAGAAGCTCTAGAGAGCCA
1 ATATCGAGAAGCTCAAGAGAGCCA
57155739 TTAATAAGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (24 bp):
ATATCGAGAAGCTCAAGAGAGCCA
Found at i:57157956 original size:50 final size:50
Alignment explanation
Indices: 57157878--57158008 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 50
57157868 ACCGTATGTT
* * *
57157878 AGGCCATGTAACTCACTGTTTGTAAATTAGAGTCATACGAGCATGTGTCC
1 AGGCCGTGTAACTCACTGTTTGTGAATTAGAGTCACACGAGCATGTGTCC
* *
57157928 AGGCCGTGTAACTCACTGTTTGTGAATTAGAGTCACACGGGCGTGTGTCC
1 AGGCCGTGTAACTCACTGTTTGTGAATTAGAGTCACACGAGCATGTGTCC
* * * *
57157978 AAGCCGTGTAACTCACTATTTATGAGTTAGA
1 AGGCCGTGTAACTCACTGTTTGTGAATTAGA
57158009 AGCATACAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (50 bp):
AGGCCGTGTAACTCACTGTTTGTGAATTAGAGTCACACGAGCATGTGTCC
Found at i:57159465 original size:21 final size:21
Alignment explanation
Indices: 57159441--57159480 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
57159431 AGAAAAAGTA
57159441 AATGGGAGAGTAAAATTTTAG
1 AATGGGAGAGTAAAATTTTAG
57159462 AATGGGAGAGTAAAATTTT
1 AATGGGAGAGTAAAATTTT
57159481 GGTGGGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (21 bp):
AATGGGAGAGTAAAATTTTAG
Found at i:57159562 original size:28 final size:29
Alignment explanation
Indices: 57159530--57159601 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
57159520 GGAGGGGAGG
57159530 GGAGTAAAAGTTTTGGGGG-AAGTGGGAA
1 GGAGTAAAAGTTTTGGGGGAAAGTGGGAA
57159558 GGAGTAAAAGTTTTGGGGGAAAGTGGGAA
1 GGAGTAAAAGTTTTGGGGGAAAGTGGGAA
57159587 GGAGTAAAAGTTTTG
1 GGAGTAAAAGTTTTG
57159602 AAGGAAAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 19 0.44
29 24 0.56
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.24
Consensus pattern (29 bp):
GGAGTAAAAGTTTTGGGGGAAAGTGGGAA
Found at i:57164731 original size:10 final size:10
Alignment explanation
Indices: 57164683--57164760 Score: 60
Period size: 9 Copynumber: 8.2 Consensus size: 10
57164673 ATGTAGCAAA
57164683 AAAAATTA-T
1 AAAAATTATT
*
57164692 AAAAA--ATA
1 AAAAATTATT
*
57164700 AAAAATTAAT
1 AAAAATTATT
*
57164710 AAAAGTTA-T
1 AAAAATTATT
57164719 AAAAATTATT
1 AAAAATTATT
*
57164729 -AAATTATATT
1 AAAAAT-TATT
57164739 AAAAA-TATT
1 AAAAATTATT
57164748 AAAAATTAATT
1 AAAAATT-ATT
57164759 AA
1 AA
57164761 TTTTTATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
7 1 0.02
8 5 0.09
9 26 0.48
10 14 0.26
11 8 0.15
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAAATTATT
Found at i:57164782 original size:30 final size:30
Alignment explanation
Indices: 57164719--57164813 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
57164709 TAAAAGTTAT
* * *
57164719 AAAAATTATTAAATTATATTAAAAAT-AT-T
1 AAAAATTATAAAATTTTA-TAAAAATCATAA
* * *
57164748 AAAAATTAATTAATTTTTATACAAATCATAA
1 AAAAATT-ATAAAATTTTATAAAAATCATAA
*
57164779 AAAAATTGTAAAATTTTATAAAAATCATAA
1 AAAAATTATAAAATTTTATAAAAATCATAA
57164809 AAAAA
1 AAAAA
57164814 GTCATTTAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
29 13 0.24
30 35 0.64
31 7 0.13
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAAATTATAAAATTTTATAAAAATCATAA
Found at i:57165033 original size:10 final size:10
Alignment explanation
Indices: 57165002--57165091 Score: 53
Period size: 10 Copynumber: 9.2 Consensus size: 10
57164992 ATTTTACGAG
57165002 TTTTAT-ATT
1 TTTTATAATT
*
57165011 TCTTTA-AAAT
1 T-TTTATAATT
57165021 TTTTATAATT
1 TTTTATAATT
*
57165031 TTTTATGA--
1 TTTTATAATT
* **
57165039 CTTTATAAAA
1 TTTTATAATT
57165049 TTTTATAATT
1 TTTTATAATT
**
57165059 TTTTACGATT
1 TTTTATAATT
* *
57165069 TTTTACGATTT
1 TTTTA-TAATT
57165080 TTTTATAATT
1 TTTTATAATT
57165090 TT
1 TT
57165092 AAATAAAATT
Statistics
Matches: 60, Mismatches: 15, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
8 6 0.10
9 5 0.08
10 42 0.70
11 7 0.12
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:57165084 original size:11 final size:10
Alignment explanation
Indices: 57165056--57165082 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
57165046 AAATTTTATA
57165056 ATTTTTTACG
1 ATTTTTTACG
57165066 ATTTTTTACG
1 ATTTTTTACG
57165076 ATTTTTT
1 ATTTTTT
57165083 TATAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (10 bp):
ATTTTTTACG
Found at i:57165135 original size:28 final size:29
Alignment explanation
Indices: 57165079--57165150 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
57165069 TTTTACGATT
57165079 TTTTTATAATTTTAAATAAAATTTAAATA
1 TTTTTATAATTTTAAATAAAATTTAAATA
* * * *
57165108 TTTTTATATTTTTTACTGAAATTT-AATA
1 TTTTTATAATTTTAAATAAAATTTAAATA
57165136 TTTTTATAACTTTTA
1 TTTTTATAA-TTTTA
57165151 TTAATTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (29 bp):
TTTTTATAATTTTAAATAAAATTTAAATA
Found at i:57165419 original size:87 final size:86
Alignment explanation
Indices: 57165238--57165490 Score: 274
Period size: 86 Copynumber: 2.8 Consensus size: 86
57165228 TTAAGGACGT
* * * * * *
57165238 TTCAAGTACCCAATTGAGTGCAAAAAAAGGCAAGGGTTTAATTGCTTTTTTCGAAAAATTTTGAG
1 TTCAAGTGCCCAATTGAGTGCAAAAAAA--AAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAG
*
57165303 GGCCTTTTTATGCATTTTGAAAG
64 GGCCTTTTTATGCATTGTGAAAG
* *
57165326 TTCAAGTGTCCAATTGAGTGCAAAAAAAAAAGGGCTTAATTGCTTTTTTTGAAAAAGCTTAAGGG
1 TTCAAGTGCCCAATTGAGTGCAAAAAAAAAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGG
**
57165391 TTTTTTTGATGCATTGTGAAAG
66 CCTTTTT-ATGCATTGTGAAAG
* ** *
57165413 TTCAAGTGCCCAAGTTTGTGTAAAAAAAAGAAAGTAGGGGCTTAATTGCTTTCTTTGAAAAAGTT
1 TTCAAGTGCCCAA--TTGAGTGCAAAAAA-AAA--A-GGGCTTAATTGCTTTTTTTGAAAAAGTT
*
57165478 TAAGAG-CTTTTTA
60 TAAGGGCCTTTTTA
57165491 CACCCTTAAG
Statistics
Matches: 139, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
86 36 0.26
87 25 0.18
88 26 0.19
89 11 0.08
90 3 0.02
91 1 0.01
92 6 0.04
93 31 0.22
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (86 bp):
TTCAAGTGCCCAATTGAGTGCAAAAAAAAAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGG
CCTTTTTATGCATTGTGAAAG
Found at i:57166255 original size:16 final size:16
Alignment explanation
Indices: 57166226--57166258 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57166216 TATATATTTC
57166226 AAAGTAAAGAAATGAG
1 AAAGTAAAGAAATGAG
57166242 AAAG-AAAGAGAATGAG
1 AAAGTAAAGA-AATGAG
57166258 A
1 A
57166259 GGGGTAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (16 bp):
AAAGTAAAGAAATGAG
Found at i:57171242 original size:23 final size:23
Alignment explanation
Indices: 57171216--57171261 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
57171206 ACCACTATAA
57171216 AACACGAAAAAAATAAAACAGAG
1 AACACGAAAAAAATAAAACAGAG
57171239 AACACGAAAAAAATAAAACAGAG
1 AACACGAAAAAAATAAAACAGAG
57171262 TAAGCAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.70, C:0.13, G:0.13, T:0.04
Consensus pattern (23 bp):
AACACGAAAAAAATAAAACAGAG
Found at i:57175405 original size:21 final size:21
Alignment explanation
Indices: 57175381--57175420 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57175371 AAATTCAAGG
57175381 AAATAAAAAAAAGAAAAGGAA
1 AAATAAAAAAAAGAAAAGGAA
* *
57175402 AAATAAAATAAGGAAAAGG
1 AAATAAAAAAAAGAAAAGG
57175421 GAGAAGGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (21 bp):
AAATAAAAAAAAGAAAAGGAA
Found at i:57181353 original size:29 final size:32
Alignment explanation
Indices: 57181295--57181354 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
57181285 AGGATTTTCT
*
57181295 TTTATGTATTATTTACTTTTAAGTCGTTTTAGA
1 TTTATGTATTATTTACTTTCAAGTC-TTTTAGA
57181328 TTTAT-TATTATTTA-TTTCAAGT-TTTTA
1 TTTATGTATTATTTACTTTCAAGTCTTTTA
57181355 TATATGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
31 7 0.27
32 9 0.35
33 5 0.19
ACGTcount: A:0.25, C:0.05, G:0.08, T:0.62
Consensus pattern (32 bp):
TTTATGTATTATTTACTTTCAAGTCTTTTAGA
Found at i:57181364 original size:29 final size:31
Alignment explanation
Indices: 57181297--57181370 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 31
57181287 GATTTTCTTT
*
57181297 TATG-TATTATTTACTTTTAAGTCGTTTTAGA
1 TATGTTATTATTTACTTTCAAGTC-TTTTAGA
* * *
57181328 TTTATTATTATTTA-TTTCAAGT-TTTTATA
1 TATGTTATTATTTACTTTCAAGTCTTTTAGA
57181357 TATGTTATTCATTT
1 TATGTTATT-ATTT
57181371 CGAATATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
29 13 0.37
30 4 0.11
31 9 0.26
32 9 0.26
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (31 bp):
TATGTTATTATTTACTTTCAAGTCTTTTAGA
Found at i:57181787 original size:17 final size:18
Alignment explanation
Indices: 57181765--57181798 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57181755 TTTAAAACTC
57181765 ATTTATTAT-CATTTTAA
1 ATTTATTATACATTTTAA
*
57181782 ATTTATTCTACATTTTA
1 ATTTATTATACATTTTA
57181799 TTTATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTATTATACATTTTAA
Found at i:57184929 original size:18 final size:17
Alignment explanation
Indices: 57184898--57184933 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
57184888 ATGCTAATGA
57184898 AATTAATTGCTGAATAT
1 AATTAATTGCTGAATAT
*
57184915 AATTAGATTGTTGAATAT
1 AATTA-ATTGCTGAATAT
57184933 A
1 A
57184934 TATCAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.42
Consensus pattern (17 bp):
AATTAATTGCTGAATAT
Found at i:57186179 original size:30 final size:30
Alignment explanation
Indices: 57186135--57186197 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
57186125 ACTTAACAAG
* *
57186135 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
57186165 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
57186195 CAA
1 CAA
57186198 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:57186252 original size:22 final size:22
Alignment explanation
Indices: 57186226--57186274 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
57186216 ATATCCAAAC
57186226 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* * *
57186248 CATAATATTAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
57186270 AATAA
1 AATAA
57186275 GGAGAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.22
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:57186282 original size:22 final size:22
Alignment explanation
Indices: 57186235--57186284 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
57186225 CAATAACAAT
* * *
57186235 AAAATAGTAGCAACATAATATT
1 AAAATAGTAGCAAAATAAGATG
57186257 AAAATAGTAGCAAAATAAGGA-G
1 AAAATAGTAGCAAAATAA-GATG
57186279 AAAATA
1 AAAATA
57186285 ATAAGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGATG
Found at i:57193343 original size:18 final size:18
Alignment explanation
Indices: 57193322--57193361 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
57193312 CCAAAAAAAA
*
57193322 AAAAGTCCTCATTATCAT
1 AAAAGTCCTCATTACCAT
57193340 AAAAGTCCTCATTACCAT
1 AAAAGTCCTCATTACCAT
57193358 AAAA
1 AAAA
57193362 AAGTTTTGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAGTCCTCATTACCAT
Found at i:57193486 original size:30 final size:29
Alignment explanation
Indices: 57193450--57193531 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 29
57193440 CGGCCCATTT
57193450 TATTTTAAAAAT-TTTAAAAAATTAAAAAA
1 TATTTTAAAAATATTT-AAAAATTAAAAAA
*
57193479 GTATTTTAAAAATATTTTAAAATTAAAAAA
1 -TATTTTAAAAATATTTAAAAATTAAAAAA
57193509 T-TTTTAAAAAGTATTTTAAAAAT
1 TATTTTAAAAA-TA-TTTAAAAAT
57193532 ATTTTAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 9 0.19
29 3 0.06
30 32 0.68
31 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
TATTTTAAAAATATTTAAAAATTAAAAAA
Found at i:57193489 original size:11 final size:10
Alignment explanation
Indices: 57193450--57193541 Score: 66
Period size: 9 Copynumber: 9.1 Consensus size: 10
57193440 CGGCCCATTT
57193450 TATTTTAAAA
1 TATTTTAAAA
57193460 -ATTTTAAAA
1 TATTTTAAAA
* **
57193469 AATTAAAAAA
1 TATTTTAAAA
57193479 GTATTTTAAAAA
1 -TATTTT-AAAA
57193491 TATTTT-AAA
1 TATTTTAAAA
**
57193500 -ATTAAAAAA
1 TATTTTAAAA
57193509 T-TTTTAAAAA
1 TATTTT-AAAA
57193519 GTATTTTAAAAA
1 -TATTTT-AAAA
57193531 TATTTTAAAA
1 TATTTTAAAA
57193541 T
1 T
57193542 TAAAAAATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
8 3 0.05
9 17 0.26
10 16 0.25
11 16 0.25
12 13 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:57193518 original size:40 final size:38
Alignment explanation
Indices: 57193463--57193591 Score: 204
Period size: 38 Copynumber: 3.3 Consensus size: 38
57193453 TTTAAAAATT
57193463 TTAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
*
57193501 TTAAAAAATTTTTAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAA--TTAAAAAAGTATTTTAAAAATATTTTAAAA
* *
57193541 TTAAAAAATTAAAAAAGTATGTAAAAAATATTTTAAAA
1 TTAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
*
57193579 TTAAAAAAATAAA
1 TTAAAAAATTAAA
57193592 TATATTTATT
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
38 47 0.56
40 37 0.44
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (38 bp):
TTAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:57195978 original size:23 final size:23
Alignment explanation
Indices: 57195947--57195995 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
57195937 TGGAAGCATC
*
57195947 CTGACATTATGGTGTAATTCATT
1 CTGACATTACGGTGTAATTCATT
*
57195970 CTGATATTACGGTGTAATTCATT
1 CTGACATTACGGTGTAATTCATT
57195993 CTG
1 CTG
57195996 TAACACCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (23 bp):
CTGACATTACGGTGTAATTCATT
Found at i:57197965 original size:18 final size:17
Alignment explanation
Indices: 57197916--57197966 Score: 50
Period size: 20 Copynumber: 2.8 Consensus size: 17
57197906 TTTTTTTCCC
*
57197916 TTTTTCAT-TTTTTTCT
1 TTTTTCATATTTTATCT
57197932 TTTTTCATCAGTTTTTATCT
1 TTTTTCAT-A--TTTTATCT
57197952 TTATTTCATATTTTA
1 TT-TTTCATATTTTA
57197967 AAAGATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 8 0.28
18 5 0.17
20 10 0.34
21 6 0.21
ACGTcount: A:0.16, C:0.12, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTTCATATTTTATCT
Found at i:57198529 original size:3 final size:3
Alignment explanation
Indices: 57198521--57198593 Score: 105
Period size: 3 Copynumber: 25.0 Consensus size: 3
57198511 ATTAGCTTGC
57198521 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
57198568 TAT T-T TAC TAT TAT TCT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
57198594 AGATTACTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 4 0.06
3 58 0.94
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:57198905 original size:6 final size:6
Alignment explanation
Indices: 57198894--57198931 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
57198884 ATCACTTATC
57198894 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TA
1 TAGATA TAGATA TAGATA TAGATA TAGATA TAGATA TA
57198932 TTTATGTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (6 bp):
TAGATA
Found at i:57211459 original size:9 final size:9
Alignment explanation
Indices: 57211445--57211475 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
57211435 GTTAAACGAA
57211445 TCGAGTTAT
1 TCGAGTTAT
*
57211454 TCGAGTTAA
1 TCGAGTTAT
57211463 TCGAGTTAT
1 TCGAGTTAT
57211472 TCGA
1 TCGA
57211476 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:57213404 original size:15 final size:15
Alignment explanation
Indices: 57213383--57213433 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
57213373 GCATATATAT
57213383 AAAATATAAAATGTA
1 AAAATATAAAATGTA
* *
57213398 TAAATATTAGAAAAGTA
1 AAAATA-TA-AAATGTA
*
57213415 AAAATATAAAATATA
1 AAAATATAAAATGTA
57213430 AAAA
1 AAAA
57213434 GTATGTATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 14 0.48
16 4 0.14
17 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (15 bp):
AAAATATAAAATGTA
Found at i:57213488 original size:3 final size:3
Alignment explanation
Indices: 57213480--57213505 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
57213470 GTACAGTAAC
57213480 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
57213506 AGTCATAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:57213586 original size:20 final size:20
Alignment explanation
Indices: 57213539--57213586 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
57213529 AAAATGAATA
*
57213539 AAATAAAAAAAGGTTAAATTG
1 AAAT-AAAAAAGGATAAATTG
*
57213560 AACTAAAAAA-GATAAATTCG
1 AAATAAAAAAGGATAAATT-G
57213580 AAATAAA
1 AAATAAA
57213587 TCTGAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.30
20 13 0.57
21 3 0.13
ACGTcount: A:0.65, C:0.04, G:0.10, T:0.21
Consensus pattern (20 bp):
AAATAAAAAAGGATAAATTG
Found at i:57214919 original size:5 final size:5
Alignment explanation
Indices: 57214909--57214934 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57214899 CTCGAAAATT
57214909 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
57214935 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:57216262 original size:24 final size:25
Alignment explanation
Indices: 57216235--57216318 Score: 62
Period size: 25 Copynumber: 3.4 Consensus size: 25
57216225 AAAAGTTCAA
*
57216235 GAGAGTCAAT-ACCGGGAAGCTCCG
1 GAGAGCCAATAACCGGGAAGCTCCG
* * **
57216259 GAGAGCCATTAATCGGGAAGCTCAT
1 GAGAGCCAATAACCGGGAAGCTCCG
* * * * *
57216284 AAGAGCCAGTTATCAGGAAGCTCCG
1 GAGAGCCAATAACCGGGAAGCTCCG
*
57216309 AAGAGCCAAT
1 GAGAGCCAAT
57216319 TATAGGGAAG
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 8 0.17
25 39 0.83
ACGTcount: A:0.33, C:0.23, G:0.29, T:0.15
Consensus pattern (25 bp):
GAGAGCCAATAACCGGGAAGCTCCG
Found at i:57216276 original size:25 final size:24
Alignment explanation
Indices: 57216247--57216331 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
57216237 GAGTCAATAC
*
57216247 CGGGAAGCTCCGGAGAGCCATTAAT
1 CGGGAAGCTCCGAAGAGCCATT-AT
**
57216272 CGGGAAGCTCATAAGAGCCAGTTAT
1 CGGGAAGCTCCGAAGAGCCA-TTAT
*
57216297 CAGGAAGCTCCGAAGAGCCAATTAT
1 CGGGAAGCTCCGAAGAGCC-ATTAT
*
57216322 AGGGAAGCTC
1 CGGGAAGCTC
57216332 ATAATAGTCA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 47 0.94
26 3 0.06
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCCGAAGAGCCATTAT
Found at i:57216411 original size:25 final size:25
Alignment explanation
Indices: 57216260--57216412 Score: 95
Period size: 25 Copynumber: 6.2 Consensus size: 25
57216250 GAAGCTCCGG
57216260 AGAGCCAT-TAATCGGGAAGCTCATA
1 AGAGCCATAT-ATCGGGAAGCTCATA
* **
57216285 AGAGCCAGT-TATCAGGAAGCTCCGA
1 AGAGCCA-TATATCGGGAAGCTCATA
*
57216310 AGAGCCA-ATTATAGGGAAGCTCATA
1 AGAGCCATA-TATCGGGAAGCTCATA
* * * *
57216335 ATAGTCATA-AT-GAGAAGCTCACA
1 AGAGCCATATATCGGGAAGCTCATA
* * * **
57216358 AGAACCATATAAT-AGGAAGTTTC-GG
1 AGAGCCATAT-ATCGGGAAG-CTCATA
57216383 AGAGCCATATATCGGGAAGCTCATA
1 AGAGCCATATATCGGGAAGCTCATA
57216408 AGAGC
1 AGAGC
57216413 TGCGGTGTGT
Statistics
Matches: 95, Mismatches: 24, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
23 16 0.17
24 6 0.06
25 68 0.72
26 5 0.05
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (25 bp):
AGAGCCATATATCGGGAAGCTCATA
Found at i:57217744 original size:30 final size:29
Alignment explanation
Indices: 57217687--57217744 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
57217677 CATAATGAAG
*
57217687 ACCATGAAATAATGTAAAAATAAATTTTT
1 ACCATGAAATAATATAAAAATAAATTTTT
*
57217716 ACCATGAAATAATATAAAAATAAAATTTT
1 ACCATGAAATAATATAAAAATAAATTTTT
57217745 CTTCCGAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (29 bp):
ACCATGAAATAATATAAAAATAAATTTTT
Found at i:57219656 original size:245 final size:244
Alignment explanation
Indices: 57219226--57219770 Score: 728
Period size: 245 Copynumber: 2.2 Consensus size: 244
57219216 CAAAGGAAAG
* * *
57219226 CAAACTAACAAAAATAAGAAA-ATGCT---AGGAGTTCTGAAATTTTAGAAATCATACATACGAA
1 CAAACTAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGAAATTTTAGAAATCATACACACAAA
* ** * * *
57219287 CATTTTTTGCCCTAATATAGATGCTAGTGATCAAAAGTATTTCATTACCTTTATTGATGATCATT
66 CATTTGTAACCCTAATATAGATACTAGTGATAAAAAATATTTCATTACCTTTATTGATGATCATT
* * * *
57219352 TTCAATACATGTATCTCTAATTTCTCCATCACAAAAGTGAGGCATTAGTTGCCTTTAAGGTATGC
131 TTCAATACATGTATCTCTAATTTCTCCATCACAAAACTAAGGCATTAGATGCCTTTAAGGTATAC
*
57219417 AAAACATTAGTAGAGAAACAATGTAAAAAGCAAACTAAGATTATGAGAT
196 AAAACATAAGTAGAGAAACAATGTAAAAAGCAAACTAAGATTATGAGAT
* *
57219466 CAAACTAACAAGAATAAGAAATATGCTAAAAGGAGTTCT-AGAATTTTAGACATCTTACACACAA
1 CAAACTAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGA-AATTTTAGAAATCATACACACAA
* *
57219530 ACATTTGTAACCTTAATATATATACTAGTGGGA-AAAAAATATTTCATTACCTTTATTGATGATC
65 ACATTTGTAACCCTAATATAGATACTAGT--GATAAAAAATATTTCATTACCTTTATTGATGATC
* * * ** *
57219594 -TTTCTCGATACATGTATCTCT-ATTTGCTTCATCATAAAACTAATTCATTAGATGCTTTTAAGG
128 ATTT-TCAATACATGTATCTCTAATTT-CTCCATCACAAAACTAAGGCATTAGATGCCTTTAAGG
*
57219657 TATACAAAGCATAAGTAGAGAAACAATGTAAAAAGCAAACTAAGATTATGAGAT
191 TATACAAAACATAAGTAGAGAAACAATGTAAAAAGCAAACTAAGATTATGAGAT
* * * *
57219711 TAGACTAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGTAATTTTCGAAATCATACAC
1 CAAACTAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGAAATTTTAGAAATCATACAC
57219771 GCGGACATAA
Statistics
Matches: 264, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
240 20 0.08
241 5 0.02
243 1 0.00
244 58 0.22
245 178 0.67
246 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (244 bp):
CAAACTAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGAAATTTTAGAAATCATACACACAAA
CATTTGTAACCCTAATATAGATACTAGTGATAAAAAATATTTCATTACCTTTATTGATGATCATT
TTCAATACATGTATCTCTAATTTCTCCATCACAAAACTAAGGCATTAGATGCCTTTAAGGTATAC
AAAACATAAGTAGAGAAACAATGTAAAAAGCAAACTAAGATTATGAGAT
Found at i:57219792 original size:62 final size:62
Alignment explanation
Indices: 57219716--57219832 Score: 216
Period size: 62 Copynumber: 1.9 Consensus size: 62
57219706 GAGATTAGAC
*
57219716 TAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGTAATTTTCGAAATCATACACGCGGACA
1 TAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGTAATTTTAGAAATCATACACGCGGACA
*
57219778 TAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGTAATTTTAGGAATCATACAC
1 TAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGTAATTTTAGAAATCATACAC
57219833 ACAGACATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (62 bp):
TAACAAGAATAAGAAATATGCTAAAAGGAGTTCTGTAATTTTAGAAATCATACACGCGGACA
Found at i:57223219 original size:79 final size:79
Alignment explanation
Indices: 57223088--57223248 Score: 322
Period size: 79 Copynumber: 2.0 Consensus size: 79
57223078 CATATAAAAC
57223088 AAAGTAAGTTATATCAGCTTGAAGTGCATGTGAACTATCATACGATTACCAAGCCGTTTTAATCA
1 AAAGTAAGTTATATCAGCTTGAAGTGCATGTGAACTATCATACGATTACCAAGCCGTTTTAATCA
57223153 ACATTTTCATTAAA
66 ACATTTTCATTAAA
57223167 AAAGTAAGTTATATCAGCTTGAAGTGCATGTGAACTATCATACGATTACCAAGCCGTTTTAATCA
1 AAAGTAAGTTATATCAGCTTGAAGTGCATGTGAACTATCATACGATTACCAAGCCGTTTTAATCA
57223232 ACATTTTCATTAAA
66 ACATTTTCATTAAA
57223246 AAA
1 AAA
57223249 AGTGATCTGA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (79 bp):
AAAGTAAGTTATATCAGCTTGAAGTGCATGTGAACTATCATACGATTACCAAGCCGTTTTAATCA
ACATTTTCATTAAA
Found at i:57223635 original size:16 final size:16
Alignment explanation
Indices: 57223614--57223649 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
57223604 TTAAAAAAAT
57223614 TATTTAATTTTTATTA
1 TATTTAATTTTTATTA
*
57223630 TATTTAATTTTTTTTA
1 TATTTAATTTTTATTA
57223646 TATT
1 TATT
57223650 CATCAAGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTAATTTTTATTA
Found at i:57226869 original size:16 final size:16
Alignment explanation
Indices: 57226848--57226897 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
57226838 TCAAAAACGA
57226848 ATACAGAACATATCAG
1 ATACAGAACATATCAG
*
57226864 ATACAG---TTA-CAG
1 ATACAGAACATATCAG
*
57226876 ATACAGAACATATTAG
1 ATACAGAACATATCAG
57226892 ATACAG
1 ATACAG
57226898 TTACAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
15 2 0.07
16 14 0.52
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (16 bp):
ATACAGAACATATCAG
Found at i:57226910 original size:28 final size:28
Alignment explanation
Indices: 57226847--57226910 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
57226837 ATCAAAAACG
57226847 AATACAGAACATATCAGATACAGTTACA
1 AATACAGAACATATCAGATACAGTTACA
* *
57226875 GATACAGAACATATTAGATACAGTTACA
1 AATACAGAACATATCAGATACAGTTACA
*
57226903 AATTCAGA
1 AATACAGA
57226911 TACAAATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.23
Consensus pattern (28 bp):
AATACAGAACATATCAGATACAGTTACA
Found at i:57227654 original size:63 final size:62
Alignment explanation
Indices: 57227513--57227656 Score: 180
Period size: 63 Copynumber: 2.3 Consensus size: 62
57227503 CTCAAATTCC
* * *
57227513 CAAAACAGTGAGTTCCATGGCCTGGACACACGCCCGTGTCTCTAGCCCGTGTGACCCTAATT
1 CAAAACAGTGAGTTACACGGCCTGGACACACGCCCGTGTCTCTAGCCCGTGTAACCCTAATT
* * ** * *
57227575 CACAAACAATGGGTTACACGGCCTGGACACACGCTTGTGTCTCTAGCCTGTGTAACTCTAAATT
1 CA-AAACAGTGAGTTACACGGCCTGGACACACGCCCGTGTCTCTAGCCCGTGTAACCCT-AATT
*
57227639 CAAAATAGTGAGTTACAC
1 CAAAACAGTGAGTTACAC
57227657 AGCTTGCCAC
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
62 2 0.03
63 60 0.88
64 6 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (62 bp):
CAAAACAGTGAGTTACACGGCCTGGACACACGCCCGTGTCTCTAGCCCGTGTAACCCTAATT
Found at i:57230550 original size:19 final size:19
Alignment explanation
Indices: 57230526--57230573 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
57230516 ATCTTAAAGG
57230526 AAAATTAGTATG-AAAATA
1 AAAATTAGTATGAAAAATA
* *
57230544 TAAAATTAAATGTGAAAAATA
1 -AAAATT-AGTATGAAAAATA
57230565 AAAATTAGT
1 AAAATTAGT
57230574 CTTGGTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.33
20 10 0.42
21 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAATTAGTATGAAAAATA
Found at i:57232465 original size:13 final size:13
Alignment explanation
Indices: 57232447--57232481 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
57232437 CTATGTGAGT
57232447 CACACGGCCAGAC
1 CACACGGCCAGAC
*
57232460 CACACGGCCTGAC
1 CACACGGCCAGAC
57232473 CACACGGCC
1 CACACGGCC
57232482 CTATGAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.49, G:0.23, T:0.03
Consensus pattern (13 bp):
CACACGGCCAGAC
Found at i:57233119 original size:22 final size:22
Alignment explanation
Indices: 57233075--57233119 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
57233065 TGTCTTCAGG
* * * *
57233075 AATTATCAGCATTCTTTGGAAT
1 AATTACCACCATTCTTCGAAAT
57233097 AATTACCACCATTCTTCGAAAT
1 AATTACCACCATTCTTCGAAAT
57233119 A
1 A
57233120 TATTCACTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (22 bp):
AATTACCACCATTCTTCGAAAT
Found at i:57234000 original size:35 final size:34
Alignment explanation
Indices: 57233961--57234027 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
57233951 TTAAGCCTAT
*
57233961 TTTTTGTTCATTTT-TCCATTTTTCCATTTTTTTTC
1 TTTTTGTTC-TTTTCTCCATTATTCC-TTTTTTTTC
* *
57233996 TTTTTTTTCTTTTCTCCCTTATTCCTTTTTTT
1 TTTTTGTTCTTTTCTCCATTATTCCTTTTTTT
57234028 GTTTTTCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.73
Consensus pattern (34 bp):
TTTTTGTTCTTTTCTCCATTATTCCTTTTTTTTC
Found at i:57245499 original size:30 final size:29
Alignment explanation
Indices: 57245459--57245520 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
57245449 AATATTTTTA
57245459 TTTTTAAATTTTTTTAATTTTAAAATACTT
1 TTTTTAAATTTTTTTAATTTTAAAATA-TT
*
57245489 TTTTTTAATTTTTTTAATTTTAAAATATT
1 TTTTTAAATTTTTTTAATTTTAAAATATT
57245518 TTT
1 TTT
57245521 AAAATACTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTTAAATTTTTTTAATTTTAAAATATT
Found at i:57245520 original size:11 final size:11
Alignment explanation
Indices: 57245506--57245579 Score: 65
Period size: 11 Copynumber: 7.3 Consensus size: 11
57245496 ATTTTTTTAA
57245506 TTTTAAAATAT
1 TTTTAAAATAT
*
57245517 TTTTAAAATAC
1 TTTTAAAATAT
57245528 TTTT-AAAT-T
1 TTTTAAAATAT
57245537 TTTT---A-A-
1 TTTTAAAATAT
57245543 TTTTAAAATAT
1 TTTTAAAATAT
57245554 TTTTAAAATACTT
1 TTTTAAAATA--T
57245567 TTTTAAAAT-T
1 TTTTAAAATAT
57245577 TTT
1 TTT
57245580 GTTTTAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 17
0.74 0.03 0.24
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
9 5 0.09
10 9 0.17
11 24 0.45
13 10 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:57245541 original size:37 final size:37
Alignment explanation
Indices: 57245491--57245568 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
57245481 AAATACTTTT
*
57245491 TTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
57245528 TTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
57245565 TTTT
1 TTTT
57245569 TTAAAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (37 bp):
TTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:57253745 original size:26 final size:26
Alignment explanation
Indices: 57253691--57253784 Score: 95
Period size: 26 Copynumber: 3.6 Consensus size: 26
57253681 TTATGAAATG
57253691 GCTCACACAAGCCTTC-GTATTTAGG-TT
1 GCTCACACAAG-CTTCAG-A-TTAGGATT
57253718 GCTCACACAAGCTTCAGATTAGGATT
1 GCTCACACAAGCTTCAGATTAGGATT
* * *
57253744 GCTCATACAAGCTT-AGTTTGATGATT
1 GCTCACACAAGCTTCAGATT-AGGATT
*
57253770 TCTCACACAAGCTTC
1 GCTCACACAAGCTTC
57253785 GGAATATCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.16
26 37 0.64
27 12 0.21
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (26 bp):
GCTCACACAAGCTTCAGATTAGGATT
Found at i:57257771 original size:17 final size:18
Alignment explanation
Indices: 57257745--57257787 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
57257735 ATCCATATTA
* *
57257745 ATAAATAATTTAGAATAT
1 ATAAATAATTAAAAATAT
57257763 ATAAA-AATTAAAAATAT
1 ATAAATAATTAAAAATAT
*
57257780 ATATATAA
1 ATAAATAA
57257788 CTTTTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAAATAATTAAAAATAT
Found at i:57267561 original size:12 final size:12
Alignment explanation
Indices: 57267544--57267578 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
57267534 AATTTAGTTT
57267544 AAAAATTATAAA
1 AAAAATTATAAA
57267556 AAAAATTATTAAA
1 AAAAATTA-TAAA
*
57267569 ATAAATTATA
1 AAAAATTATA
57267579 TTATTTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:57268808 original size:30 final size:32
Alignment explanation
Indices: 57268774--57268837 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 32
57268764 AGCGTATATC
* *
57268774 TTTATAATTTTTAAGA-AATTAAATTA-AATT
1 TTTATAATTTTTAAGAGAATCAAAATATAATT
*
57268804 TTTATCATTTTTAAGAGAATCAAAATATAATT
1 TTTATAATTTTTAAGAGAATCAAAATATAATT
57268836 TT
1 TT
57268838 ACCTTTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 15 0.52
31 8 0.28
32 6 0.21
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (32 bp):
TTTATAATTTTTAAGAGAATCAAAATATAATT
Found at i:57269397 original size:5 final size:5
Alignment explanation
Indices: 57269341--57269371 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
57269331 AGTAAATCCG
*
57269341 TTATG TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA T
57269372 ATTTCATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:57275888 original size:10 final size:10
Alignment explanation
Indices: 57275873--57275915 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
57275863 AGAAAACTTT
57275873 TATTTTAGTG
1 TATTTTAGTG
*
57275883 TATTTTAGCG
1 TATTTTAGTG
57275893 TATTTTTAGTG
1 TA-TTTTAGTG
*
57275904 CA-TTTAGTG
1 TATTTTAGTG
57275913 TAT
1 TAT
57275916 ATTTTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
9 8 0.30
10 11 0.41
11 8 0.30
ACGTcount: A:0.21, C:0.05, G:0.19, T:0.56
Consensus pattern (10 bp):
TATTTTAGTG
Found at i:57275920 original size:21 final size:22
Alignment explanation
Indices: 57275873--57275920 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
57275863 AGAAAACTTT
*
57275873 TATTTTAGTGTATTTTAGCGTA
1 TATTTTAGTGCATTTTAGCGTA
*
57275895 T-TTTTAGTGCA-TTTAGTGTA
1 TATTTTAGTGCATTTTAGCGTA
57275915 TATTTT
1 TATTTT
57275921 TTTTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 9 0.39
21 13 0.57
22 1 0.04
ACGTcount: A:0.21, C:0.04, G:0.17, T:0.58
Consensus pattern (22 bp):
TATTTTAGTGCATTTTAGCGTA
Found at i:57277025 original size:18 final size:17
Alignment explanation
Indices: 57277004--57277038 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57276994 TTATTATTAA
*
57277004 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57277022 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57277039 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57277174 original size:15 final size:16
Alignment explanation
Indices: 57277141--57277175 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
57277131 TTAATCATAT
*
57277141 TTAAATATAATTATTA
1 TTAAATATAATTATAA
57277157 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
57277172 TTAA
1 TTAA
57277176 TAAGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:57280422 original size:28 final size:28
Alignment explanation
Indices: 57280391--57280445 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
57280381 GCAAATCGGT
*
57280391 AGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
57280419 AGAAAAGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAAAGAAACAGAGGG
57280446 AGCAAATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:57284617 original size:21 final size:21
Alignment explanation
Indices: 57284563--57284615 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
57284553 ATATAAGAAA
* *
57284563 ATAAAATTATATAAAATTATC
1 ATAAAAATAAATAAAATTATC
57284584 ATAAAAATAAATAACAATT-TC
1 ATAAAAATAAATAA-AATTATC
57284605 ATAAATAATAA
1 ATAAA-AATAA
57284616 TATATCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAAAAATAAATAAAATTATC
Found at i:57287658 original size:48 final size:48
Alignment explanation
Indices: 57287597--57287694 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
57287587 TTTTAACACC
* * *
57287597 GTTAGAAAGAGAATGACTAAACCGAGCAATGAAATGATAATTTAAGTA
1 GTTAGAAAAAGAATGACTAAACCAAGCAACGAAATGATAATTTAAGTA
*
57287645 GTTAGAAAAAGAATGACTAAACCAAGTAACGAAATGATAATTTAAGTA
1 GTTAGAAAAAGAATGACTAAACCAAGCAACGAAATGATAATTTAAGTA
57287693 GT
1 GT
57287695 AATTTGGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.23
Consensus pattern (48 bp):
GTTAGAAAAAGAATGACTAAACCAAGCAACGAAATGATAATTTAAGTA
Found at i:57293368 original size:17 final size:17
Alignment explanation
Indices: 57293346--57293379 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57293336 AATAATAGTG
* *
57293346 TTTAGGGTTGTATTAAA
1 TTTAGGGATATATTAAA
57293363 TTTAGGGATATATTAAA
1 TTTAGGGATATATTAAA
57293380 ATAAAAGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TTTAGGGATATATTAAA
Found at i:57298448 original size:20 final size:21
Alignment explanation
Indices: 57298423--57298464 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
57298413 TAAAAATTCT
*
57298423 TTAAAAA-TAATTTTAATCCC
1 TTAAAAATTAATTTCAATCCC
57298443 TTAAAAATTTAATTTCAATCCC
1 TTAAAAA-TTAATTTCAATCCC
57298465 ACACATGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAAATTAATTTCAATCCC
Found at i:57305538 original size:16 final size:16
Alignment explanation
Indices: 57305514--57305551 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
57305504 TTTGGTTCGT
* *
57305514 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
57305530 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
57305546 TGTAAT
1 TGTAAT
57305552 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:57305596 original size:45 final size:44
Alignment explanation
Indices: 57305530--57305624 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
57305520 GGATTAGAGG
* *
57305530 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGATTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGATTGAA
* ** *
57305575 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGATTGAA
57305619 TGTAAT
1 TGTAAT
57305625 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGATTGAA
Found at i:57305807 original size:18 final size:17
Alignment explanation
Indices: 57305786--57305820 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57305776 TTATTATTTA
*
57305786 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
57305804 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
57305821 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:57305814 original size:28 final size:27
Alignment explanation
Indices: 57305744--57305816 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
57305734 TTTATTATCA
*
57305744 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
57305772 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
57305799 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
57305817 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:57305979 original size:147 final size:149
Alignment explanation
Indices: 57305705--57305979 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
57305695 ATGATTATTG
*
57305705 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
* *
57305770 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
57305835 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
57305854 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
57305917 ACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
57305980 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:57306011 original size:54 final size:53
Alignment explanation
Indices: 57305953--57306131 Score: 117
Period size: 55 Copynumber: 3.1 Consensus size: 53
57305943 ATTAAAATAT
*
57305953 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
57306007 ATAATATATGATACTGTAAAATATAAAATAACATAATTATTATTAAATAT-AATATAATTAAAAT
1 ATAAT-T-T-A-A---TAAAAT-TTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA-
*
57306071 AT
52 AC
*
57306073 ATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAAAC
57306127 ATAAT
1 ATAAT
57306132 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (53 bp):
ATAATTTAATAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:57306052 original size:120 final size:120
Alignment explanation
Indices: 57305916--57306208 Score: 464
Period size: 120 Copynumber: 2.4 Consensus size: 120
57305906 ATCATATTTA
* *
57305916 AACATAATTATTATTAAATAGATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
*
57305981 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAA-AT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATA-AAATAT
* *
57306036 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
* *
57306101 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATAAAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAAA-TAT
* * *
57306157 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
57306209 TAAAATAATT
Statistics
Matches: 159, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
119 3 0.02
120 153 0.96
121 3 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAAATAT
Found at i:57306074 original size:18 final size:18
Alignment explanation
Indices: 57306053--57306100 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
57306043 TTATTATTAA
57306053 ATATAATATAATTAAAAT
1 ATATAATATAATTAAAAT
*
57306071 ATATAATTTAA-TAAAAT
1 ATATAATATAATTAAAAT
*
57306088 -TATTA-ATAATTAA
1 ATATAATATAATTAA
57306101 TATTCTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 7 0.27
17 6 0.23
18 10 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAATATAATTAAAAT
Found at i:57306202 original size:18 final size:17
Alignment explanation
Indices: 57306163--57306194 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
57306153 TTTTAAATAA
57306163 TTAATATTAAATATATT
1 TTAATATTAAATATATT
57306180 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
57306195 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:57306319 original size:91 final size:91
Alignment explanation
Indices: 57306224--57306431 Score: 258
Period size: 91 Copynumber: 2.3 Consensus size: 91
57306214 TAATTATAAC
* * * *
57306224 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
57306288 TAATATAAAATTTCATAAAATTCTTGA
65 TAATATAAAATTTCATAAAATTCTTAA
* * *
57306315 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* * * *
57306380 GATATATAATTTCATGAAATTGTTAA
66 AATATAAAATTTCATAAAATTCTTAA
*
57306406 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
57306432 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 79 0.77
92 22 0.22
93 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATAAAATTTCATAAAATTCTTAA
Found at i:57310408 original size:12 final size:12
Alignment explanation
Indices: 57310391--57310418 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
57310381 CATACAAAAA
57310391 ACAGAAGCTGCT
1 ACAGAAGCTGCT
57310403 ACAGAAGCTGCT
1 ACAGAAGCTGCT
57310415 ACAG
1 ACAG
57310419 CAATAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:57311045 original size:22 final size:22
Alignment explanation
Indices: 57311020--57311064 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
57311010 GTAAGTTGTG
57311020 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
57311042 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
57311064 T
1 T
57311065 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:57314821 original size:22 final size:22
Alignment explanation
Indices: 57314793--57314837 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
57314783 AGGGGGAGTG
57314793 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
57314815 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
57314837 T
1 T
57314838 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:57316489 original size:24 final size:24
Alignment explanation
Indices: 57316462--57316512 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
57316452 TGGGAAAAAC
57316462 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
*
57316486 ATTGGTAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
57316510 ATT
1 ATT
57316513 TAAAACTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (24 bp):
ATTGGCAGATTAATTTAGGTCAGA
Found at i:57323354 original size:3 final size:3
Alignment explanation
Indices: 57323346--57323419 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
57323336 TATATATATA
57323346 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
57323394 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
57323420 TGGTCAAATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:57328786 original size:20 final size:20
Alignment explanation
Indices: 57328724--57328786 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
57328714 ATACTAATAT
57328724 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
* *
57328744 ATTGATATTA--TTCAA-ATAATA
1 A-T-A-ATTATGTTCAACCT-TTA
57328765 ATAATTATGTTCAACCTTTA
1 ATAATTATGTTCAACCTTTA
57328785 AT
1 AT
57328787 TATGTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 12 0.38
21 10 0.31
22 1 0.03
23 4 0.12
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (20 bp):
ATAATTATGTTCAACCTTTA
Found at i:57329508 original size:15 final size:15
Alignment explanation
Indices: 57329488--57329533 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
57329478 ATTTTTTTGC
57329488 TTCGTGTGTTCTAAA
1 TTCGTGTGTTCTAAA
*
57329503 TTCGTGAGTT-TAAA
1 TTCGTGTGTTCTAAA
57329517 CTAT-GTGTGTTCTAAA
1 -T-TCGTGTGTTCTAAA
57329533 T
1 T
57329534 GTTGCAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.15
15 17 0.65
16 5 0.19
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.46
Consensus pattern (15 bp):
TTCGTGTGTTCTAAA
Found at i:57332443 original size:47 final size:46
Alignment explanation
Indices: 57332387--57332531 Score: 120
Period size: 47 Copynumber: 3.2 Consensus size: 46
57332377 ATAAGAACAT
*
57332387 TTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATATATCA-TATTAAATTATA
** * * *
57332434 TTTAATATTAATTATTTTA--AATTGTATAAATTCATA-TAAGA--AAA
1 TTTAATATTAAGAATTTTATGAAAT-TATATA-TCATATTAA-ATTATA
* * *
57332478 TTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATATATCA-TATTAAATTATA
*
57332525 TGTAATA
1 TTTAATA
57332532 ATTATTATTT
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
44 19 0.26
45 14 0.19
46 14 0.19
47 26 0.36
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (46 bp):
TTTAATATTAAGAATTTTATGAAATTATATATCATATTAAATTATA
Found at i:57332494 original size:91 final size:91
Alignment explanation
Indices: 57332368--57332575 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 91
57332358 ATTATTTTAG
* *
57332368 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* *
57332433 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
57332460 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
57332525 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
57332551 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
57332576 GTTATAATTA
Statistics
Matches: 105, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
91 86 0.82
92 19 0.18
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:57332670 original size:59 final size:56
Alignment explanation
Indices: 57332580--57333000 Score: 177
Period size: 54 Copynumber: 7.1 Consensus size: 56
57332570 TTATTAGTTA
*
57332580 TAATTATTTTAAA-TTTTATTAA--ATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTA-TTTAAATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* **
57332634 TAATTATTTCAAATTTTCTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAATTTT-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
57332699 T
56 T
* * * * *
57332700 TAATTA-TTAAGAATTTTATTAA--ATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-ATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* * **
57332754 TAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAAT
1 TAATTAT-TTAAATTT-T-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAAT
57332818 AT
55 AT
* * * * *
57332820 TAATTA-TTAAGAATTTTATTAA--ATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-ATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
* * **
57332874 TAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAAT
1 TAATTAT-TTAAATTT-T-TTTTA-AGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAAT
57332938 AT
55 AT
* * * * *
57332940 TAATTA-TTAAGAATTTTATTAA--ATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-ATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
57332994 TAATTAT
1 TAATTAT
57333001 GTTTAAATAT
Statistics
Matches: 272, Mismatches: 48, Indels: 93
0.66 0.12 0.23
Matches are distributed among these distances:
53 3 0.01
54 45 0.17
55 19 0.07
56 19 0.07
57 9 0.03
59 31 0.11
60 26 0.10
61 30 0.11
63 10 0.04
64 21 0.08
65 22 0.08
66 37 0.14
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (56 bp):
TAATTATTTAAATTTTTTTTAAGTATCATATATTTTAATTAAAATATATTTAATAT
Found at i:57332700 original size:66 final size:63
Alignment explanation
Indices: 57332629--57332956 Score: 214
Period size: 66 Copynumber: 5.3 Consensus size: 63
57332619 AAATATATTT
57332629 AATATTAATTATTTCAAATTTTCTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-TTTTA-AGTATCATATATTATTATTTGAGTAAATTCATATAA
57332694 G
63 G
* * * * **
57332695 AATATTAATTA-TTAAGAATTTTATTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTAA-ATTTTTTTTAAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
57332749 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-T-TTTTA-AGTATCATATATTATTATTTGAGTAAATTCATATA
*
57332813 AA
62 AG
* * * * **
57332815 AATATTAATTA-TTAAGAATTTTATTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTAA-ATTTTTTTTAAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
57332869 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-T-TTTTA-AGTATCATATATTATTATTTGAGTAAATTCATATA
57332933 AG
62 AG
*
57332935 AATATTAATTATTAAGAATTTT
1 AATATTAATTATTTA-AATTTT
57332957 ATTAAATTAT
Statistics
Matches: 197, Mismatches: 32, Indels: 66
0.67 0.11 0.22
Matches are distributed among these distances:
54 26 0.13
55 12 0.06
56 14 0.07
57 6 0.03
58 2 0.01
59 20 0.10
60 17 0.09
61 20 0.10
62 2 0.01
63 6 0.03
64 14 0.07
65 17 0.09
66 36 0.18
67 5 0.03
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTTTTTAAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:57332715 original size:120 final size:120
Alignment explanation
Indices: 57332591--57333003 Score: 731
Period size: 120 Copynumber: 3.4 Consensus size: 120
57332581 AATTATTTTA
* * * *
57332591 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
* *
57332654 TTATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
57332711 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
57332776 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
57332831 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
57332896 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
57332951 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
57333004 TAAATATGAT
Statistics
Matches: 283, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
119 5 0.02
120 276 0.98
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:57332751 original size:15 final size:15
Alignment explanation
Indices: 57332716--57332767 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
57332706 TTAAGAATTT
*
57332716 TATTAAATTAT-ATA
1 TATTTAATTATAATA
57332730 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
57332744 TATTTAATAATAAT-
1 TATTTAATTATAATA
57332758 TATGTTAATT
1 TAT-TTAATT
57332768 TATATTTTAC
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:57332871 original size:15 final size:15
Alignment explanation
Indices: 57332836--57332887 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
57332826 TTAAGAATTT
*
57332836 TATTAAATTAT-ATA
1 TATTTAATTATAATA
57332850 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
57332864 TATTTAATAATAAT-
1 TATTTAATTATAATA
57332878 TATGTTAATT
1 TAT-TTAATT
57332888 TATATTTTAC
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:57332986 original size:16 final size:16
Alignment explanation
Indices: 57332965--57333006 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
57332955 TTATTAAATT
*
57332965 ATATATTTTAATTATA
1 ATATATTTTAATAATA
57332981 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
57332996 AT-TATGTTTAA
1 ATATAT-TTTAA
57333007 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:57332991 original size:15 final size:15
Alignment explanation
Indices: 57332956--57332997 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
57332946 TTAAGAATTT
*
57332956 TATTAAATTAT-ATA
1 TATTTAATTATAATA
57332970 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
57332984 TATTTAATAATAAT
1 TATTTAATTATAAT
57332998 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:57333118 original size:157 final size:157
Alignment explanation
Indices: 57332940--57333249 Score: 593
Period size: 157 Copynumber: 2.0 Consensus size: 157
57332930 ATAAGAATAT
*
57332940 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
57333005 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
57333070 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTCTGC
57333097 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
57333162 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
57333227 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
57333250 ATGTTAAGGG
Statistics
Matches: 150, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 150 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGC
Found at i:57333137 original size:18 final size:17
Alignment explanation
Indices: 57333109--57333143 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57333099 ATTATTAAGA
*
57333109 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
57333126 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
57333144 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:57333177 original size:75 final size:75
Alignment explanation
Indices: 57332941--57333179 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
57332931 TAAGAATATT
*
57332941 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
57333006 AATATGATTA
66 AATATGATTA
* ** * * * * *
57333016 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
57333078 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
57333098 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
57333163 AATATGATTA
66 AATATGATTA
57333173 AATTATT
1 AATTATT
57333180 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:57333391 original size:45 final size:44
Alignment explanation
Indices: 57333289--57333398 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 44
57333279 TTTTCCATTA
57333289 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * * ***
57333328 TACTATTACGCTTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
*
57333373 TGCTATTACACCTCTATTCTATTACA
1 TGCTATTACACCTCTATTCCATTACA
57333399 CCTCTAATCC
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 16 0.29
45 23 0.42
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:57333478 original size:42 final size:43
Alignment explanation
Indices: 57333431--57333524 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
57333421 CAAACGTGGC
* *
57333431 CTTAGTGCCC-GTTATTCAATATC-TCCATTTTAATTTCGCACA
1 CTTAGTGCCCTGTTATTCAACATCAT-CATTTTAATTCCGCACA
* * *
57333473 CTTAGTGCCCTTTTATTCAACCTCATCATTTTAGTTCCGCACA
1 CTTAGTGCCCTGTTATTCAACATCATCATTTTAATTCCGCACA
57333516 CTTAGTGCC
1 CTTAGTGCC
57333525 GTTTATATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 10 0.22
43 34 0.76
44 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (43 bp):
CTTAGTGCCCTGTTATTCAACATCATCATTTTAATTCCGCACA
Found at i:57336652 original size:19 final size:18
Alignment explanation
Indices: 57336611--57336666 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
57336601 TTTTTATAAT
* *
57336611 TTTATTCATTTCTTTAT-
1 TTTATTTATTTATTTATG
57336628 TATTATTGT-TTTACTTTATG
1 T-TTATT-TATTTA-TTTATG
57336648 TTTATTTATTTATTTATG
1 TTTATTTATTTATTTATG
57336666 T
1 T
57336667 GTCCATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 1 0.03
18 16 0.50
19 14 0.44
20 1 0.03
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTATTTATTTATTTATG
Found at i:57336783 original size:15 final size:15
Alignment explanation
Indices: 57336763--57336796 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57336753 TTTATTTTTG
* *
57336763 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
57336778 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
57336793 TTAT
1 TTAT
57336797 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:57338630 original size:12 final size:12
Alignment explanation
Indices: 57338613--57338639 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57338603 GATTAGTCAA
57338613 TGGCTAATTTTG
1 TGGCTAATTTTG
57338625 TGGCTAATTTTG
1 TGGCTAATTTTG
57338637 TGG
1 TGG
57338640 GGCTGAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.30, T:0.48
Consensus pattern (12 bp):
TGGCTAATTTTG
Found at i:57340984 original size:40 final size:43
Alignment explanation
Indices: 57340897--57340988 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 43
57340887 GATTAGTACC
57340897 GGATGATCTTTTACTCATGACAACTTCAAGAGGTGGGTACAAATAT
1 GGATGATCTTTTACTCATGACAAC-TC-A-AGGTGGGTACAAATAT
57340943 GGATGATCTTTTACTCATGACAA-TC-A-GTGGGTACAAATAT
1 GGATGATCTTTTACTCATGACAACTCAAGGTGGGTACAAATAT
57340983 GGATGA
1 GGATGA
57340989 GTAAAAGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
40 20 0.43
41 1 0.02
44 2 0.04
46 23 0.50
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (43 bp):
GGATGATCTTTTACTCATGACAACTCAAGGTGGGTACAAATAT
Done.