Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 19 of 93
Found at i:8486768 original size:23 final size:22
Alignment explanation
Indices: 8486736--8486791 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
8486726 CCTAAATCAC
8486736 ACAATGTCTAAAAACCAGTCAT
1 ACAATGTCTAAAAACCAGTCAT
* ** *
8486758 ATAATGCTCTACTAACTAGTCAT
1 ACAATG-TCTAAAAACCAGTCAT
8486781 ACAATGTCTAA
1 ACAATGTCTAA
8486792 GTCACGCAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (22 bp):
ACAATGTCTAAAAACCAGTCAT
Found at i:8487059 original size:59 final size:59
Alignment explanation
Indices: 8486992--8487174 Score: 231
Period size: 60 Copynumber: 3.1 Consensus size: 59
8486982 TACTTGACGA
* * ** * *
8486992 AAAATGCTCAAAATATTTAAAGATTTTTCTTCGTACATCAAAAATACTTCAAAATACTT
1 AAAATGCTCAAAATGTTCAAAGATTTTTCTTCGTGTATCAAAAATACTCCAAAATGCTT
* * * * *
8487051 AAAATGCTCAAAACGCTCAAAGGTTTTTTTTCGTGTATAAAAAATCACTCCAAAATGCTT
1 AAAATGCTCAAAATGTTCAAAGATTTTTCTTCGTGTATCAAAAAT-ACTCCAAAATGCTT
* *
8487111 AAAATGCTCAAAATGTTCAAAAATTTTTCTTCGTGTATCAAAAACTAATCCAAAATGCTT
1 AAAATGCTCAAAATGTTCAAAGATTTTTCTTCGTGTATCAAAAA-TACTCCAAAATGCTT
8487171 AAAA
1 AAAA
8487175 CATTTAAAAG
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
59 36 0.35
60 67 0.64
61 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (59 bp):
AAAATGCTCAAAATGTTCAAAGATTTTTCTTCGTGTATCAAAAATACTCCAAAATGCTT
Found at i:8487325 original size:17 final size:16
Alignment explanation
Indices: 8487287--8487321 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8487277 TAAGAGTTAG
8487287 TTTTA-TTAAAAGTAA
1 TTTTATTTAAAAGTAA
*
8487302 TTTTATTTAAAATTAA
1 TTTTATTTAAAAGTAA
8487318 TTTT
1 TTTT
8487322 TATTGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTATTTAAAAGTAA
Found at i:8493639 original size:22 final size:22
Alignment explanation
Indices: 8493608--8493652 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8493598 AAAATGCTTG
*
8493608 AAAAACTTTTGAATTAATTGTTT
1 AAAAACTTTTAAATTAATT-TTT
*
8493631 AAAAA-TTTTAAATTTATTTTT
1 AAAAACTTTTAAATTAATTTTT
8493652 A
1 A
8493653 TTCTTCTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 11 0.55
23 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (22 bp):
AAAAACTTTTAAATTAATTTTT
Found at i:8495690 original size:15 final size:15
Alignment explanation
Indices: 8495663--8495703 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
8495653 AATTTTTAAT
*
8495663 TTTTATATT-ATATA
1 TTTTATTTTAATATA
*
8495677 TTTTATTTTAATATT
1 TTTTATTTTAATATA
8495692 TTTTATTTTAAT
1 TTTTATTTTAAT
8495704 TATAACATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTTAATATA
Found at i:8495690 original size:20 final size:20
Alignment explanation
Indices: 8495656--8495701 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8495646 AAATTTTAAT
*
8495656 TTTTAATTTTTATATTATATA
1 TTTT-ATTTTAATATTATATA
* *
8495677 TTTTATTTTAATATTTTTTA
1 TTTTATTTTAATATTATATA
8495697 TTTTA
1 TTTTA
8495702 ATTATAACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTAATATTATATA
Found at i:8497513 original size:42 final size:42
Alignment explanation
Indices: 8497401--8497514 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 42
8497391 TTGACTCGGT
* * *
8497401 TATGTGCGAGTAAGAGTGTGCATAAGCCGATGCTGACCCGGC
1 TATGTGCGAGTAAGAGTGCGCATAAGCCGATACTAACCCGGC
* * * *
8497443 TATGAGCGCG-AGGAGTGCTCATAAGCCGATACTAACCCGGC
1 TATGTGCGAGTAAGAGTGCGCATAAGCCGATACTAACCCGGC
*
8497484 TATGTGTGAGTAAGAGTGCGCATAAGCCGAT
1 TATGTGCGAGTAAGAGTGCGCATAAGCCGAT
8497515 GCTGACCCAA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 33 0.56
42 26 0.44
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (42 bp):
TATGTGCGAGTAAGAGTGCGCATAAGCCGATACTAACCCGGC
Found at i:8497531 original size:42 final size:42
Alignment explanation
Indices: 8497392--8497522 Score: 165
Period size: 42 Copynumber: 3.1 Consensus size: 42
8497382 GTAATGATAT
* * *
8497392 TGACTCGGTTATGTGCGAGTAAGAGTGTGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCCGATGC
* * * * *
8497434 TGACCCGGCTATGAGCGCG-AGGAGTGCTCATAAGCCGATAC
1 TGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCCGATGC
* *
8497475 TAACCCGGCTATGTGTGAGTAAGAGTGCGCATAAGCCGATGC
1 TGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCCGATGC
8497517 TGACCC
1 TGACCC
8497523 AACCATGTGC
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 33 0.46
42 39 0.54
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAAGAGTGCGCATAAGCCGATGC
Found at i:8509433 original size:28 final size:28
Alignment explanation
Indices: 8509393--8509450 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
8509383 CAAGAAAAAA
8509393 TATACTGTGCTTTGTTTGTTTGTTTGTT
1 TATACTGTGCTTTGTTTGTTTGTTTGTT
8509421 TATACTGTGCTTTGTTTGTTTGTTTGTT
1 TATACTGTGCTTTGTTTGTTTGTTTGTT
8509449 TA
1 TA
8509451 ATATATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.09, C:0.07, G:0.21, T:0.64
Consensus pattern (28 bp):
TATACTGTGCTTTGTTTGTTTGTTTGTT
Found at i:8521815 original size:22 final size:22
Alignment explanation
Indices: 8521790--8521843 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
8521780 GATAGAATTT
8521790 ATGTTTATGACATCTTTTTATA
1 ATGTTTATGACATCTTTTTATA
8521812 ATGTTTATGACATCTTTTTATA
1 ATGTTTATGACATCTTTTTATA
*
8521834 ATATTTATGA
1 ATGTTTATGA
8521844 TTCATTCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (22 bp):
ATGTTTATGACATCTTTTTATA
Found at i:8530157 original size:29 final size:29
Alignment explanation
Indices: 8530121--8530178 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
8530111 ATATTAGTTA
8530121 AAATAATTAGATTCCGTCTGATTGTTACT
1 AAATAATTAGATTCCGTCTGATTGTTACT
* *
8530150 AAATAATTAGATTCTGTTTGATTGTTACT
1 AAATAATTAGATTCCGTCTGATTGTTACT
8530179 TTTGCTATTT
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:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (29 bp):
AAATAATTAGATTCCGTCTGATTGTTACT
Found at i:8532075 original size:23 final size:23
Alignment explanation
Indices: 8532045--8532097 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
8532035 GGTTAAACTT
*
8532045 TGCGTGACTGATTGATAGGTCTC
1 TGCGTGACTAATTGATAGGTCTC
*
8532068 TGCGTGACTAATTGATAGGTCTT
1 TGCGTGACTAATTGATAGGTCTC
8532091 TGCGTGA
1 TGCGTGA
8532098 TTGGTTTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (23 bp):
TGCGTGACTAATTGATAGGTCTC
Found at i:8534299 original size:25 final size:24
Alignment explanation
Indices: 8534262--8534315 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
8534252 GGGTCAGCCC
*
8534262 ATTTTTAT-TTTTTTCAAAAAAATT
1 ATTTTTATATTTTAT-AAAAAAATT
*
8534286 ATTTTTATAATTTTATAATAAAATT
1 ATTTTTAT-ATTTTATAAAAAAATT
8534311 ATTTT
1 ATTTT
8534316 ATGATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 13 0.50
26 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTTTTATATTTTATAAAAAAATT
Found at i:8534742 original size:24 final size:24
Alignment explanation
Indices: 8534713--8534769 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
8534703 GCATATGCAT
*
8534713 GCAATGCAGTTAGAGATCCAGCGG
1 GCAATGCAGTTAGAGATCCAGCGA
*
8534737 GCAATGCAATTAGAGATCCAGCGA
1 GCAATGCAGTTAGAGATCCAGCGA
*
8534761 GCGATGCAG
1 GCAATGCAG
8534770 ATGCAGATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.21, G:0.32, T:0.16
Consensus pattern (24 bp):
GCAATGCAGTTAGAGATCCAGCGA
Found at i:8536871 original size:22 final size:22
Alignment explanation
Indices: 8536845--8536927 Score: 94
Period size: 22 Copynumber: 3.6 Consensus size: 22
8536835 ACAAATATTC
8536845 AGTCACGTAATGCCTACAAACA
1 AGTCACGTAATGCCTACAAACA
* * *
8536867 AGTCACGCAATGCTTAACAAATA
1 AGTCACGTAATGCCT-ACAAACA
*
8536890 TTTAGTCACGTAATGCCTATAAACA
1 ---AGTCACGTAATGCCTACAAACA
8536915 AGTCACGTAATGC
1 AGTCACGTAATGC
8536928 TCAACAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 26 0.52
23 6 0.12
25 5 0.10
26 13 0.26
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (22 bp):
AGTCACGTAATGCCTACAAACA
Found at i:8536889 original size:48 final size:48
Alignment explanation
Indices: 8536818--8536951 Score: 214
Period size: 48 Copynumber: 2.8 Consensus size: 48
8536808 TAGGTACATA
*
8536818 AAGTCACGCAATACTCAACAAATATTCAGTCACGTAATGCCTACAAAC
1 AAGTCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTACAAAC
* * *
8536866 AAGTCACGCAATGCTTAACAAATATTTAGTCACGTAATGCCTATAAAC
1 AAGTCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTACAAAC
* *
8536914 AAGTCACGTAATGCTCAACAAATATTCAATCACGTAAT
1 AAGTCACGCAATGCTCAACAAATATTCAGTCACGTAAT
8536952 ATTCAGGCAC
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (48 bp):
AAGTCACGCAATGCTCAACAAATATTCAGTCACGTAATGCCTACAAAC
Found at i:8536897 original size:26 final size:25
Alignment explanation
Indices: 8536819--8536939 Score: 83
Period size: 22 Copynumber: 5.0 Consensus size: 25
8536809 AGGTACATAA
* *
8536819 AGTCACGCAATACTCAACAAATATT
1 AGTCACGCAATGCTTAACAAATATT
* * *
8536844 CAGTCACGTAATGCCT-ACAAACA--
1 -AGTCACGCAATGCTTAACAAATATT
8536867 AGTCACGCAATGCTTAACAAATATTT
1 AGTCACGCAATGCTTAACAAATA-TT
* * * *
8536893 AGTCACGTAATGCCT-ATAAACA--
1 AGTCACGCAATGCTTAACAAATATT
* *
8536915 AGTCACGTAATGCTCAACAAATATT
1 AGTCACGCAATGCTTAACAAATATT
8536940 CAATCACGTA
Statistics
Matches: 72, Mismatches: 16, Indels: 15
0.70 0.16 0.15
Matches are distributed among these distances:
22 26 0.36
23 11 0.15
25 11 0.15
26 24 0.33
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (25 bp):
AGTCACGCAATGCTTAACAAATATT
Found at i:8550196 original size:2 final size:2
Alignment explanation
Indices: 8550191--8550218 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8550181 TTTTGTAGGA
8550191 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8550219 CAATCAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8550553 original size:15 final size:17
Alignment explanation
Indices: 8550522--8550572 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
8550512 TCGTATAATA
8550522 TAAGAAAATGATGATTG
1 TAAGAAAATGATGATTG
8550539 TAAG-AAATG-TGATTG
1 TAAGAAAATGATGATTG
* *
8550554 TTAAAAAAATTAT-ATTG
1 -TAAGAAAATGATGATTG
8550571 TA
1 TA
8550573 GTATTTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 6 0.21
16 10 0.34
17 12 0.41
18 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (17 bp):
TAAGAAAATGATGATTG
Found at i:8555791 original size:17 final size:17
Alignment explanation
Indices: 8555769--8555801 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8555759 GCGAAGTTTA
8555769 GCAGAAATAGATGCTTG
1 GCAGAAATAGATGCTTG
*
8555786 GCAGAAATAGGTGCTT
1 GCAGAAATAGATGCTT
8555802 CGTAATTGAG
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:0.12, G:0.30, T:0.24
Consensus pattern (17 bp):
GCAGAAATAGATGCTTG
Found at i:8560459 original size:6 final size:6
Alignment explanation
Indices: 8560443--8560473 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
8560433 TAATTGATAG
8560443 AAAAC- AAAACA AAAACA AAAACA AAAACA AA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AA
8560474 GCTCTCAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:8569878 original size:19 final size:20
Alignment explanation
Indices: 8569855--8569899 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
8569845 AATTGATATA
8569855 ATATTTAAAAAAATTTAAAT
1 ATATTTAAAAAAATTTAAAT
*
8569875 -TATTTAATAAAATTTAAAT
1 ATATTTAAAAAAATTTAAAT
8569894 ATATTT
1 ATATTT
8569900 TGTATTACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTTAAAAAAATTTAAAT
Found at i:8580443 original size:81 final size:79
Alignment explanation
Indices: 8580349--8580514 Score: 242
Period size: 81 Copynumber: 2.1 Consensus size: 79
8580339 ACCTATTGGT
*
8580349 AGATAATATTCATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATA
1 AGATAATATTCATATTTTTGACCAATCAAAAATTAATTATTGGTCATCCAATTTATCTCT-AAT-
8580414 AATCAAAATAATTTAG
64 AATCAAAATAATTTAG
* * **
8580430 AGATAATATTCATATTTTTTACCAATCAAAATTTAATTATTGGTCATTTAATTTATCTCTAATAA
1 AGATAATATTCATATTTTTGACCAATCAAAAATTAATTATTGGTCATCCAATTTATCTCTAATAA
* * *
8580495 TTATACTAATTTAG
66 TCAAAATAATTTAG
8580509 AGATAA
1 AGATAA
8580515 AAATCAAATT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 19 0.25
80 3 0.04
81 55 0.71
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.42
Consensus pattern (79 bp):
AGATAATATTCATATTTTTGACCAATCAAAAATTAATTATTGGTCATCCAATTTATCTCTAATAA
TCAAAATAATTTAG
Found at i:8580851 original size:23 final size:23
Alignment explanation
Indices: 8580825--8580924 Score: 83
Period size: 23 Copynumber: 4.3 Consensus size: 23
8580815 CTAAAGCGAA
* **
8580825 GATCAAGTGGCAGTGAAGTTCGT
1 GATCAAGTAGCAACGAAGTTCGT
* * *
8580848 GATCAAGTGGCAACAAAGTTTGT
1 GATCAAGTAGCAACGAAGTTCGT
* * *
8580871 GATCAAGCAGCAATGAAGTTCAT
1 GATCAAGTAGCAACGAAGTTCGT
* *
8580894 GATTAAGATATCAAGCGAAGTTCGT
1 GATCAAG-TAGCAA-CGAAGTTCGT
8580919 GATCAA
1 GATCAA
8580925 AATACAATGT
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
23 42 0.71
24 4 0.07
25 13 0.22
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (23 bp):
GATCAAGTAGCAACGAAGTTCGT
Found at i:8581025 original size:49 final size:50
Alignment explanation
Indices: 8580931--8581044 Score: 131
Period size: 49 Copynumber: 2.3 Consensus size: 50
8580921 TCAAAATACA
* * ** *
8580931 ATGTTCGTGATCAAGATTAAGTCGTCAAGACTTTTGAAGCAAAGATCAAG
1 ATGTTCGTGATCAAAATTAAGTCATCAAGACCCTTAAAGCAAAGATCAAG
* * *
8580981 -TGTTCGTGATCAAAATTAAGTCATGAAGGCCCTTAAAGCGAAGATCAAG
1 ATGTTCGTGATCAAAATTAAGTCATCAAGACCCTTAAAGCAAAGATCAAG
*
8581030 CAAGTTCGTGATCAA
1 -ATGTTCGTGATCAA
8581045 GACCAAGTCC
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
49 41 0.77
51 12 0.23
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGTTCGTGATCAAAATTAAGTCATCAAGACCCTTAAAGCAAAGATCAAG
Found at i:8589549 original size:6 final size:6
Alignment explanation
Indices: 8589538--8589562 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8589528 TATTCTCCCT
8589538 AGTATG AGTATG AGTATG AGTATG A
1 AGTATG AGTATG AGTATG AGTATG A
8589563 TCAAAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (6 bp):
AGTATG
Found at i:8592131 original size:2 final size:2
Alignment explanation
Indices: 8592126--8592153 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8592116 TCTATATATA
8592126 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8592154 CAGTAGATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8601855 original size:62 final size:62
Alignment explanation
Indices: 8601758--8601882 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
8601748 TTGTGATCCA
*
8601758 TGAGTACAAATACACCATAAAGAAACTTCTAATTGATTATAGGGCTGCATGTAGTTCAATCT
1 TGAGTACAAATACACCATAAAGAAACTTCTAATTGATTATAGGGCTGCAGGTAGTTCAATCT
8601820 TGAGTACAAATACACCATAAAGAAACTTCTAATTGATTATAGGGCTGCAGGTAGTTCAATCT
1 TGAGTACAAATACACCATAAAGAAACTTCTAATTGATTATAGGGCTGCAGGTAGTTCAATCT
8601882 T
1 T
8601883 TCTTTCCCTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (62 bp):
TGAGTACAAATACACCATAAAGAAACTTCTAATTGATTATAGGGCTGCAGGTAGTTCAATCT
Found at i:8605960 original size:113 final size:113
Alignment explanation
Indices: 8605781--8606006 Score: 337
Period size: 113 Copynumber: 2.0 Consensus size: 113
8605771 TGAATGAATA
* * * *
8605781 AAAATAGATCATGACAAATGATGTTCAGTGTTGTTCAGAGCCCTTACTTCTATCAAAGAACTCAC
1 AAAATAGATCATGACAAATGATGTTCAGAGTTGTTCAGAGCCCTTAATTCCATCAAAGAACACAC
8605846 ATGTAATCCACCCTAGGTACTGATGACACCAGAAAAATTGATATCATG
66 ATGTAATCCACCCTAGGTACTGATGACACCAGAAAAATTGATATCATG
* ** *
8605894 AAAATAGATCTTGACAAATGATGTTTGGAGTTGTTCAGAGCTCTTAATTCCATCAAA-AATCACA
1 AAAATAGATCATGACAAATGATGTTCAGAGTTGTTCAGAGCCCTTAATTCCATCAAAGAA-CACA
* * *
8605958 CATGTAATCTATCCTAGGTACTGATGATACCAGAAAAATTGATATCATG
65 CATGTAATCCACCCTAGGTACTGATGACACCAGAAAAATTGATATCATG
8606007 CTTCTAATCT
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
112 2 0.02
113 99 0.98
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (113 bp):
AAAATAGATCATGACAAATGATGTTCAGAGTTGTTCAGAGCCCTTAATTCCATCAAAGAACACAC
ATGTAATCCACCCTAGGTACTGATGACACCAGAAAAATTGATATCATG
Found at i:8612049 original size:21 final size:20
Alignment explanation
Indices: 8612025--8612091 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
8612015 AAATATTTTT
*
8612025 ATTTTTTAAATTTTGATAAAA
1 ATTTTTT-AATTTTAATAAAA
* *
8612046 ATTTATTAATTTTTAA-AATA
1 ATTTTTTAA-TTTTAATAAAA
*
8612066 ATATTTT-ATTTTAATAAAA
1 ATTTTTTAATTTTAATAAAA
8612085 TATTTTT
1 -ATTTTT
8612092 ATTAGGCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
18 6 0.17
19 4 0.11
20 15 0.42
21 11 0.31
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
ATTTTTTAATTTTAATAAAA
Found at i:8612077 original size:18 final size:18
Alignment explanation
Indices: 8612056--8612090 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8612046 ATTTATTAAT
8612056 TTTTAA-AATAATATTTTA
1 TTTTAATAA-AATATTTTA
8612074 TTTTAATAAAATATTTT
1 TTTTAATAAAATATTTT
8612091 TATTAGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAATAAAATATTTTA
Found at i:8612675 original size:7 final size:7
Alignment explanation
Indices: 8612663--8612711 Score: 80
Period size: 7 Copynumber: 7.0 Consensus size: 7
8612653 CATAATAAAC
8612663 GCAGCAG
1 GCAGCAG
8612670 GCAGCAG
1 GCAGCAG
8612677 GCAGCAG
1 GCAGCAG
8612684 GCAGCAG
1 GCAGCAG
*
8612691 GCAGCAA
1 GCAGCAG
*
8612698 GCAGCAA
1 GCAGCAG
8612705 GCAGCAG
1 GCAGCAG
8612712 TGTGTAACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.33, C:0.29, G:0.39, T:0.00
Consensus pattern (7 bp):
GCAGCAG
Found at i:8629630 original size:31 final size:31
Alignment explanation
Indices: 8629595--8629656 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
8629585 TGCAAGCATC
*
8629595 AATTTGGCCAATGCTAGA-ATGTTATGAATTA
1 AATTTGGCCAATGATA-ATATGTTATGAATTA
*
8629626 AATTTGGTCAATGATAATATGTTATGAATTA
1 AATTTGGCCAATGATAATATGTTATGAATTA
8629657 TGTAGAGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (31 bp):
AATTTGGCCAATGATAATATGTTATGAATTA
Found at i:8631793 original size:29 final size:29
Alignment explanation
Indices: 8631761--8631830 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
8631751 ACAGGTTTGA
* *
8631761 TATTAATTTTCATACATACACAAACATGT
1 TATTAATTTCCAAACATACACAAACATGT
* *
8631790 TATTAATTTCCAAACATGCACAAATATGT
1 TATTAATTTCCAAACATACACAAACATGT
*
8631819 TAATAATTTCCA
1 TATTAATTTCCA
8631831 GACACGAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.37
Consensus pattern (29 bp):
TATTAATTTCCAAACATACACAAACATGT
Found at i:8632171 original size:173 final size:170
Alignment explanation
Indices: 8631955--8632299 Score: 444
Period size: 173 Copynumber: 2.0 Consensus size: 170
8631945 GGTTAGGTAA
* * *
8631955 TAGTTTCTAAAAGTACACCAATATGTTACCAATTTTCACACATACAAAGGCATGATATTAATTTC
1 TAGTTTCCAAAAATACACCAATATGATACCAATTTTCACACATACAAAGGCATGATATTAATTTC
* * * * * **
8632020 AAAACATACATAATTTTGATATTAGTTTCCACAAATACATTGATATGATATTAATTTCCATGTAT
66 AAAACATACACAAGTTTCATATTAATTTCCACAAATACACTGATATGATATTAATTTCCACATAT
*
8632085 ACA-TAGGTTTGATA-TTAGTTTCCATACATACTAGGTTTGATAT
131 ACACT-GGTTTGATATTTA-TTACCATAC--A-TAGGTTTGATAT
** * *
8632128 TAGTTTCCAAAAATACACCAATATGATATTAATTTGT-ACACATACACAGGTATGATATTAATTT
1 TAGTTTCCAAAAATACACCAATATGATACCAATTT-TCACACATACAAAGGCATGATATTAATTT
* * * *
8632192 CCAAACATGCACAAGTTTCATATTAATTTCCACAAATATACTGCTATGATATTAATTTCCACATA
65 CAAAACATACACAAGTTTCATATTAATTTCCACAAATACACTGATATGATATTAATTTCCACATA
8632257 TACACTGGTTTGATATTTATTACCATACATAGGTTTGATAT
130 TACACTGGTTTGATATTTATTACCATACATAGGTTTGATAT
8632298 TA
1 TA
8632300 AGTTCAAGAC
Statistics
Matches: 150, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
170 14 0.09
171 1 0.01
173 130 0.87
174 5 0.03
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (170 bp):
TAGTTTCCAAAAATACACCAATATGATACCAATTTTCACACATACAAAGGCATGATATTAATTTC
AAAACATACACAAGTTTCATATTAATTTCCACAAATACACTGATATGATATTAATTTCCACATAT
ACACTGGTTTGATATTTATTACCATACATAGGTTTGATAT
Found at i:8632248 original size:87 final size:86
Alignment explanation
Indices: 8631893--8632662 Score: 527
Period size: 87 Copynumber: 9.0 Consensus size: 86
8631883 TTCAAAGTTT
* * * * *
8631893 TGATATTAATTT-C-CACAT--ACAGGTTTTGATATTAATTTACATTCATACAAAAGGTTAGGTA
1 TGATATTAATTTCCACACATACACAGG-TTTGATATTAATTTCCATACATACACAA-GTTTGATA
* * * * *
8631954 ATAGTTTCTAAAAGTACACCAATA
64 TTAATTTCCAAAAATACA-CAGTA
* ** * * ** * * * *
8631978 TGTTACCAATTTTCACACATACAAAGGCATGATATTAATTTCAAAACATACATAATTTTGATATT
1 TGATATTAATTTCCACACATACACAGGTTTGATATTAATTTCCATACATACACAAGTTTGATATT
* * **
8632043 AGTTTCCACAAATACATTGATA
66 AATTTCCAAAAATACACAG-TA
*** * * * *
8632065 TGATATTAATTTCCATGTATACATAGGTTTGATATTAGTTTCCATACATAC-TAGGTTTGATATT
1 TGATATTAATTTCCACACATACACAGGTTTGATATTAATTTCCATACATACACAAGTTTGATATT
* *
8632129 AGTTTCCAAAAATACACCAATA
66 AATTTCCAAAAATACA-CAGTA
** * * * *
8632151 TGATATTAATTTGTACACATACACAGGTATGATATTAATTTCCAAACATGCACAAGTTTCATATT
1 TGATATTAATTTCCACACATACACAGGTTTGATATTAATTTCCATACATACACAAGTTTGATATT
* * *
8632216 AATTTCCACAAATATACTGCTA
66 AATTTCCAAAAATACACAG-TA
* * * * *
8632238 TGATATTAATTTCCACATATACACTGGTTTGATATTTATTACCATACAT----AGGTTTGATATT
1 TGATATTAATTTCCACACATACACAGGTTTGATATTAATTTCCATACATACACAAGTTTGATATT
* *
8632299 AAGTT-CAAGACACATACA-TGTA
66 AATTTCCAA-A-A-ATACACAGTA
* * * *
8632321 TGATATTAATTTCCACACATACACAAGCTTGATATAAATTTCCATACCTACACAAGTTTGATATT
1 TGATATTAATTTCCACACATACACAGGTTTGATATTAATTTCCATACATACACAAGTTTGATATT
* *
8632386 AAGTTT-TAAAGACAAACACAGGTA
66 AA-TTTCCAAA-A-ATACACA-GTA
* * * * * *
8632410 TGACATTAGTTTCCACACATAAACAGGTTTGATATTAATTTTCAT--ATACACAGGTTAGATATT
1 TGATATTAATTTCCACACATACACAGGTTTGATATTAATTTCCATACATACACAAGTTTGATATT
* * *
8632473 AATTTCGAGACATACACAAGTA
66 AATTTCCAAAAATACAC-AGTA
* * *
8632495 TGATATTAATTTCCACACATACATAAGTTTGATATTAACTAACTTCCATACATGCACAAGTTTGA
1 TGATATTAATTTCCACACATACACAGGTTTGATATTAA-T---TTCCATACATACACAAGTTTGA
*
8632560 TATTAATTT-CAAGACAT--A-AGTA
62 TATTAATTTCCAA-AAATACACAGTA
* * * * *
8632582 TGATATT-ATTTCTACACATACACAGGTTTGATATTAATTTTCACACATACGC-AGATATGATAT
1 TGATATTAATTTCCACACATACACAGGTTTGATATTAATTTCCATACATACACAAG-TTTGATAT
* **
8632645 TGATTTTAAAAAATACAC
65 TAATTTCCAAAAATACAC
8632663 CGATATTAAT
Statistics
Matches: 532, Mismatches: 121, Indels: 64
0.74 0.17 0.09
Matches are distributed among these distances:
81 2 0.00
82 27 0.05
83 60 0.11
84 4 0.01
85 55 0.10
86 103 0.19
87 180 0.34
88 25 0.05
89 51 0.10
90 1 0.00
91 24 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (86 bp):
TGATATTAATTTCCACACATACACAGGTTTGATATTAATTTCCATACATACACAAGTTTGATATT
AATTTCCAAAAATACACAGTA
Found at i:8632600 original size:24 final size:25
Alignment explanation
Indices: 8632552--8632601 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
8632542 ATACATGCAC
* *
8632552 AAGTTTGATATTAATTTCAAGACAT
1 AAGTATGATATTAATTTCAACACAT
*
8632577 AAGTATGATATT-ATTTCTACACAT
1 AAGTATGATATTAATTTCAACACAT
8632601 A
1 A
8632602 CACAGGTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (25 bp):
AAGTATGATATTAATTTCAACACAT
Found at i:8632627 original size:29 final size:29
Alignment explanation
Indices: 8631985--8632650 Score: 413
Period size: 29 Copynumber: 23.2 Consensus size: 29
8631975 ATATGTTACC
* * **
8631985 AATTTTCACACATACAAAGGCATGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * * **
8632014 AATTTCAAAACATACATAATTTTGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * ** * *
8632043 AGTTTCCACAAATACATTGATATGATATT
1 AATTTCCACACATACACAGGTTTGATATT
*** *
8632072 AATTTCCATGTATACATAGGTTTGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * *
8632101 AGTTTCCATACATAC-TAGGTTTGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * * * *
8632129 AGTTTCCAAAAATACACCA-ATATGATATT
1 AATTTCCACACATACA-CAGGTTTGATATT
** *
8632158 AATTTGTACACATACACAGGTATGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * * *
8632187 AATTTCCAAACATGCACAAGTTTCATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * * * *
8632216 AATTTCCACAAATATACTGCTATGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* *
8632245 AATTTCCACATATACACTGGTTTGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* *
8632274 TA-TT--AC-CATACATAGGTTTGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * * * * * *
8632299 AAGTTCAAGACACATACATGTATGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * *
8632328 AATTTCCACACATACACAAGCTTGATATA
1 AATTTCCACACATACACAGGTTTGATATT
* * *
8632357 AATTTCCATACCTACACAAGTTTGATATT
1 AATTTCCACACATACACAGGTTTGATATT
** * * * *
8632386 AAGTTTTAAAGACAAACACAGGTATGACATT
1 AA--TTTCCACACATACACAGGTTTGATATT
* *
8632417 AGTTTCCACACATAAACAGGTTTGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * *
8632446 AATTT--TCATATACACAGGTTAGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * * *
8632473 AATTTCGAGACATACACAAGTATGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* *
8632502 AATTTCCACACATACATAAGTTTGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * *
8632531 AACTAACTTCCATACATGCACAAGTTTGATATT
1 AA-T---TTCCACACATACACAGGTTTGATATT
* * *
8632564 AATTTCAAGACAT--A-A-GTATGATATT
1 AATTTCCACACATACACAGGTTTGATATT
*
8632589 -ATTTCTACACATACACAGGTTTGATATT
1 AATTTCCACACATACACAGGTTTGATATT
* * * *
8632617 AATTTTCACACATACGCAGATATGATATT
1 AATTTCCACACATACACAGGTTTGATATT
*
8632646 GATTT
1 AATTT
8632651 TAAAAAATAC
Statistics
Matches: 490, Mismatches: 127, Indels: 40
0.75 0.19 0.06
Matches are distributed among these distances:
24 10 0.02
25 26 0.05
26 6 0.01
27 25 0.05
28 40 0.08
29 335 0.68
30 2 0.00
31 20 0.04
32 1 0.00
33 25 0.05
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (29 bp):
AATTTCCACACATACACAGGTTTGATATT
Found at i:8632643 original size:115 final size:118
Alignment explanation
Indices: 8632436--8632645 Score: 268
Period size: 115 Copynumber: 1.8 Consensus size: 118
8632426 ACATAAACAG
* * *
8632436 GTTTGATATTAATTTTCATATACACAGGTTAGATATTAATTTCGAGACATACACAAGTATGATAT
1 GTTTGATATTAATTTTCATAGACACAAGTTAGATATTAATTTCGACACATACACAAGTATGATAT
* *
8632501 TAATTTCCACACATACATAAGTTTGATATTAACTAACTTCCATACATGCACAA
66 TAATTTCCACACATACACAAGTATGATATTAACTAACTTCCATACATGCACAA
* * * *
8632554 GTTTGATATTAA-TTTCA-AGACATAAG-TATGATATT-ATTTCTACACATACACAGGTTTGATA
1 GTTTGATATTAATTTTCATAGACACAAGTTA-GATATTAATTTCGACACATACACAAGTATGATA
* *
8632615 TTAATTTTCACACATACGC-AGATATGATATT
65 TTAATTTCCACACATACACAAG-TATGATATT
8632646 GATTTTAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
114 2 0.03
115 48 0.61
116 12 0.15
117 5 0.06
118 12 0.15
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (118 bp):
GTTTGATATTAATTTTCATAGACACAAGTTAGATATTAATTTCGACACATACACAAGTATGATAT
TAATTTCCACACATACACAAGTATGATATTAACTAACTTCCATACATGCACAA
Found at i:8636503 original size:18 final size:18
Alignment explanation
Indices: 8636480--8636516 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8636470 GTTTCTAGAC
8636480 TGTGTAGCTAGGAATAGT
1 TGTGTAGCTAGGAATAGT
8636498 TGTGTAGCTAGGAATAGT
1 TGTGTAGCTAGGAATAGT
8636516 T
1 T
8636517 AGTGCTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.32, T:0.35
Consensus pattern (18 bp):
TGTGTAGCTAGGAATAGT
Found at i:8644263 original size:2 final size:2
Alignment explanation
Indices: 8644256--8644286 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8644246 AATCTTTAAC
8644256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8644287 TGGTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8646780 original size:40 final size:39
Alignment explanation
Indices: 8646720--8646818 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 39
8646710 ATTGATATGA
* * * *
8646720 TTAATATATGATAAGATGATAAATCGTAACTACATTTGAAT
1 TTAATA-ATAATAAAATGAT-AATCGTAACTACACTTAAAT
** * *
8646761 TTAATAATAATAAAATGATAATTTTATCTGCACTTAAAT
1 TTAATAATAATAAAATGATAATCGTAACTACACTTAAAT
*
8646800 TTAATTATAATAAAATGAT
1 TTAATAATAATAAAATGAT
8646819 TATCAGATAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 32 0.65
40 11 0.22
41 6 0.12
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (39 bp):
TTAATAATAATAAAATGATAATCGTAACTACACTTAAAT
Found at i:8653128 original size:6 final size:6
Alignment explanation
Indices: 8653117--8653145 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8653107 TGGTCTTTGA
8653117 TAGCTC TAGCTC TAGCTC TAGCTC TAGCT
1 TAGCTC TAGCTC TAGCTC TAGCTC TAGCT
8653146 TGGCATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (6 bp):
TAGCTC
Found at i:8656168 original size:2 final size:2
Alignment explanation
Indices: 8656161--8656191 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8656151 TTGTAACTTC
8656161 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8656192 GAATATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8660552 original size:12 final size:12
Alignment explanation
Indices: 8660532--8660561 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8660522 AAATAAGCAA
8660532 TTTCCTTTTCTT
1 TTTCCTTTTCTT
*
8660544 TTTCTTTTTCTT
1 TTTCCTTTTCTT
8660556 TTTCCT
1 TTTCCT
8660562 CATTTATCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTCCTTTTCTT
Found at i:8666100 original size:19 final size:18
Alignment explanation
Indices: 8666063--8666101 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8666053 ACTAAGACAG
* *
8666063 AAAACAAACAAAATGAAA
1 AAAAAAAACAAAAAGAAA
8666081 AAAAAAAACAAAAAGCAAA
1 AAAAAAAACAAAAAG-AAA
8666100 AA
1 AA
8666102 CAAAGGGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.82, C:0.10, G:0.05, T:0.03
Consensus pattern (18 bp):
AAAAAAAACAAAAAGAAA
Found at i:8676569 original size:2 final size:2
Alignment explanation
Indices: 8676562--8676612 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
8676552 NNNNNNNNNN
* * *
8676562 AT AT AT AT AT AT AT AT AT A- AGT GT AT AA AC AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
8676603 AT AT AT AT AT
1 AT AT AT AT AT
8676613 TTAATTTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8676720 original size:14 final size:16
Alignment explanation
Indices: 8676701--8676737 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
8676691 CATCTTAATT
8676701 TTTATAA-TA-TATTA
1 TTTATAATTAGTATTA
8676715 TTTATAATTAGTTATTA
1 TTTATAATTAG-TATTA
8676732 TTTATA
1 TTTATA
8676738 TAAACTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
17 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTATAATTAGTATTA
Found at i:8676816 original size:208 final size:212
Alignment explanation
Indices: 8676597--8677008 Score: 593
Period size: 208 Copynumber: 1.9 Consensus size: 212
8676587 TAAACATTAT
8676597 ATATATATATATATATTTAATTTATACATA-AGTATTACTATAACTTGTAATAAACTTTATTTAT
1 ATATATATATATATATTTAATTTATACATAGA-TATTACTATAACTTGTAATAAACTTTATTTAT
* * *
8676661 ATTATTACACTTAATAACCTTATTAATTATCA-TCTTAATTTTTATAATATATTATTTATAATTA
65 ATAATTACACTTAATAACCTTATTAATTATCACT-TTAATTTTTATAACATATTATTTACAATTA
* * *
8676725 GTTATTATTTATATAAACTTTGATAT-AA-T-ACATTATAACATATAAGTTGTGTTATTAATTTC
129 GTTATTATTTATACAAAATTTGATATAAATTAACATTATAACATATAAGTTGTGTTATTAAGTTC
8676787 ATATATACACAATATAATA
194 ATATATACACAATATAATA
* * *
8676806 ATAT-TATATATATATTTAATTTATACATAGATATTACTGTAATTTGTAATAGACTTTATTTATA
1 ATATATATATATATATTTAATTTATACATAGATATTACTATAACTTGTAATAAACTTTATTTATA
** * *
8676870 TAATTACACTTAATAATTTTATTCATTATCACTTTAATTTTTATAACATATTGTTTACAATTAGT
66 TAATTACACTTAATAACCTTATTAATTATCACTTTAATTTTTATAACATATTATTTACAATTAGT
* *
8676935 TATTATTTATACAAAATTTGATATAAAAATTAAAATATTATAGCATATAAGTTGTGTTATTAAGT
131 TATTATTTATACAAAATTTGATAT--AAATT--AACATTATAACATATAAGTTGTGTTATTAAGT
8677000 TCATATATA
192 TCATATATA
8677009 TAATAAAGTA
Statistics
Matches: 179, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
208 133 0.74
209 6 0.03
211 2 0.01
212 1 0.01
215 37 0.21
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (212 bp):
ATATATATATATATATTTAATTTATACATAGATATTACTATAACTTGTAATAAACTTTATTTATA
TAATTACACTTAATAACCTTATTAATTATCACTTTAATTTTTATAACATATTATTTACAATTAGT
TATTATTTATACAAAATTTGATATAAATTAACATTATAACATATAAGTTGTGTTATTAAGTTCAT
ATATACACAATATAATA
Found at i:8676891 original size:23 final size:22
Alignment explanation
Indices: 8676864--8676915 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
8676854 ATAGACTTTA
8676864 TTTATATAATTA-CACTTAATAAT
1 TTTATATAATTATCACTT--TAAT
*
8676887 TTTAT-TCATTATCACTTTAAT
1 TTTATATAATTATCACTTTAAT
8676908 TTT-TATAA
1 TTTATATAA
8676916 CATATTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 1 0.04
21 9 0.36
22 5 0.20
23 10 0.40
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTATATAATTATCACTTTAAT
Found at i:8688778 original size:8 final size:7
Alignment explanation
Indices: 8688762--8688793 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
8688752 AAAAATATAT
8688762 AAATGAA
1 AAATGAA
8688769 AAATGAA
1 AAATGAA
8688776 AAATGAA
1 AAATGAA
8688783 AGAATGAA
1 A-AATGAA
8688791 AAA
1 AAA
8688794 AGGAGAGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (7 bp):
AAATGAA
Found at i:8688788 original size:15 final size:14
Alignment explanation
Indices: 8688762--8688793 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
8688752 AAAAATATAT
8688762 AAATGAAAAATGAA
1 AAATGAAAAATGAA
8688776 AAATGAAAGAATGAA
1 AAATGAAA-AATGAA
8688791 AAA
1 AAA
8688794 AGGAGAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (14 bp):
AAATGAAAAATGAA
Found at i:8691953 original size:15 final size:15
Alignment explanation
Indices: 8691933--8691964 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8691923 GTTGGGTTCC
8691933 CGGACCCGCACGTTA
1 CGGACCCGCACGTTA
8691948 CGGACCCGCACGTTA
1 CGGACCCGCACGTTA
8691963 CG
1 CG
8691965 ACATCTCATA
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:0.19, C:0.41, G:0.28, T:0.12
Consensus pattern (15 bp):
CGGACCCGCACGTTA
Found at i:8693677 original size:29 final size:29
Alignment explanation
Indices: 8693640--8693699 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
8693630 TTTAATTATA
*
8693640 AATTATAAAAGAATCATATTCAAAATTTT
1 AATTATAAAAGAATAATATTCAAAATTTT
* * * *
8693669 AATTGTAAATGATTAATATTTAAAATTTT
1 AATTATAAAAGAATAATATTCAAAATTTT
8693698 AA
1 AA
8693700 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (29 bp):
AATTATAAAAGAATAATATTCAAAATTTT
Found at i:8694392 original size:2 final size:2
Alignment explanation
Indices: 8694387--8694417 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8694377 CAATAAAATA
8694387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8694418 AGTAANNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8695061 original size:27 final size:27
Alignment explanation
Indices: 8695031--8695143 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 27
8695021 CCTCTGATAA
* *
8695031 ATAAGGGTATCCATCAACCTCTGGTGT
1 ATAAAGGTATCCATCAACCTCTGGTGG
* * *
8695058 ATAAAAGTATCCATCCACCTCTAGTGG
1 ATAAAGGTATCCATCAACCTCTGGTGG
* * * *
8695085 ATGAAGGTATTCATCCATCTCTGGTGG
1 ATAAAGGTATCCATCAACCTCTGGTGG
* *
8695112 GTAAAGGTATCCATCAACTTCTGGTGG
1 ATAAAGGTATCCATCAACCTCTGGTGG
*
8695139 GTAAA
1 ATAAA
8695144 CGCATTTATC
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (27 bp):
ATAAAGGTATCCATCAACCTCTGGTGG
Found at i:8695257 original size:88 final size:88
Alignment explanation
Indices: 8695094--8695263 Score: 202
Period size: 88 Copynumber: 1.9 Consensus size: 88
8695084 GATGAAGGTA
* * * * * *
8695094 TTCATCCATCTCTGGTGGGTAAAGGTATCCATCAACTTCTGGTGGGTAAACGCATTTATCTATCT
1 TTCATCCATCTCTAGTGGGTAAAAGTATCCATCAACCTCTGATGAGTAAACGCATTTATCCATCT
*
8695159 TTGATGGGTAAATGTATCCATCC
66 TTGATAGGTAAATGTATCCATCC
* *
8695182 TTCATCCATCTCTAGTGGGTAAAAGTATCCATCCACCTCTTATGAGTAAA-G-ATATTCATCCAT
1 TTCATCCATCTCTAGTGGGTAAAAGTATCCATCAACCTCTGATGAGTAAACGCAT-TT-ATCCAT
*
8695245 -TTTTAGTAGGTAAATGTAT
64 CTTTGA-TAGGTAAATGTAT
8695264 TATTGTAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
86 2 0.03
87 7 0.10
88 60 0.87
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (88 bp):
TTCATCCATCTCTAGTGGGTAAAAGTATCCATCAACCTCTGATGAGTAAACGCATTTATCCATCT
TTGATAGGTAAATGTATCCATCC
Found at i:8702106 original size:86 final size:86
Alignment explanation
Indices: 8701958--8702127 Score: 259
Period size: 86 Copynumber: 2.0 Consensus size: 86
8701948 TCTCTTAGTA
* * * ** * **
8701958 TATATAAAAGTATGATGTTTCAATTTCTTTTTATTTGTTTCAATTGAGTCTTTAATTAAATGACA
1 TATATAAAAGTAAGATGTTTCAATATCCTTCAATTTCTTTCAATTGAGTCTCCAATTAAATGACA
8702023 AGTGTCATTCAATTAGAACTT
66 AGTGTCATTCAATTAGAACTT
*
8702044 TATATAAAAGTAAGATGTTTCAATATCCTTCAATTTCTTTCAATTGAGTCTCCAATTGAATGACA
1 TATATAAAAGTAAGATGTTTCAATATCCTTCAATTTCTTTCAATTGAGTCTCCAATTAAATGACA
8702109 AGTGTCATTCAATTAGAAC
66 AGTGTCATTCAATTAGAAC
8702128 CTTTCATTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 75 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (86 bp):
TATATAAAAGTAAGATGTTTCAATATCCTTCAATTTCTTTCAATTGAGTCTCCAATTAAATGACA
AGTGTCATTCAATTAGAACTT
Found at i:8702310 original size:296 final size:296
Alignment explanation
Indices: 8701776--8702336 Score: 1005
Period size: 296 Copynumber: 1.9 Consensus size: 296
8701766 AGTAGGATGT
*
8701776 TTCAATTTCTTTCAATTGAGTCTCCAATTGAATGACAAGTGTCATTTAATTAGAACCTTTCATTT
1 TTCAATTTCTTTCAATTGAGTCTCCAATTGAATGACAAGTGTCATTCAATTAGAACCTTTCATTT
*
8701841 TTTTATATACCTTTGACCCATGAAAACAACGTCGTATTGATATAAGGCTTTTTGCATTCCTATAT
66 TTTTATATACCTTTGACCCATGAAAACAACGTCGTATTGATATAAAGCTTTTTGCATTCCTATAT
* * *
8701906 GACTCTTTCTTATTTCTCTGAGGTGTTTGACTCTTTCTTATTTCTCTTAGTATATATAAAAGTAT
131 GACTCTTCCTTATTTCTCTGAGGTGTTTGACTCTTTCTTATTTCTCTTAGTATATATAAAAATAG
* *
8701971 GATGTTTCAATTTCTTTTTATTTGTTTCAATTGAGTCTTTAATTAAATGACAAGTGTCATTCAAT
196 GATGTTTCAATTTCTTTTAATTTGTTTCAATTGAGTCTTTAATTAAATGACAAGTGTCACTCAAT
8702036 TAGAACTTTATATAAAAGTAAGATGTTTCAATATCC
261 TAGAACTTTATATAAAAGTAAGATGTTTCAATATCC
8702072 TTCAATTTCTTTCAATTGAGTCTCCAATTGAATGACAAGTGTCATTCAATTAGAACCTTTCATTT
1 TTCAATTTCTTTCAATTGAGTCTCCAATTGAATGACAAGTGTCATTCAATTAGAACCTTTCATTT
* * * * *
8702137 TTTTCTGTACCTTTGGCCCATGGAAACAACGTCGTATTGATATAAAGCTTTTTGCATTCCTATTT
66 TTTTATATACCTTTGACCCATGAAAACAACGTCGTATTGATATAAAGCTTTTTGCATTCCTATAT
8702202 GACTCTTCCTTATTTCTCTGAGGTGTTTGACTCTTTCTTATTTCTCTTAGTATATATAAAAATAG
131 GACTCTTCCTTATTTCTCTGAGGTGTTTGACTCTTTCTTATTTCTCTTAGTATATATAAAAATAG
*
8702267 GATGTTTCAATTTCTTTTAATTTGTTTCAATTGTGTCTTTAATTAAATGACAAGTGTCACTCAAT
196 GATGTTTCAATTTCTTTTAATTTGTTTCAATTGAGTCTTTAATTAAATGACAAGTGTCACTCAAT
8702332 TAGAA
261 TAGAA
8702337 TTTTTTTTTT
Statistics
Matches: 252, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
296 252 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (296 bp):
TTCAATTTCTTTCAATTGAGTCTCCAATTGAATGACAAGTGTCATTCAATTAGAACCTTTCATTT
TTTTATATACCTTTGACCCATGAAAACAACGTCGTATTGATATAAAGCTTTTTGCATTCCTATAT
GACTCTTCCTTATTTCTCTGAGGTGTTTGACTCTTTCTTATTTCTCTTAGTATATATAAAAATAG
GATGTTTCAATTTCTTTTAATTTGTTTCAATTGAGTCTTTAATTAAATGACAAGTGTCACTCAAT
TAGAACTTTATATAAAAGTAAGATGTTTCAATATCC
Found at i:8702539 original size:200 final size:199
Alignment explanation
Indices: 8702325--8702724 Score: 748
Period size: 200 Copynumber: 2.0 Consensus size: 199
8702315 GACAAGTGTC
8702325 ACTCAATTAGAATTTTTTTTTTATTTTTTTGACCTTTCGTTTTTTATTGAATTAATTTTTTTCAC
1 ACTCAATTAGAATTTTTTTTTTATTTTTTTGACCTTTCGTTTTTTATTGAATTAATTTTTTTCAC
8702390 ACCTTATGTCAAAAATAAGTTCTTTTTGACATTTGAAAGATTTTTTTTTTGTTTTCTTACTTTTA
66 ACCTTATGTCAAAAATAAGTTCTTTTTGACATTTGAAAGATTTTTTTTTTGTTTTCTTACTTTTA
* *
8702455 TTTATTTTAATAAAAAAAACTTAAAAAC-AATACTTTTTAACTTTTAATACTTAGAAGATAGATT
131 TTTATTTTAAT-AAAAAAACTTAAAAACAAATAATTTATAACTTTTAATACTTAGAAGATAGATT
8702519 CATTT
195 CATTT
8702524 ANCTCAATTAGAATTTTTTTTTTATTTTTTTGACCTTTCGTTTTTTATTGAATTAATTTTTTTCA
1 A-CTCAATTAGAATTTTTTTTTTATTTTTTTGACCTTTCGTTTTTTATTGAATTAATTTTTTTCA
8702589 CACCTTATGTCAAAAATAAGTTCTTTTTGACATTTGAAAGATTTTTTTTTTGTTTTCTTACTTTT
65 CACCTTATGTCAAAAATAAGTTCTTTTTGACATTTGAAAGATTTTTTTTTTGTTTTCTTACTTTT
*
8702654 ATTTATTTTAATAAAAAAACTTAAAAACAAATAATTTATAACTTTTAATATTTAGAAGATAGATT
130 ATTTATTTTAATAAAAAAACTTAAAAACAAATAATTTATAACTTTTAATACTTAGAAGATAGATT
8702719 CATTT
195 CATTT
8702724 A
1 A
8702725 ATATTTATCA
Statistics
Matches: 196, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
199 17 0.09
200 179 0.91
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.52
Consensus pattern (199 bp):
ACTCAATTAGAATTTTTTTTTTATTTTTTTGACCTTTCGTTTTTTATTGAATTAATTTTTTTCAC
ACCTTATGTCAAAAATAAGTTCTTTTTGACATTTGAAAGATTTTTTTTTTGTTTTCTTACTTTTA
TTTATTTTAATAAAAAAACTTAAAAACAAATAATTTATAACTTTTAATACTTAGAAGATAGATTC
ATTT
Found at i:8711308 original size:15 final size:15
Alignment explanation
Indices: 8711285--8711318 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8711275 ATAATTTTTT
* *
8711285 AATTTTAAAAATTAA
1 AATTATAAAAAATAA
8711300 AATTATAAAAAATAA
1 AATTATAAAAAATAA
8711315 AATT
1 AATT
8711319 CACGCAACTG
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTATAAAAAATAA
Found at i:8714288 original size:15 final size:15
Alignment explanation
Indices: 8714248--8714290 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
8714238 ATGTTGCTAG
8714248 AAATATAATTACTGA
1 AAATATAATTACTGA
* * * *
8714263 ATATGTGATTATTGA
1 AAATATAATTACTGA
8714278 AAATATAATTACT
1 AAATATAATTACT
8714291 AAAGAGATAA
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (15 bp):
AAATATAATTACTGA
Found at i:8716565 original size:14 final size:15
Alignment explanation
Indices: 8716546--8716574 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8716536 TTGATCAATC
8716546 TGAAAAGAA-AAAAA
1 TGAAAAGAAGAAAAA
8716560 TGAAAAGAAGAAAAA
1 TGAAAAGAAGAAAAA
8716575 AGGATATAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (15 bp):
TGAAAAGAAGAAAAA
Found at i:8717195 original size:48 final size:48
Alignment explanation
Indices: 8717143--8717285 Score: 120
Period size: 45 Copynumber: 3.0 Consensus size: 48
8717133 TATTTTATTT
8717143 TTTAAATATTAATAATTTATAATTAATTAAAATATTAATAATTAATAA
1 TTTAAATATTAATAATTTATAATTAATTAAAATATTAATAATTAATAA
* * * *
8717191 TTTAAATATCAAT-ATTT-TAGTATAATT-TAATATT-TTAATTAATAA
1 TTTAAATATTAATAATTTATAAT-TAATTAAAATATTAATAATTAATAA
* *
8717236 TATT--TTATTTATAATTTAATATTATTATGATTAAAATATTAAT-ATTAATA
1 T-TTAAATATTAATAATTT-ATA--ATTA--ATTAAAATATTAATAATTAATA
8717286 TTTTTATTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
44 5 0.07
45 15 0.20
46 11 0.15
47 11 0.15
48 14 0.19
49 1 0.01
50 3 0.04
51 13 0.18
52 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (48 bp):
TTTAAATATTAATAATTTATAATTAATTAAAATATTAATAATTAATAA
Found at i:8717221 original size:33 final size:34
Alignment explanation
Indices: 8717180--8717256 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
8717170 TAAAATATTA
8717180 ATAA-TTAATAATTTAAAT-ATCAATATTTTA-GT
1 ATAATTTAATAATTTAAATAAT-AATATTTTATGT
* * *
8717212 ATAATTTAATATTTTAATTAATAATATTTTATTT
1 ATAATTTAATAATTTAAATAATAATATTTTATGT
8717246 ATAATTTAATA
1 ATAATTTAATA
8717257 TTATTATGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
32 4 0.10
33 21 0.54
34 14 0.36
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (34 bp):
ATAATTTAATAATTTAAATAATAATATTTTATGT
Found at i:8717238 original size:15 final size:16
Alignment explanation
Indices: 8717150--8717242 Score: 75
Period size: 15 Copynumber: 5.8 Consensus size: 16
8717140 TTTTTTAAAT
8717150 ATTAATAATTTATAATTA
1 ATTAAT-ATTT-TAATTA
* *
8717168 ATTAAAATATTAA-TA
1 ATTAATATTTTAATTA
* *
8717183 ATTAATAATTTAAAT-
1 ATTAATATTTTAATTA
* *
8717198 ATCAATATTTTAGTATA
1 ATTAATATTTTAAT-TA
8717215 ATTTAATATTTTAATTA
1 A-TTAATATTTTAATTA
8717232 A-TAATATTTTA
1 ATTAATATTTTA
8717243 TTTATAATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
15 32 0.53
16 5 0.08
17 7 0.12
18 16 0.27
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
ATTAATATTTTAATTA
Found at i:8717254 original size:22 final size:20
Alignment explanation
Indices: 8717221--8717261 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
8717211 TATAATTTAA
8717221 TATTTTAATTAATAATATTT
1 TATTTTAATTAATAATATTT
*
8717241 TATTTATAATTTAATATTATT
1 TATTT-TAA-TTAATAATATT
8717262 ATGATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTTAATTAATAATATTT
Found at i:8717370 original size:26 final size:25
Alignment explanation
Indices: 8717322--8717376 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
8717312 AATAAATAAA
*
8717322 ATATTAATATTTTAATATTTTAATC
1 ATATTAATATTATAATATTTTAATC
* *
8717347 ATATTAATATTAATAATGTTTTAATT
1 ATATTAATATT-ATAATATTTTAATC
8717373 ATAT
1 ATAT
8717377 ATAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
ATATTAATATTATAATATTTTAATC
Found at i:8718684 original size:22 final size:22
Alignment explanation
Indices: 8718659--8718701 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8718649 ATTTAAAAAT
**
8718659 TTTAAATTTTTTATTTTTATTA
1 TTTAAATTTTAAATTTTTATTA
8718681 TTTAAATTTTAAATTTTTATT
1 TTTAAATTTTAAATTTTTATT
8718702 TTAAATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTAAATTTTAAATTTTTATTA
Found at i:8719140 original size:14 final size:15
Alignment explanation
Indices: 8719121--8719150 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8719111 TATTTTAACT
8719121 AAATTCTTTGT-AAA
1 AAATTCTTTGTGAAA
8719135 AAATTCTTTGTGAAA
1 AAATTCTTTGTGAAA
8719150 A
1 A
8719151 TGAAGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (15 bp):
AAATTCTTTGTGAAA
Found at i:8719769 original size:21 final size:21
Alignment explanation
Indices: 8719730--8719770 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8719720 TAAAATTTGA
*
8719730 TTTAAAATAAAAATTTAAAAT
1 TTTAAAATAAAAATATAAAAT
8719751 TTTAATAATAAAAA-ATAAAA
1 TTTAA-AATAAAAATATAAAA
8719771 AACTAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTAAAATAAAAATATAAAAT
Found at i:8722334 original size:3 final size:3
Alignment explanation
Indices: 8722326--8722354 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8722316 NNNNNNNNNN
8722326 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8722355 GTATATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8722849 original size:40 final size:40
Alignment explanation
Indices: 8722809--8722964 Score: 222
Period size: 40 Copynumber: 3.9 Consensus size: 40
8722799 TAAGAAGTTG
*
8722809 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTG
1 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTA
* *
8722849 TTTGGATATTTGTTTTTAGTTATTTAAGTTTATGTTATTA
1 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTA
* *
8722889 TTTGAGTATTTGTTTTTAGTTATTTAAGTTTATATTGTTA
1 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTA
* * * **
8722929 TTTGGATATTTATGTACAGTTATTTAAGTTTATGTT
1 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTT
8722965 TAAAATCTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.22, C:0.01, G:0.16, T:0.61
Consensus pattern (40 bp):
TTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTA
Found at i:8722893 original size:80 final size:80
Alignment explanation
Indices: 8722809--8722964 Score: 249
Period size: 80 Copynumber: 1.9 Consensus size: 80
8722799 TAAGAAGTTG
* * * * **
8722809 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTGTTTGGATATTTGTTTTTAGTTATTT
1 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATATTGTTATTTGGATATTTATGTACAGTTATTT
8722874 AAGTTTATGTTATTA
66 AAGTTTATGTTATTA
*
8722889 TTTGAGTATTTGTTTTTAGTTATTTAAGTTTATATTGTTATTTGGATATTTATGTACAGTTATTT
1 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATATTGTTATTTGGATATTTATGTACAGTTATTT
8722954 AAGTTTATGTT
66 AAGTTTATGTT
8722965 TAAAATCTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.22, C:0.01, G:0.16, T:0.61
Consensus pattern (80 bp):
TTTGAATATTTGTTTTTAGTTATTTAAGTTTATATTGTTATTTGGATATTTATGTACAGTTATTT
AAGTTTATGTTATTA
Found at i:8722994 original size:80 final size:79
Alignment explanation
Indices: 8722809--8722995 Score: 180
Period size: 80 Copynumber: 2.3 Consensus size: 79
8722799 TAAGAAGTTG
* * * * * * * **
8722809 TTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTTGTTGTTTGGATATTTGTTTTTAGTTATTT
1 TTTGAGTATTTGTTATTAG-AATTTAAGTTTATATTGTTATTTGGATATTTATGTACAGTTATTT
**
8722874 AAGTTTATGTTATTA
65 AAGTTTATGTTAAAA
* *
8722889 TTTGAGTATTTGTTTTTAGTTATTTAAGTTTATATTGTTATTTGGATATTTATGTACAGTTATTT
1 TTTGAGTATTTGTTATTAG-AATTTAAGTTTATATTGTTATTTGGATATTTATGTACAGTTATTT
8722954 AAGTTTATGTTTAAAA
65 AAGTTTATG-TTAAAA
* *
8722970 TCTT-TGTTTTTGATTATTA-AATTTAA
1 T-TTGAGTATTTG-TTATTAGAATTTAA
8722996 ATTTTGTTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
80 73 0.80
81 11 0.12
82 7 0.08
ACGTcount: A:0.25, C:0.01, G:0.14, T:0.60
Consensus pattern (79 bp):
TTTGAGTATTTGTTATTAGAATTTAAGTTTATATTGTTATTTGGATATTTATGTACAGTTATTTA
AGTTTATGTTAAAA
Found at i:8740586 original size:6 final size:6
Alignment explanation
Indices: 8740570--8740610 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
8740560 CAATCCATTC
*
8740570 CCAAAG ACAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAAA
1 CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAAA
8740611 AGGAAGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.54, C:0.32, G:0.15, T:0.00
Consensus pattern (6 bp):
CCAAAG
Found at i:8749590 original size:3 final size:3
Alignment explanation
Indices: 8749582--8749614 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8749572 CAAAGGTGTA
8749582 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8749615 TTCATCTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8750346 original size:29 final size:29
Alignment explanation
Indices: 8750313--8750371 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
8750303 ATACTATAAA
* *
8750313 TTAGAATGAAATTAAAAAATAAAACTAAG
1 TTAGAATAAAATTAAAAAATAAAACCAAG
*
8750342 TTAGAATAAAATTCAAAAATAAAACCAAG
1 TTAGAATAAAATTAAAAAATAAAACCAAG
8750371 T
1 T
8750372 AATAAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.61, C:0.07, G:0.08, T:0.24
Consensus pattern (29 bp):
TTAGAATAAAATTAAAAAATAAAACCAAG
Found at i:8756416 original size:17 final size:16
Alignment explanation
Indices: 8756374--8756416 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
8756364 GCCTATGAAA
*
8756374 ATTTATTTAGTATTTT
1 ATTTATTTAGGATTTT
*
8756390 ACTTAGTTTAGGATTTT
1 ATTTA-TTTAGGATTTT
8756407 ATTTTATTTA
1 A-TTTATTTA
8756417 TTTAGTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 15 0.68
18 3 0.14
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (16 bp):
ATTTATTTAGGATTTT
Found at i:8760776 original size:74 final size:73
Alignment explanation
Indices: 8760648--8760794 Score: 258
Period size: 74 Copynumber: 2.0 Consensus size: 73
8760638 TGTCTTATTC
* *
8760648 AAAATAACCCAAAGACTTGGGATTTAGTCATACCCCAAGCTGAATTTGCTTACAACAATTCTGTC
1 AAAAAAACCCAAAGACTTGGGATTTAGTCATACCCCAAGCTGAATTTGCCTACAACAATTCTGTC
8760713 AATCGAAG
66 AATCGAAG
8760721 NAAAAAAACCCAAAGACTTGGGATTTAGTCATACCCCAAGCTGAATTTGCCTACAACAATTCTGT
1 -AAAAAAACCCAAAGACTTGGGATTTAGTCATACCCCAAGCTGAATTTGCCTACAACAATTCTGT
*
8760786 CAATTGAAG
65 CAATCGAAG
8760795 CACAAAGAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.25
Consensus pattern (73 bp):
AAAAAAACCCAAAGACTTGGGATTTAGTCATACCCCAAGCTGAATTTGCCTACAACAATTCTGTC
AATCGAAG
Found at i:8761542 original size:23 final size:26
Alignment explanation
Indices: 8761514--8761565 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 26
8761504 AGTATTTTAG
8761514 TTAGTTT-AGGATT-TTTTTT-TAT-T
1 TTAGTTTGA-GATTCTTTTTTCTATCT
8761537 TTAGTTTGAGATTCTTTTTTCTATCT
1 TTAGTTTGAGATTCTTTTTTCTATCT
8761563 TTA
1 TTA
8761566 TTAGAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.44
24 7 0.28
25 3 0.12
26 4 0.16
ACGTcount: A:0.17, C:0.06, G:0.12, T:0.65
Consensus pattern (26 bp):
TTAGTTTGAGATTCTTTTTTCTATCT
Found at i:8779221 original size:16 final size:15
Alignment explanation
Indices: 8779180--8779222 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
8779170 AAAAAAGAAT
*
8779180 ATATTTAAAATTAAG
1 ATATTTAAAATTAAC
8779195 A-ATTT-AAATTAATC
1 ATATTTAAAATTAA-C
8779209 ATATTTAAAATTAA
1 ATATTTAAAATTAA
8779223 AGTTAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 7 0.29
14 5 0.21
15 5 0.21
16 7 0.29
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
ATATTTAAAATTAAC
Found at i:8800080 original size:25 final size:25
Alignment explanation
Indices: 8800052--8800117 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
8800042 GAAAGAGAAA
*
8800052 TGGAATTCTTCTCATTGAAGAATAG
1 TGGAATTCTTTTCATTGAAGAATAG
8800077 TGGAATTCTTTTCATTGAAGAATAG
1 TGGAATTCTTTTCATTGAAGAATAG
8800102 TGGAATTCTTTTCATT
1 TGGAATTCTTTTCATT
8800118 TTAGTATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (25 bp):
TGGAATTCTTTTCATTGAAGAATAG
Found at i:8806951 original size:83 final size:83
Alignment explanation
Indices: 8806785--8806950 Score: 253
Period size: 82 Copynumber: 2.0 Consensus size: 83
8806775 TTCAGTGCCA
*
8806785 TGGGAAATGACCTACAAGTAATGGAAATCGCTCAAAAAATTCTAAGTTGAACAGGATGAGATCCG
1 TGGGAAATGACCTACAAGTAATGGAAATCGCTCAAAAAATTCTAAGTTGAACAGGATGAGATCCA
*
8806850 TGATGTCTTTTTCTTTTT
66 TGATGTCGTTTTCTTTTT
* * * * *
8806868 TGGGAAATGGCCTACAAGTAATGGAAATTGCTC-TAAATTTCTAAGTTGAACAGGATGGGATCCA
1 TGGGAAATGACCTACAAGTAATGGAAATCGCTCAAAAAATTCTAAGTTGAACAGGATGAGATCCA
*
8806932 TGGTGTCGTTTTCTTTTT
66 TGATGTCGTTTTCTTTTT
8806950 T
1 T
8806951 TTTTTTCTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 44 0.59
83 31 0.41
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (83 bp):
TGGGAAATGACCTACAAGTAATGGAAATCGCTCAAAAAATTCTAAGTTGAACAGGATGAGATCCA
TGATGTCGTTTTCTTTTT
Found at i:8809403 original size:3 final size:3
Alignment explanation
Indices: 8809395--8809425 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8809385 ATATAGTAAC
8809395 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8809426 AAGAGGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8816603 original size:3 final size:3
Alignment explanation
Indices: 8816595--8816620 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8816585 TCATATTTAA
8816595 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
8816621 ATTGAGCTTT
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:8823145 original size:43 final size:43
Alignment explanation
Indices: 8823070--8823188 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
8823060 GTAATTATAT
* * * *
8823070 TGACTCGGCTATGTGCAAATAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
* *
8823113 TGACCCGGTTATGTGCGAGTAGGGAGTACGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
8823156 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
8823189 GAGCTGGTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 64 0.98
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:8823198 original size:43 final size:43
Alignment explanation
Indices: 8823080--8823201 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
8823070 TGACTCGGCT
* * * **
8823080 ATGTGCAAATAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
* *
8823123 ATGTGCGAGTAGGGAGTACGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
8823166 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
8823202 TGATGATGGG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
42 1 0.01
43 66 0.99
ACGTcount: A:0.25, C:0.19, G:0.37, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:8823578 original size:21 final size:20
Alignment explanation
Indices: 8823530--8823578 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
8823520 ATGACACTGT
8823530 AACTTT-TCACTGCAGCGAA
1 AACTTTCTCACTGCAGCGAA
* *
8823549 ATACATTCTCGCTGCAGCGAGA
1 A-ACTTTCTCACTGCAGCGA-A
8823571 AACTTTCT
1 AACTTTCT
8823579 GTTTCTGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 17 0.71
22 2 0.08
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (20 bp):
AACTTTCTCACTGCAGCGAA
Found at i:8825077 original size:111 final size:111
Alignment explanation
Indices: 8824717--8825334 Score: 669
Period size: 112 Copynumber: 5.4 Consensus size: 111
8824707 AATGCCTAAT
* * * * * * * * *
8824717 AACTAATGAACAAACGCCCCTAAACAAGAGATGAATTGCACAAGTCAAGCGCCATCGCTCTCGCA
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGC-
* * * * * * *
8824782 ATATATAACAAGAAGTCACGTAATATATAAAAATCAGTAACGCAATCCCAAAA
65 ---TACAAC-AG--GTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* * * * ** *
8824835 AACGACTGAACAAAAGGCTCCAAACAACACATGAATTGCATAAGTCACATGCCACCGCTCTCGCA
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGC-
* * * * *
8824900 ATACATAATAATAGGTCACGCAATATATAAAAACTAGTGACGCAACCCTAAAA
65 -TAC-----AACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* * *
8824953 AACTACTGAACAAAAGCCTCTAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCACGTT
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
* **
8825018 ACAATAGGTAACGCAATATATAAAAACCAGTCACATAAGCCTAAAA
66 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* * *
8825064 AACTATTGAACAAAAGCCTTAAAACAACACATGAATTGTACAAGTCACGCGCCACCACTCTCGCT
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
*
8825129 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCACTGCCTAAAA
66 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCA-AGCCTAAAA
* * *
8825176 AACTACTGAACAAAAGCCTCAAAACAACACATAAATTGCATAAGTCATGCGCCACCACTCTCGCT
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
* * * *
8825241 ACAACAAGTAATGCAATATATAAAAACCAGTCACGCATTGCTTAAAA
66 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCA-AGCCTAAAA
* *
8825288 AACTATTGAACAAAAGCATCAAAACAACACATGAATTGCACAAGTCA
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCA
8825335 GTCAGGCATC
Statistics
Matches: 433, Mismatches: 61, Indels: 18
0.85 0.12 0.04
Matches are distributed among these distances:
111 131 0.30
112 153 0.35
116 6 0.01
118 139 0.32
120 2 0.00
121 2 0.00
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (111 bp):
AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
Found at i:8826005 original size:30 final size:30
Alignment explanation
Indices: 8825969--8826028 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
8825959 TCTCCTGCTG
*
8825969 GAATATGTGCAACTAGTCCCTCACACTCAA
1 GAATATGTGCAACTAGACCCTCACACTCAA
*
8825999 GAATATGTGCAACTGGACCCTCACACTCAA
1 GAATATGTGCAACTAGACCCTCACACTCAA
8826029 AGGCACCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (30 bp):
GAATATGTGCAACTAGACCCTCACACTCAA
Found at i:8826620 original size:22 final size:23
Alignment explanation
Indices: 8826589--8826632 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
8826579 GGTAGCTAAA
8826589 GTCACACAATGCCT-ACAAATAG
1 GTCACACAATGCCTAACAAATAG
* *
8826611 GTCACGCAATGCTTAACAAATA
1 GTCACACAATGCCTAACAAATA
8826633 TTTAGTCACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (23 bp):
GTCACACAATGCCTAACAAATAG
Found at i:8826679 original size:39 final size:40
Alignment explanation
Indices: 8826612--8826691 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 40
8826602 TACAAATAGG
* *
8826612 TCACGCAATGCTTAACAAATATTTAGTCACGTAATGCCTA
1 TCACGCAACGCTTAACAAATATTCAGTCACGTAATGCCTA
*
8826652 TCACGCAACGC-TAATAAATATTCAGTCACGTAATGCCTA
1 TCACGCAACGCTTAACAAATATTCAGTCACGTAATGCCTA
8826691 T
1 T
8826692 AAAGAACTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 27 0.73
40 10 0.27
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (40 bp):
TCACGCAACGCTTAACAAATATTCAGTCACGTAATGCCTA
Found at i:8826723 original size:48 final size:48
Alignment explanation
Indices: 8826667--8826838 Score: 177
Period size: 48 Copynumber: 3.4 Consensus size: 48
8826657 CAACGCTAAT
8826667 AAATATTCAGTCACGTAATGCCTATAAAGAACTCACGTAATGCTCAAC
1 AAATATTCAGTCACGTAATGCCTATAAAGAACTCACGTAATGCTCAAC
** * * *
8826715 AAATATTCAGTCA-GATAAT-ATTCAGTCACGTATTACCCGTCACGCAATGCTCAAC
1 AAATATTCAGTCACG-TAATGCCT-A-TAAAG-A--A--C-TCACGTAATGCTCAAC
*
8826770 ATATATTCAGTCACGTAATGCCTATAAAGAACTCACGTAATGCTCAAC
1 AAATATTCAGTCACGTAATGCCTATAAAGAACTCACGTAATGCTCAAC
* *
8826818 AAATATTCAGGCACCTAATGC
1 AAATATTCAGTCACGTAATGC
8826839 AAAATAAACA
Statistics
Matches: 99, Mismatches: 14, Indels: 22
0.73 0.10 0.16
Matches are distributed among these distances:
47 2 0.02
48 51 0.52
49 4 0.04
50 1 0.01
51 1 0.01
52 1 0.01
53 1 0.01
54 4 0.04
55 32 0.32
56 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (48 bp):
AAATATTCAGTCACGTAATGCCTATAAAGAACTCACGTAATGCTCAAC
Found at i:8826807 original size:103 final size:102
Alignment explanation
Indices: 8826629--8826827 Score: 317
Period size: 103 Copynumber: 1.9 Consensus size: 102
8826619 ATGCTTAACA
* * * *
8826629 AATATTTAGTCACGTAATGCCTATCACGCAACGCTAATAAATATTCAGTCACGTAATGCCTATAA
1 AATATTCAGTCACGTAATACCCATCACGCAACGCTAACAAATATTCAGTCACGTAATGCCTATAA
8826694 AGAACTCACGTAATGCTCAACAAATATTCAGTCAGAT
66 AGAACTCACGTAATGCTCAACAAATATTCAGTCAGAT
* * * *
8826731 AATATTCAGTCACGTATTACCCGTCACGCAATGCTCAACATATATTCAGTCACGTAATGCCTATA
1 AATATTCAGTCACGTAATACCCATCACGCAACGCT-AACAAATATTCAGTCACGTAATGCCTATA
8826796 AAGAACTCACGTAATGCTCAACAAATATTCAG
65 AAGAACTCACGTAATGCTCAACAAATATTCAG
8826828 GCACCTAATG
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 29 0.33
103 59 0.67
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (102 bp):
AATATTCAGTCACGTAATACCCATCACGCAACGCTAACAAATATTCAGTCACGTAATGCCTATAA
AGAACTCACGTAATGCTCAACAAATATTCAGTCAGAT
Found at i:8827806 original size:25 final size:25
Alignment explanation
Indices: 8827772--8827837 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
8827762 CACTATATAA
8827772 AAAATAACAAGTGACGTTTTGATAT
1 AAAATAACAAGTGACGTTTTGATAT
* *
8827797 AAAATGACAAGTGACGTTTTGATGT
1 AAAATAACAAGTGACGTTTTGATAT
8827822 AAAATAACAAGTGACG
1 AAAATAACAAGTGACG
8827838 AGTAACGTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAATAACAAGTGACGTTTTGATAT
Found at i:8828313 original size:19 final size:19
Alignment explanation
Indices: 8828289--8828325 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8828279 CCATTTGACT
8828289 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
8828308 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
8828326 AGTTTATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:8829576 original size:15 final size:16
Alignment explanation
Indices: 8829546--8829580 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8829536 ATAAAATATT
8829546 ATGTTTTTCAATTAAA
1 ATGTTTTTCAATTAAA
* *
8829562 ATGTTTTTTAATAAAA
1 ATGTTTTTCAATTAAA
8829578 ATG
1 ATG
8829581 AGATTTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATGTTTTTCAATTAAA
Found at i:8832226 original size:12 final size:13
Alignment explanation
Indices: 8832207--8832256 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
8832197 AAAAAAAATG
8832207 ATAG-AAAATAAA
1 ATAGAAAAATAAA
8832219 AT-GAAAAATAAA
1 ATAGAAAAATAAA
*
8832231 ATAGAAAGAAAAAA
1 ATAGAAA-AATAAA
*
8832245 AAAGAAATAATA
1 ATAGAAA-AATA
8832257 CCTGAATGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 1 0.03
12 12 0.39
13 4 0.13
14 14 0.45
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (13 bp):
ATAGAAAAATAAA
Found at i:8832240 original size:28 final size:26
Alignment explanation
Indices: 8832197--8832256 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
8832187 TTCAAAGTAT
* *
8832197 AAAA-AAAATGATAGAAAATAAAATGA
1 AAAATAAAATGAAAGAAAA-AAAAAGA
8832223 AAAATAAAATAGAAAGAAAAAAAAAGA
1 AAAATAAAAT-GAAAGAAAAAAAAAGA
8832250 AATAATA
1 AA-AATA
8832257 CCTGAATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.14
27 13 0.45
28 12 0.41
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (26 bp):
AAAATAAAATGAAAGAAAAAAAAAGA
Found at i:8838305 original size:186 final size:186
Alignment explanation
Indices: 8838059--8838440 Score: 509
Period size: 186 Copynumber: 2.0 Consensus size: 186
8838049 GTAGATCTTG
* * * **
8838059 TCATCGGGATAGTCGTTTGCGAGTAAAACTAATATTTTTTATGAGTGCAAACCTACTACGAGTGG
1 TCATCGGGGTAGTCGTTTGCGAGTAAAAATAATATTTTTCATGAGTGC-AACCTACTACGAACGG
* *
8838124 AAG-TATTTTATTAAAGATATTCTCCGAGCCTTCCCATCATATTGGTGAGACTCAAAGGTATCTT
65 AAGCT-TTTTATTAAAGATATTCTCCAAGCCTTCCCATCATATTGATGAGACTCAAAGGTATCTT
* * * *
8838188 CTCACCTAGAAAATTTTTTGAAGAAATTCACCTTCGC-AAGTCCCCTCAAAAAGTCCCA
129 CTCACCTAGAAAATTTATTAAAGAAACTCACCTTCGCAAACT-CCCTCAAAAAGTCCCA
* * *
8838246 TCATCGGGGTAGTTGTTTGTGAGTAAAAATAATGTTTTTCCATGAGTGC-ACCTACTACGAACGG
1 TCATCGGGGTAGTCGTTTGCGAGTAAAAATAATATTTTT-CATGAGTGCAACCTACTACGAACGG
* *
8838310 AAGCTTTTTATTAAAGATATTCTCCAAGCCTTCCCATCATATTGATGAGACTTAGAGGTATCTTC
65 AAGCTTTTTATTAAAGATATTCTCCAAGCCTTCCCATCATATTGATGAGACTCAAAGGTATCTTC
* ** * **
8838375 TCACCTAGGAAATTTATTAAAGAAACTCGTCTTCGCAAACTTCCTCGGAAAGTCCCA
130 TCACCTAGAAAATTTATTAAAGAAACTCACCTTCGCAAACTCCCTCAAAAAGTCCCA
8838432 TCATCGGGG
1 TCATCGGGG
8838441 CTTATACTCG
Statistics
Matches: 170, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
186 124 0.73
187 38 0.22
188 8 0.05
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (186 bp):
TCATCGGGGTAGTCGTTTGCGAGTAAAAATAATATTTTTCATGAGTGCAACCTACTACGAACGGA
AGCTTTTTATTAAAGATATTCTCCAAGCCTTCCCATCATATTGATGAGACTCAAAGGTATCTTCT
CACCTAGAAAATTTATTAAAGAAACTCACCTTCGCAAACTCCCTCAAAAAGTCCCA
Found at i:8840208 original size:29 final size:29
Alignment explanation
Indices: 8840172--8840257 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 29
8840162 TCTCTTTACA
* *
8840172 TTTTCTTCATTCTTTCTTTCTTTTTCTGT
1 TTTTCTTCCTTCTTTCTTTCTTTTTCTCT
* *
8840201 TTTTCTTCCTTCCTTCTTTTTTTTTTCTCT
1 TTTTCTTCCTTCTTTC-TTTCTTTTTCTCT
*
8840231 TCATTTCTTTCCTTCTTTCTCTCTTTT
1 T--TTTC-TTCCTTCTTTCTTTCTTTT
8840258 CAGCTTTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 14 0.30
30 12 0.26
32 10 0.22
33 10 0.22
ACGTcount: A:0.02, C:0.26, G:0.01, T:0.71
Consensus pattern (29 bp):
TTTTCTTCCTTCTTTCTTTCTTTTTCTCT
Found at i:8840238 original size:61 final size:61
Alignment explanation
Indices: 8840173--8840516 Score: 201
Period size: 53 Copynumber: 5.9 Consensus size: 61
8840163 CTCTTTACAT
* * * * *
8840173 TTTC-TTCATTCTTTCTTTCTTTTTCTGTTTTTCTTCCTTCCTTCTTTTTTTTTTCTCTTCA
1 TTTCTTTCATTCTTTCTCTC-TTTTCAGCTTTCCTTCCTTCCCTCTTTTTTTTTTCTCTTCA
* *
8840234 TTTCTTTCCTTCTTTCTCTCTTTTCAGCTTTCCTTCCTTCCCTCTTTTTTTTTTC-C-TCC
1 TTTCTTTCATTCTTTCTCTCTTTTCAGCTTTCCTTCCTTCCCTCTTTTTTTTTTCTCTTCA
* * * * * * ** *
8840293 TTTCCTTCCTTCTCTCTCCCTGTTC-GACTTTTCTTCCCTTATTCTCTCTTTTTTTT-TCTTCA
1 TTTCTTTCATTCTTTCTCTCTTTTCAG-CTTTCCTT-CCTT-CCCTCTTTTTTTTTTCTCTTCA
* * * * * *
8840355 TTTCCTTCATTC--TCTCTCCTTTC--CTTGCC-TCATT--CTCTTTTTTTATT-TCTTCC
1 TTTCTTTCATTCTTTCTCTCTTTTCAGCTTTCCTTCCTTCCCTCTTTTTTTTTTCTCTTCA
* * * * * *
8840408 TTTCCTTCATTC--TCTCTCCTTTC--CTTGCC-TCATT--CTCTTTTTTTATT-TCTTCC
1 TTTCTTTCATTCTTTCTCTCTTTTCAGCTTTCCTTCCTTCCCTCTTTTTTTTTTCTCTTCA
* * *
8840461 TTTCCTTCATTCTCTCTCTCTTTTC-GTCTTTCCTTCCCTCCCTCTCTTTTTTTTTC
1 TTTCTTTCATTCTTTCTCTCTTTTCAG-CTTTCCTTCCTTCCCTCT-TTTTTTTTTC
8840517 AACTTTTCTT
Statistics
Matches: 237, Mismatches: 31, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
53 81 0.34
55 10 0.04
56 3 0.01
57 6 0.03
58 8 0.03
59 30 0.13
60 17 0.07
61 56 0.24
62 26 0.11
ACGTcount: A:0.04, C:0.33, G:0.02, T:0.61
Consensus pattern (61 bp):
TTTCTTTCATTCTTTCTCTCTTTTCAGCTTTCCTTCCTTCCCTCTTTTTTTTTTCTCTTCA
Found at i:8840391 original size:23 final size:23
Alignment explanation
Indices: 8840361--8840445 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 23
8840351 TTCATTTCCT
8840361 TCATTCTCTCTCCTTTCCTTGCC
1 TCATTCTCTCTCCTTTCCTTGCC
* ** *
8840384 TCATTCTCTTTTTTTATTTCTTCCTTTCC
1 TCATTCTC----TCT-CCT-TTCCTTGCC
8840413 TTCATTCTCTCTCCTTTCCTTGCC
1 -TCATTCTCTCTCCTTTCCTTGCC
8840437 TCATTCTCT
1 TCATTCTCT
8840446 TTTTTTATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
23 17 0.36
24 8 0.17
25 1 0.02
26 2 0.04
27 2 0.04
28 1 0.02
29 8 0.17
30 8 0.17
ACGTcount: A:0.06, C:0.36, G:0.02, T:0.55
Consensus pattern (23 bp):
TCATTCTCTCTCCTTTCCTTGCC
Found at i:8840398 original size:53 final size:53
Alignment explanation
Indices: 8840333--8840483 Score: 268
Period size: 53 Copynumber: 2.8 Consensus size: 53
8840323 TTCTTCCCTT
*
8840333 ATTCTCTCTTTTTT-TTTCTTCATTTCCTTCATTCTCTCTCCTTTCCTTGCCTC
1 ATTCTCT-TTTTTTATTTCTTCCTTTCCTTCATTCTCTCTCCTTTCCTTGCCTC
8840386 ATTCTCTTTTTTTATTTCTTCCTTTCCTTCATTCTCTCTCCTTTCCTTGCCTC
1 ATTCTCTTTTTTTATTTCTTCCTTTCCTTCATTCTCTCTCCTTTCCTTGCCTC
8840439 ATTCTCTTTTTTTATTTCTTCCTTTCCTTCATTCTCTCTCTCTTT
1 ATTCTCTTTTTTTATTTCTTCCTTTCCTTCATTCTCTCTC-CTTT
8840484 TCGTCTTTCC
Statistics
Matches: 95, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
52 6 0.06
53 85 0.89
54 4 0.04
ACGTcount: A:0.06, C:0.32, G:0.01, T:0.60
Consensus pattern (53 bp):
ATTCTCTTTTTTTATTTCTTCCTTTCCTTCATTCTCTCTCCTTTCCTTGCCTC
Found at i:8847103 original size:16 final size:17
Alignment explanation
Indices: 8847059--8847104 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
8847049 ACTTGAACCC
*
8847059 AAATGATTC-AATTCGA
1 AAATAATTCAAATTCGA
*
8847075 AAATAATTTAAATTC-A
1 AAATAATTCAAATTCGA
8847091 AAATAATTCAAATT
1 AAATAATTCAAATT
8847105 TTCAATGACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (17 bp):
AAATAATTCAAATTCGA
Found at i:8852294 original size:2 final size:2
Alignment explanation
Indices: 8852287--8852321 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8852277 TGCAGCGATC
*
8852287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8852322 GATCTGCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8866788 original size:12 final size:12
Alignment explanation
Indices: 8866771--8866795 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8866761 TATCTATATA
8866771 TATTTATTAATT
1 TATTTATTAATT
8866783 TATTTATTAATT
1 TATTTATTAATT
8866795 T
1 T
8866796 TCATAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTATTAATT
Found at i:8867336 original size:22 final size:20
Alignment explanation
Indices: 8867294--8867343 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
8867284 AGATGAAATT
8867294 ATAAAATTTTTAAAAAATAAA
1 ATAAAA-TTTTAAAAAATAAA
**
8867315 CATAAAATTTTAAAATTTTAAA
1 -ATAAAATTTTAAAA-AATAAA
8867337 ATAAAAT
1 ATAAAAT
8867344 AATATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAAATTTTAAAAAATAAA
Found at i:8871010 original size:23 final size:23
Alignment explanation
Indices: 8870980--8871023 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
8870970 TCAATTAAGT
8870980 CATTAATCAATTCCATTGCTAGC
1 CATTAATCAATTCCATTGCTAGC
8871003 CATTAATCAATTCCATTGCTA
1 CATTAATCAATTCCATTGCTA
8871024 ACATGTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (23 bp):
CATTAATCAATTCCATTGCTAGC
Found at i:8877734 original size:2 final size:2
Alignment explanation
Indices: 8877727--8877798 Score: 110
Period size: 2 Copynumber: 36.0 Consensus size: 2
8877717 GGGGAAGATT
**
8877727 TC TC TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC NNN TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -TC TC TC
8877769 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8877799 ACACACACAC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:8890108 original size:21 final size:22
Alignment explanation
Indices: 8890083--8890142 Score: 57
Period size: 24 Copynumber: 2.6 Consensus size: 22
8890073 AAAAAGAGGA
* *
8890083 AAAAAAAGAAGAAGAAACAAGC
1 AAAAGAAGAAAAAGAAACAAGC
*
8890105 AAAAGTGAAGAAAAAGAAACAATC
1 AAAA--GAAGAAAAAGAAACAAGC
*
8890129 AATAAGAAAAAAAA
1 AA-AAGAAGAAAAA
8890143 TAGAAAATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 4 0.13
23 8 0.26
24 17 0.55
25 2 0.06
ACGTcount: A:0.73, C:0.07, G:0.15, T:0.05
Consensus pattern (22 bp):
AAAAGAAGAAAAAGAAACAAGC
Found at i:8903410 original size:26 final size:26
Alignment explanation
Indices: 8903362--8903411 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8903352 AAAAATTGAT
*
8903362 TATTAATAATATATTTTTTATATAAA
1 TATTAATAATATATTTTTAATATAAA
*
8903388 TATTATTAATAT-TTTTATAATATA
1 TATTAATAATATATTTT-TAATATA
8903412 CTGGAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTAATAATATATTTTTAATATAAA
Found at i:8905271 original size:7 final size:7
Alignment explanation
Indices: 8905259--8905283 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8905249 TACAAATAGG
8905259 TACAAAC
1 TACAAAC
8905266 TACAAAC
1 TACAAAC
8905273 TACAAAC
1 TACAAAC
8905280 TACA
1 TACA
8905284 TGCTCAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (7 bp):
TACAAAC
Found at i:8907991 original size:23 final size:23
Alignment explanation
Indices: 8907965--8908044 Score: 54
Period size: 30 Copynumber: 3.2 Consensus size: 23
8907955 AAGCACATTA
8907965 CCTTTCATTATACCCAAACAAGCC
1 CCTTTCATTATACCCAAACAAG-C
8907989 CTTAAACTTTCATTTATACCCAAACAAG-
1 C-----CTTTCA-TTATACCCAAACAAGC
* * *
8908017 CCTTTAATTGTACCTCAAATAAGC
1 CCTTTCATTATACC-CAAACAAGC
8908041 CCTT
1 CCTT
8908045 AACCCTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
22 6 0.13
23 12 0.27
24 5 0.11
28 1 0.02
29 6 0.13
30 15 0.33
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (23 bp):
CCTTTCATTATACCCAAACAAGC
Found at i:8908008 original size:30 final size:29
Alignment explanation
Indices: 8907966--8908023 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
8907956 AGCACATTAC
8907966 CTTTCATTATACCCAAACAAGCCCTTAAA
1 CTTTCATTATACCCAAACAAGCCCTTAAA
*
8907995 CTTTCATTTATACCCAAACAAGCCTTTAA
1 CTTTCA-TTATACCCAAACAAGCCCTTAA
8908024 TTGTACCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.31
Consensus pattern (29 bp):
CTTTCATTATACCCAAACAAGCCCTTAAA
Found at i:8908257 original size:2 final size:2
Alignment explanation
Indices: 8908244--8908314 Score: 78
Period size: 2 Copynumber: 37.0 Consensus size: 2
8908234 CTCACCTTCC
* * *
8908244 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT ACT AT NT C- CT C-
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -CT CT CT CT CT CT
8908285 CT C- CT C- CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8908315 AAGATCTACC
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
1 4 0.07
2 53 0.90
3 2 0.03
ACGTcount: A:0.03, C:0.51, G:0.00, T:0.45
Consensus pattern (2 bp):
CT
Found at i:8910110 original size:18 final size:18
Alignment explanation
Indices: 8910087--8910126 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8910077 AGGGAGGGGA
* *
8910087 GAGAGAGGCCGACTAAGG
1 GAGAGAGGACGACGAAGG
*
8910105 GAGAGAGGACGGCGAAGG
1 GAGAGAGGACGACGAAGG
8910123 GAGA
1 GAGA
8910127 TAAAAGAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.50, T:0.03
Consensus pattern (18 bp):
GAGAGAGGACGACGAAGG
Found at i:8912298 original size:18 final size:18
Alignment explanation
Indices: 8912264--8912298 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8912254 TATGTTTGTA
* *
8912264 CAAATATAATTATTTGAT
1 CAAATATAATGAATTGAT
8912282 CAAATATAATGAATTGA
1 CAAATATAATGAATTGA
8912299 ATAGATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (18 bp):
CAAATATAATGAATTGAT
Found at i:8913353 original size:18 final size:20
Alignment explanation
Indices: 8913319--8913356 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
8913309 AGATTTATTA
8913319 ATTTTTAAAATAAATATTTT
1 ATTTTTAAAATAAATATTTT
8913339 ATTTTT-AAA-AAATATTTT
1 ATTTTTAAAATAAATATTTT
8913357 TCACTGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTAAAATAAATATTTT
Done.