Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 45 of 290
Found at i:15102103 original size:73 final size:67
Alignment explanation
Indices: 15101984--15102138 Score: 238
Period size: 67 Copynumber: 2.2 Consensus size: 67
15101974 AAATGAGAAT
* *
15101984 CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATTAGGT
1 CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAAAATTACGT
15102049 GA
66 GA
15102051 CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAAAA
1 CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGT-----AA-CAGAATCAGAATCAAAA
15102116 TTACGTGA
60 TTACGTGA
15102124 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
15102139 AATGTGAATG
Statistics
Matches: 80, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
67 40 0.50
72 2 0.03
73 38 0.47
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (67 bp):
CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAAAATTACGT
GA
Found at i:15102295 original size:27 final size:26
Alignment explanation
Indices: 15102258--15102344 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
15102248 AGCATGGCTG
*
15102258 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
15102284 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
* * *
15102311 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TCGTGACAGAGCCA
15102338 CCAGAAC
1 CCAGAAC
15102345 GCTTCCTCCG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 12 0.22
27 43 0.78
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:15102764 original size:27 final size:27
Alignment explanation
Indices: 15102698--15102766 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
15102688 CGATCGGTCA
* *
15102698 ACAGATATTGTGACAGAGTCACCAAAT
1 ACAGATATTGTGGCAGAGCCACCAAAT
15102725 ACAGATATTGTGGCAGAGCCACCAGAAT
1 ACAGATATTGTGGCAGAGCCACCA-AAT
*
15102753 -CAGATAATGTGGCA
1 ACAGATATTGTGGCA
15102767 AACCCACCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAGATATTGTGGCAGAGCCACCAAAT
Found at i:15102773 original size:27 final size:27
Alignment explanation
Indices: 15102717--15102774 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
15102707 GTGACAGAGT
* * *
15102717 CACCAAATACAGATATTGTGGCAGAGC
1 CACCAAATACAGATAATGTGGCAAACC
15102744 CACCAGAAT-CAGATAATGTGGCAAACC
1 CACCA-AATACAGATAATGTGGCAAACC
15102771 CACC
1 CACC
15102775 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAAATACAGATAATGTGGCAAACC
Found at i:15103131 original size:380 final size:380
Alignment explanation
Indices: 15102430--15103146 Score: 1391
Period size: 380 Copynumber: 1.9 Consensus size: 380
15102420 AATCACAGTG
*
15102430 TAATAACTTCGGCACATAGCCATCAGTGACGGTAATATAACTGGCGCACAGCCTTCGGTAAATAT
1 TAATAACTTCGGCACATAGCCATCAATGACGGTAATATAACTGGCGCACAGCCTTCGGTAAATAT
*
15102495 GATCGACACAGAGTCGTCAATAAATATGTTAGGCACATAGCTACAGGTAAATACGTTTGGCACGA
66 GATCGACACAGAGTCGTCAACAAATATGTTAGGCACATAGCTACAGGTAAATACGTTTGGCACGA
15102560 AGCCATAGTCAAGATGGCACAAAGCCATATTTAGGTTGGCATAGAGCCATTAATAACGGGTCTAT
131 AGCCATAGTCAAGATGGCACAAAGCCATATTTAGGTTGGCATAGAGCCATTAATAACGGGTCTAT
15102625 AATCGGCACGAATTCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACACTTAACCATCG
196 AATCGGCACGAATTCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACACTTAACCATCG
15102690 ATCGGTCAACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAATCA
261 ATCGGTCAACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAA-CA
15102755 GATA-ATGTGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATAGATAACTA
325 GATATATGTGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATAGATAACTA
15102810 TAATAACTTCGGCACATAGCCATCAATGACGGTAATATAACTGGCGCACAGCCTTCGGTAAATAT
1 TAATAACTTCGGCACATAGCCATCAATGACGGTAATATAACTGGCGCACAGCCTTCGGTAAATAT
15102875 GATCGACACAGAGTCGTCAACAAATATGTTAGGCACATAGCTACAGGTAAATACGTTTGGCACGA
66 GATCGACACAGAGTCGTCAACAAATATGTTAGGCACATAGCTACAGGTAAATACGTTTGGCACGA
15102940 AGCCATAGTCAAGATGGCACAAAGCCATATTTAGGTTGGCATAGAGCCATTAATAACGGGTCTAT
131 AGCCATAGTCAAGATGGCACAAAGCCATATTTAGGTTGGCATAGAGCCATTAATAACGGGTCTAT
15103005 AATCGGCACGAATTCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACACTTAACCATCG
196 AATCGGCACGAATTCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACACTTAACCATCG
15103070 ATCGGTCAACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAACAG
261 ATCGGTCAACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAACAG
*
15103135 ATATTTGTGGCA
326 ATATATGTGGCA
15103147 TAGCCACCAG
Statistics
Matches: 333, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
379 6 0.02
380 327 0.98
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (380 bp):
TAATAACTTCGGCACATAGCCATCAATGACGGTAATATAACTGGCGCACAGCCTTCGGTAAATAT
GATCGACACAGAGTCGTCAACAAATATGTTAGGCACATAGCTACAGGTAAATACGTTTGGCACGA
AGCCATAGTCAAGATGGCACAAAGCCATATTTAGGTTGGCATAGAGCCATTAATAACGGGTCTAT
AATCGGCACGAATTCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACACTTAACCATCG
ATCGGTCAACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAACAG
ATATATGTGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATAGATAACTA
Found at i:15103156 original size:27 final size:26
Alignment explanation
Indices: 15103077--15103159 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
15103067 TCGATCGGTC
* * *
15103077 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
15103103 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
15103130 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
15103157 AAC
1 AAC
15103160 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:15103388 original size:27 final size:27
Alignment explanation
Indices: 15103360--15103761 Score: 554
Period size: 27 Copynumber: 14.9 Consensus size: 27
15103350 GGCAAAATGG
* * * *
15103360 TAATTTTACCCCACAGGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
15103387 TAATTCTACCCTACAGGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
15103414 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
15103441 TAATTCTACCCTACAGGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
15103468 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
15103495 TAATTCTACCCTACAGGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
15103522 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
15103549 TAATTCTACCCTACAGGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
15103576 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
15103603 TAATTCTACCCTACAGGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
15103630 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
15103657 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * * *
15103684 TAATTCTATCCTATAAGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
15103711 TAATTCTACCCTATAGGGGTATTTCAGA
1 TAATTCTACCCTACAGGGGTATTTC-GA
15103739 -AATTCTACCCTACAGGGGTATTT
1 TAATTCTACCCTACAGGGGTATTT
15103762 TAGTAATTTC
Statistics
Matches: 328, Mismatches: 46, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
27 327 1.00
28 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:15103769 original size:54 final size:54
Alignment explanation
Indices: 15103362--15103761 Score: 660
Period size: 54 Copynumber: 7.4 Consensus size: 54
15103352 CAAAATGGTA
* * * *
15103362 ATTT-TACCCCACAGGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTGAT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
15103415 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
15103469 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
15103523 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
15103577 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
*
15103631 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
* * * * * *
15103685 AATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCAGA-
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT-TGAT
* *
15103739 AATTCTACCCTACAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
15103762 TAGTAATTTC
Statistics
Matches: 330, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
53 4 0.01
54 325 0.98
55 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTGAT
Found at i:15103804 original size:27 final size:27
Alignment explanation
Indices: 15103774--15104508 Score: 837
Period size: 27 Copynumber: 27.3 Consensus size: 27
15103764 GTAATTTCAC
* *
15103774 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15103801 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
15103828 AA-CTGAGAGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
15103855 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15103882 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15103909 AA-CTGAGGGTAAAGCGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
15103936 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
15103963 AA-CTGAGAGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
15103990 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15104017 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
15104044 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15104071 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *
15104098 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15104125 AATTGAGGGTAAAACAGTAATTCTGTAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
*
15104153 AAT-GAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
15104179 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15104206 AATTGAGGGTAAAACAGTAATTCTGTAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
*
15104234 AAT-GAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
15104260 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
15104287 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
15104314 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
15104341 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
15104368 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15104395 AA-CTGAGGGTAAAACGATAATTCTGT-
1 AATC-GAGGGTAAAACGGTAATTCTGTA
15104421 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
15104448 AA-CTGGGGGTAAAACGGTAATT-T-TAA
1 AATC-GAGGGTAAAACGGTAATTCTGT-A
*
15104474 ACATCAAGGGTAAAACGGTAATTCTGTA
1 A-ATCGAGGGTAAAACGGTAATTCTGTA
15104502 AATCGAG
1 AATCGAG
15104509 AGTACTTTGG
Statistics
Matches: 599, Mismatches: 86, Indels: 46
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 40 0.07
27 540 0.90
28 17 0.03
29 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:15106528 original size:24 final size:24
Alignment explanation
Indices: 15106501--15106726 Score: 265
Period size: 24 Copynumber: 8.8 Consensus size: 24
15106491 AACCAAAATG
15106501 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
*
15106525 AGAATCAGAATCA-ATATTAGTAAC
1 AGAATCAGAATCAGA-ATCAGTAAC
15106549 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAG---TA----AC
15106580 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* *
15106604 AGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
15106628 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAG---TA----AC
15106659 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* *
15106683 AGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
15106707 AGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
15106727 AATTACGTGA
Statistics
Matches: 176, Mismatches: 10, Indels: 32
0.81 0.05 0.15
Matches are distributed among these distances:
23 1 0.01
24 122 0.69
25 1 0.01
27 4 0.02
28 4 0.02
31 44 0.25
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:15106585 original size:31 final size:31
Alignment explanation
Indices: 15106524--15106754 Score: 153
Period size: 31 Copynumber: 7.4 Consensus size: 31
15106514 GAATCAGTAA
15106524 CAGAATCAGAATCA-ATATTAGTAACAGAAT
1 CAGAATCAGAATCAGATATTAGTAACAGAAT
*
15106554 CAGAATCAGAATCAGA-ATTAGGTGACAGAAT
1 CAGAATCAGAATCAGATATTA-GTAACAGAAT
**
15106585 CAGAATCAGAATCAG-TAACAG-AATCAGAAT
1 CAGAATCAGAATCAGATATTAGTAA-CAGAAT
* * *
15106615 CAGTATTAGTAA-CAGA-ATCAG-AATCAGAAT
1 CAGAATCAG-AATCAGATATTAGTAA-CAGAAT
* * *
15106645 CAGAATTAG-GTGACAGA-ATCAG-AATCAGAAT
1 CAGAATCAGAAT--CAGATATTAGTAA-CAGAAT
15106676 CAGTAA-CAGAATCAGAATCAGTATTAGTAACAGAAT
1 CAG-AATCAGAATCAG----A-TATTAGTAACAGAAT
*
15106712 CAGAATCAGAATCAGA-ATTACGTGACAGAAT
1 CAGAATCAGAATCAGATATTA-GTAACAGAAT
*
15106743 CAGAATTAGAAT
1 CAGAATCAGAAT
15106755 GTGAATGCAA
Statistics
Matches: 167, Mismatches: 14, Indels: 39
0.76 0.06 0.18
Matches are distributed among these distances:
29 1 0.01
30 63 0.38
31 72 0.43
32 4 0.02
34 1 0.01
35 2 0.01
36 22 0.13
37 2 0.01
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGAATCAGAATCAGATATTAGTAACAGAAT
Found at i:15106595 original size:79 final size:79
Alignment explanation
Indices: 15106501--15106754 Score: 481
Period size: 79 Copynumber: 3.2 Consensus size: 79
15106491 AACCAAAATG
*
15106501 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
15106566 CAGAATTAGGTGAC
66 CAGAATTAGGTGAC
15106580 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
15106645 CAGAATTAGGTGAC
66 CAGAATTAGGTGAC
15106659 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
*
15106724 CAGAATTACGTGAC
66 CAGAATTAGGTGAC
*
15106738 AGAATCAGAATTAGAAT
1 AGAATCAGAATCAGAAT
15106755 GTGAATGCAA
Statistics
Matches: 172, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 172 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (79 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
CAGAATTAGGTGAC
Found at i:15106748 original size:6 final size:6
Alignment explanation
Indices: 15106501--15106729 Score: 215
Period size: 6 Copynumber: 37.8 Consensus size: 6
15106491 AACCAAAATG
*
15106501 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGA-ATC AG-AATC
* *
15106549 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
15106598 AGTAA-C AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
15106646 AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
15106695 AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAAT
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
15106730 TACGTGACAG
Statistics
Matches: 185, Mismatches: 18, Indels: 40
0.76 0.07 0.16
Matches are distributed among these distances:
5 15 0.08
6 154 0.83
7 13 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:15106909 original size:27 final size:26
Alignment explanation
Indices: 15106872--15106937 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
15106862 AGCATGGTTG
*
15106872 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
15106898 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
15106925 CCAGAATCAGATA
1 CCAGAA-CAGATA
15106938 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:15106942 original size:27 final size:27
Alignment explanation
Indices: 15106872--15106945 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
15106862 AGCATGGTTG
* *
15106872 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
15106898 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
15106925 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
15106946 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:15106952 original size:27 final size:27
Alignment explanation
Indices: 15106896--15106953 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
15106886 GTGACAGAGT
* * *
15106896 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
15106923 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
15106950 CACC
1 CACC
15106954 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:15107126 original size:213 final size:213
Alignment explanation
Indices: 15106876--15107406 Score: 1044
Period size: 213 Copynumber: 2.5 Consensus size: 213
15106866 TGGTTGCCAG
* *
15106876 AACAGATATCGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAATCAGATAATG
1 AACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAATCAGATAATG
15106941 TGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATATTTAGGTTGGCACAGAGCCATTAAC
66 TGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATATTTAGGTTGGCACAGAGCCATTAAC
15107006 AACGGGTCTATAATCGGCACGAAGCCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACA
131 AACGGGTCTATAATCGGCACGAAGCCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACA
15107071 CTTAGCCATCGATCGGTC
196 CTTAGCCATCGATCGGTC
15107089 AACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAATCAGATAATG
1 AACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAATCAGATAATG
15107154 TGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATATTTAGGTTGGCACAGAGCCATTAAC
66 TGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATATTTAGGTTGGCACAGAGCCATTAAC
15107219 AACGGGTCTATAATCGGCACGAAGCCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACA
131 AACGGGTCTATAATCGGCACGAAGCCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACA
15107284 CTTAGCCATCGATCGGTC
196 CTTAGCCATCGATCGGTC
15107302 AACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAATCAGATAATG
1 AACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAATCAGATAATG
15107367 TGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATA
66 TGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATA
15107407 GATAACTGTA
Statistics
Matches: 316, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 316 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (213 bp):
AACAGATATTGTGACAGAGTCACCAAATACAGATATTGTGGCAGAGCCACCAGAATCAGATAATG
TGGCAAACCCACCTAACAGAATACGTGGCACAAAGCCATATTTAGGTTGGCACAGAGCCATTAAC
AACGGGTCTATAATCGGCACGAAGCCCACAACAACGGCACACAGCCTTCGGTAGCGTGATCGACA
CTTAGCCATCGATCGGTC
Found at i:15107156 original size:27 final size:27
Alignment explanation
Indices: 15107090--15107158 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
15107080 CGATCGGTCA
* *
15107090 ACAGATATTGTGACAGAGTCACCAAAT
1 ACAGATATTGTGGCAGAGCCACCAAAT
15107117 ACAGATATTGTGGCAGAGCCACCAGAAT
1 ACAGATATTGTGGCAGAGCCACCA-AAT
*
15107145 -CAGATAATGTGGCA
1 ACAGATATTGTGGCA
15107159 AACCCACCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAGATATTGTGGCAGAGCCACCAAAT
Found at i:15107165 original size:27 final size:27
Alignment explanation
Indices: 15107109--15107166 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
15107099 GTGACAGAGT
* * *
15107109 CACCAAATACAGATATTGTGGCAGAGC
1 CACCAAATACAGATAATGTGGCAAACC
15107136 CACCAGAAT-CAGATAATGTGGCAAACC
1 CACCA-AATACAGATAATGTGGCAAACC
15107163 CACC
1 CACC
15107167 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAAATACAGATAATGTGGCAAACC
Found at i:15107369 original size:27 final size:27
Alignment explanation
Indices: 15107303--15107371 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
15107293 CGATCGGTCA
* *
15107303 ACAGATATTGTGACAGAGTCACCAAAT
1 ACAGATATTGTGGCAGAGCCACCAAAT
15107330 ACAGATATTGTGGCAGAGCCACCAGAAT
1 ACAGATATTGTGGCAGAGCCACCA-AAT
*
15107358 -CAGATAATGTGGCA
1 ACAGATATTGTGGCA
15107372 AACCCACCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAGATATTGTGGCAGAGCCACCAAAT
Found at i:15107378 original size:27 final size:27
Alignment explanation
Indices: 15107322--15107379 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
15107312 GTGACAGAGT
* * *
15107322 CACCAAATACAGATATTGTGGCAGAGC
1 CACCAAATACAGATAATGTGGCAAACC
15107349 CACCAGAAT-CAGATAATGTGGCAAACC
1 CACCA-AATACAGATAATGTGGCAAACC
15107376 CACC
1 CACC
15107380 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAAATACAGATAATGTGGCAAACC
Found at i:15107584 original size:22 final size:22
Alignment explanation
Indices: 15107536--15107594 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
15107526 GTAAATACGT
*
15107536 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
15107558 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
15107580 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
15107595 TAACAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:15107761 original size:27 final size:26
Alignment explanation
Indices: 15107682--15107764 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
15107672 TCGATCGGTC
* * *
15107682 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
15107708 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
15107735 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
15107762 AAC
1 AAC
15107765 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:15108058 original size:27 final size:28
Alignment explanation
Indices: 15108028--15108252 Score: 243
Period size: 27 Copynumber: 8.3 Consensus size: 28
15108018 ATAATTTCAC
* *
15108028 AATCAAGGGTAAAATAG-TAATTCTATA
1 AATCGAGGGTAAAATAGATAATTCTGTA
*
15108055 AATCGAGGGTAAAACAG-TAATTCTGTA
1 AATCGAGGGTAAAATAGATAATTCTGTA
*
15108082 AA-CTGAGGGTAAAA-CGATAATTCTGTA
1 AATC-GAGGGTAAAATAGATAATTCTGTA
* * *
15108109 AACCGAGGGTAAAA-CGATAATTCTATA
1 AATCGAGGGTAAAATAGATAATTCTGTA
* * *
15108136 AATCGAGGGCAAAA-CGATAATTTTGTA
1 AATCGAGGGTAAAATAGATAATTCTGTA
15108163 AATCGAGGGTAAAAT-GATAATTCTGTA
1 AATCGAGGGTAAAATAGATAATTCTGTA
* * *
15108190 AACCAAGGGTAAACTAG-TAATTCTGTA
1 AATCGAGGGTAAAATAGATAATTCTGTA
* *
15108217 AATCAAGGGTAAAATAG-TAATTCTATA
1 AATCGAGGGTAAAATAGATAATTCTGTA
15108244 AATCGAGGG
1 AATCGAGGG
15108253 NNNNNNNNNN
Statistics
Matches: 175, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.01
27 171 0.98
28 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (28 bp):
AATCGAGGGTAAAATAGATAATTCTGTA
Found at i:15108135 original size:81 final size:81
Alignment explanation
Indices: 15108031--15108252 Score: 297
Period size: 81 Copynumber: 2.7 Consensus size: 81
15108021 ATTTCACAAT
**
15108031 CAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAA-CTGAGGGTAAA
1 CAAGGGTAAACGAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAA
15108095 ACGATAATTCTGTAAAC
65 ACGATAATTCTGTAAAC
* * *
15108112 CGAGGGTAAAACGA-TAATTCTATAAATCGAGGGCAAAAC-GATAATTTTGTAAATCGAGGGTAA
1 CAAGGGT-AAACGAGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAA
*
15108175 AATGATAATTCTGTAAAC
64 AACGATAATTCTGTAAAC
* * * * *
15108193 CAAGGGTAAACTAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGG
1 CAAGGGTAAACGAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGG
15108253 NNNNNNNNNN
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
80 6 0.05
81 110 0.90
82 6 0.05
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (81 bp):
CAAGGGTAAACGAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAA
CGATAATTCTGTAAAC
Found at i:15109057 original size:6 final size:6
Alignment explanation
Indices: 15109046--15109234 Score: 149
Period size: 6 Copynumber: 31.0 Consensus size: 6
15109036 NNNNNNNNNN
*
15109046 CAGAAT CAGAAT CAGAAT CA-ATAT TAGTAA- CAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGA-AT CAG-AAT CAGAAT CAGAAT CAGAAT
* *
15109094 CAGAAT TAG-GT GACAGAAT CAGAAT CAGAAT CAGTAA- CAGAAT CAGAAT
1 CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT CAG-AAT CAGAAT CAGAAT
* * * * *
15109143 CAGAAT TAGTAT TAGTAA- CAGAAT CAGAAT CAGAAT CAGAAT TAG-GT
1 CAGAAT CAGAAT CAG-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT
* *
15109190 GACAGAAT CAGAAT CAGAAT TACGTGA- CAGAAT CAGAAT CAGAAT
1 --CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
15109235 GTGAATGCAA
Statistics
Matches: 148, Mismatches: 18, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
5 10 0.07
6 124 0.84
7 10 0.07
8 4 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (6 bp):
CAGAAT
Found at i:15109116 original size:25 final size:25
Alignment explanation
Indices: 15109082--15109234 Score: 164
Period size: 25 Copynumber: 5.7 Consensus size: 25
15109072 GTAACAGAAT
15109082 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTGA
* *
15109107 CAGAATCAGAATCAGAATCA-GTAA
1 CAGAATCAGAATCAGAATTAGGTGA
*
15109131 CAGAATCAGAATCAGAATTAGTATTAGTAA
1 CAGAATCAGAATCAGAATTAG-----GTGA
15109161 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATC--A----GAATTAGGTGA
*
15109192 CAGAATCAGAATCAGAATTACGTGA
1 CAGAATCAGAATCAGAATTAGGTGA
15109217 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
15109235 GTGAATGCAA
Statistics
Matches: 111, Mismatches: 5, Indels: 24
0.79 0.04 0.17
Matches are distributed among these distances:
24 22 0.20
25 47 0.42
29 1 0.01
30 17 0.15
31 16 0.14
32 1 0.01
36 7 0.06
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTGA
Found at i:15109189 original size:85 final size:86
Alignment explanation
Indices: 15109046--15109234 Score: 335
Period size: 85 Copynumber: 2.2 Consensus size: 86
15109036 NNNNNNNNNN
15109046 CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGA
1 CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGA
15109111 ATCAGAATCAGAATCA-GTAA
66 ATCAGAATCAGAATCACGTAA
* *
15109131 CAGAATCAGAATCAGAATTAGTATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGA
1 CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGA
* *
15109196 ATCAGAATCAGAATTACGTGA
66 ATCAGAATCAGAATCACGTAA
15109217 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
15109235 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 78 0.79
86 21 0.21
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (86 bp):
CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAGA
ATCAGAATCAGAATCACGTAA
Found at i:15109389 original size:27 final size:26
Alignment explanation
Indices: 15109352--15109438 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
15109342 AGCATGGTTG
*
15109352 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
15109378 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
* * *
15109405 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TCGTGACAGAGCCA
15109432 CCAGAAC
1 CCAGAAC
15109439 GCTTCCTCCG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 12 0.22
27 43 0.78
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:15109837 original size:27 final size:27
Alignment explanation
Indices: 15109771--15109839 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
15109761 CGATCGGTCA
* *
15109771 ACAGATATTGTGACAGAGTCACCAAAT
1 ACAGATATTGTGGCAGAGCCACCAAAT
15109798 ACAGATATTGTGGCAGAGCCACCAGAAT
1 ACAGATATTGTGGCAGAGCCACCA-AAT
*
15109826 -CAGATAATGTGGCA
1 ACAGATATTGTGGCA
15109840 AACCCACCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (27 bp):
ACAGATATTGTGGCAGAGCCACCAAAT
Found at i:15109846 original size:27 final size:27
Alignment explanation
Indices: 15109790--15109847 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
15109780 GTGACAGAGT
* * *
15109790 CACCAAATACAGATATTGTGGCAGAGC
1 CACCAAATACAGATAATGTGGCAAACC
15109817 CACCAGAAT-CAGATAATGTGGCAAACC
1 CACCA-AATACAGATAATGTGGCAAACC
15109844 CACC
1 CACC
15109848 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAAATACAGATAATGTGGCAAACC
Found at i:15110124 original size:27 final size:27
Alignment explanation
Indices: 15110094--15110289 Score: 212
Period size: 27 Copynumber: 7.3 Consensus size: 27
15110084 GGGGCAAAAT
* * *
15110094 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
15110121 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
15110148 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
15110175 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
15110202 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * * *
15110229 AATAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
15110256 AGAAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
15110283 AGTAATT
1 GGTAATT
15110290 TCACAATCAA
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:15110250 original size:54 final size:54
Alignment explanation
Indices: 15110094--15110289 Score: 239
Period size: 54 Copynumber: 3.6 Consensus size: 54
15110084 GGGGCAAAAT
* * * * **
15110094 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * * *
15110148 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * *
15110202 GGTAATTCTATCCTATAAGGGTATTTCAATAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
* * * *
15110256 AGAAATTCTACCCTATAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTATAAGGGTATTTCAATAATT
15110290 TCACAATCAA
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 124 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTATAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTC
Found at i:15110370 original size:54 final size:53
Alignment explanation
Indices: 15110299--15111575 Score: 1341
Period size: 54 Copynumber: 23.7 Consensus size: 53
15110289 TTCACAATCA
** *
15110299 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAA-TG
* * * * **
15110353 AGAGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAAT-G
* *
15110407 AGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAAC-AGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAAT-G
* * * *
15110461 AGGGTAAAACGGTAATTCTGTAAA-CTGAGAGT-AAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGA-TAATTCTGTAAAT-G
* ** *
15110515 AGGGTAAAAC-GATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAA-TG
*
15110569 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAA-TG
* * * * **
15110623 AGAGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAAT-G
* *
15110677 AGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAAC-AGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAAT-G
* * * *
15110731 AGGGTAAAAC-GATAATTTTGTAAA-CTGAGAGT-AAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACAG-TAATTCTGTAAATC-GAGGGTAAAACGA-TAATTCTGTAAAT-G
* ** *
15110785 AGGGTAAAAC-GATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAA-TG
*
15110839 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAA-TG
* * * * **
15110893 AGAGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAAT-G
* *
15110947 AGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAAC-AGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAAT-G
* * * *
15111001 AGGGTAAAAC-GATAATTTTGTAAA-CTGAGAGT-AAACCAGTAATTCTGTAAATCA
1 AGGGTAAAACAG-TAATTCTGTAAATC-GAGGGTAAAACGA-TAATTCTGTAAAT-G
* ** *
15111055 AGGGTAAAAC-GATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAA-TG
*
15111109 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAA-TG
*
15111163 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAA-TG
* * *
15111217 AGGGTAAAACGGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTGTAAAT-G
*
15111271 AGGGTAAAACAGTAATTCTATAAA-CAGAGGGTAAAACGATAATTCTGTAAACTG
1 AGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTGTAAA-TG
* * *
15111325 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAAATG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGT-AAATG
* * * * **
15111379 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAAT-G
* * *
15111433 AAGGTAAAAC-GATAATTCTATAAATCGAGGGTAAAAC-AGTAATTCTATAAACTG
1 AGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAA-TG
* *
15111487 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAACTG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAA-TG
* * * **
15111541 AAGGTAAAACGGTAATTTTAAAAATCGAGGGTAAA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAA
15111576 TCGAGAGTAC
Statistics
Matches: 1066, Mismatches: 117, Indels: 80
0.84 0.09 0.06
Matches are distributed among these distances:
53 29 0.03
54 1009 0.95
55 28 0.03
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (53 bp):
AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATG
Found at i:15111575 original size:135 final size:135
Alignment explanation
Indices: 15110299--15111559 Score: 1959
Period size: 135 Copynumber: 9.3 Consensus size: 135
15110289 TTCACAATCA
**
15110299 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
15110364 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
66 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
15110429 AATTG
131 AATTG
* *
15110434 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGAGTAAACCA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
15110499 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
66 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
15110564 AATTG
131 AATTG
15110569 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
15110634 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
66 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
15110699 AATTG
131 AATTG
15110704 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
15110769 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
66 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
15110834 AATTG
131 AATTG
15110839 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
15110904 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
66 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
15110969 AATTG
131 AATTG
15110974 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
15111039 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
66 GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
15111104 AATTG
131 AATTG
* * * * *
15111109 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAACA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
* * * *
15111174 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA-AACT-GAGGGTAAAACGGTAATTCTA
66 GTAATTCTGTAAATCAAGGGTAAAACGATAATT-T-TACAAATCGAGGGTAAAACGGTAATTCTG
*
15111237 TAAACTG
129 TAAATTG
* * * * * *
15111244 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTATAAACAGAGGGTAAAAC
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAACTGAGAGTAAACC
* * ** **
15111308 -GATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCT
65 AG-TAATTCTGTAAATC-AAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCT
*
15111371 GTAAAATG
128 GTAAATTG
* * * ** *
15111379 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAA-TCGA-AGGTAAAA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACT-GAGA-GTAAAC
* * * * *
15111442 C-GATAATTCTATAAATCGAGGGTAAAAC-AGTAATTCTATAAA-CTGAGGGTAAAACAGTAATT
64 CAG-TAATTCTGTAAATCAAGGGTAAAACGA-TAATTTTACAAATC-GAGGGTAAAACGGTAATT
*
15111504 CTGTAAATCG
126 CTGTAAATTG
** * *
15111514 AGGGTAAAATGGTAATTCTGTAAA-CTGAAGGTAAAACGGTAATTTT
1 AGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGATAATTTT
15111560 AAAAATCGAG
Statistics
Matches: 1069, Mismatches: 43, Indels: 28
0.94 0.04 0.02
Matches are distributed among these distances:
133 1 0.00
134 8 0.01
135 1053 0.99
136 5 0.00
137 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (135 bp):
AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGAGTAAACCA
GTAATTCTGTAAATCAAGGGTAAAACGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTA
AATTG
Found at i:15112500 original size:3 final size:3
Alignment explanation
Indices: 15112494--15112527 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
15112484 CTTATTATCC
*
15112494 TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15112528 ATGTACTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:15119244 original size:2 final size:2
Alignment explanation
Indices: 15119239--15119268 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15119229 AACTGATATC
15119239 CT CT CT 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
15119269 TGTATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15119370 original size:20 final size:21
Alignment explanation
Indices: 15119340--15119392 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
15119330 TTTTTCCTGA
15119340 TTTT-TATTTTTTTAATATT-
1 TTTTGTATTTTTTTAATATTC
*
15119359 TTTCTG-ATTTTTTTGATATTC
1 TTT-TGTATTTTTTTAATATTC
15119380 TTTTGTATTTTTT
1 TTTTGTATTTTTT
15119393 ATTCTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 3 0.10
20 16 0.55
21 10 0.34
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (21 bp):
TTTTGTATTTTTTTAATATTC
Found at i:15119383 original size:11 final size:10
Alignment explanation
Indices: 15119347--15119392 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
15119337 TGATTTTTAT
*
15119347 TTTTTTAATA
1 TTTTTTGATA
15119357 TTTTTCTGAT-
1 TTTTT-TGATA
15119367 TTTTTTGATA
1 TTTTTTGATA
15119377 TTCTTTTG-TA
1 TT-TTTTGATA
15119387 TTTTTT
1 TTTTTT
15119393 ATTCTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
9 8 0.25
10 16 0.50
11 8 0.25
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (10 bp):
TTTTTTGATA
Found at i:15122955 original size:42 final size:42
Alignment explanation
Indices: 15122890--15122979 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
15122880 ATCCTAATTG
* *
15122890 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAA
1 AGAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAA
* *
15122932 AGAAAATAGTTCCCTTGTCCTAATAAAGTACTAAAAGATAAA
1 AGAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAA
*
15122974 ATAAAA
1 AGAAAA
15122980 ATATTCCTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (42 bp):
AGAAAATAGTTCCCTTATCCTAATAAACTACTAAAAGATAAA
Found at i:15123026 original size:19 final size:18
Alignment explanation
Indices: 15123004--15123043 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
15122994 TGAATAAAAC
15123004 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
15123023 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
15123041 TTA
1 TTA
15123044 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:15124532 original size:32 final size:32
Alignment explanation
Indices: 15124491--15124555 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
15124481 CTGTTTTTTT
15124491 CCCTACAGGTAATTCCATTGTTTCCCATGTAC
1 CCCTACAGGTAATTCCATTGTTTCCCATGTAC
15124523 CCCTACAGGTAATTCCATTGTTTCCCATGTAC
1 CCCTACAGGTAATTCCATTGTTTCCCATGTAC
15124555 C
1 C
15124556 TGTTTTTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (32 bp):
CCCTACAGGTAATTCCATTGTTTCCCATGTAC
Found at i:15126867 original size:42 final size:42
Alignment explanation
Indices: 15126803--15126891 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
15126793 TCCTAATTGG
* * *
15126803 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAACAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
15126845 GAAAACAGTTCCCTTGTCCTAATAAACTACTAAAAGATAAAA
1 GAAAACAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
*
15126887 TAAAA
1 GAAAA
15126892 ATATTTCTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.27
Consensus pattern (42 bp):
GAAAACAGTTCCCTTATCCTAATAAACTACTAAAAGATAAAA
Found at i:15126938 original size:19 final size:18
Alignment explanation
Indices: 15126916--15126955 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
15126906 TGAATAAAAC
*
15126916 TTATCTACTTAAATAAGAT
1 TTATCTACCTAAATAA-AT
15126935 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
15126953 TTA
1 TTA
15126956 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:15132861 original size:31 final size:31
Alignment explanation
Indices: 15132801--15132861 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
15132791 GTAATTATAT
15132801 ATATATATATATAAAACTTAAATTGTGATTC
1 ATATATATATATAAAACTTAAATTGTGATTC
* * * * *
15132832 ATATGTATATATGAAATTTTAATTTTGATT
1 ATATATATATATAAAACTTAAATTGTGATT
15132862 ACTTTTTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (31 bp):
ATATATATATATAAAACTTAAATTGTGATTC
Found at i:15133631 original size:26 final size:27
Alignment explanation
Indices: 15133576--15133633 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
15133566 ACTTTTCCTT
*
15133576 CAAAACTTTTATTCCTTCCCACTTTCTCC
1 CAAAACTTTTA-T-CTTCCCACTTCCTCC
15133605 CAAAACTTTTA-CTTCCC-CTTCCATCC
1 CAAAACTTTTATCTTCCCACTTCC-TCC
15133631 CAA
1 CAA
15133634 CCCCCAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 4 0.15
26 12 0.44
29 11 0.41
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (27 bp):
CAAAACTTTTATCTTCCCACTTCCTCC
Found at i:15135003 original size:47 final size:45
Alignment explanation
Indices: 15134891--15135009 Score: 134
Period size: 47 Copynumber: 2.6 Consensus size: 45
15134881 TCATTTGTGT
15134891 GAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTACGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCAG-CACATTACGA
* * *
15134937 GAACTAGTGTAAGATCATGTCTGGGACATGGCATC-G-ACATTGAGACGG
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCACATT---ACGA
*
15134985 GTGCTAGTGTAAGACATGTCTAGGA
1 GAGCTAGTGTAAGACATGTCTAGGA
15135010 TATATATCAG
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
45 5 0.08
46 13 0.21
47 24 0.39
48 20 0.32
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCACATTACGA
Found at i:15155863 original size:3 final size:3
Alignment explanation
Indices: 15155855--15155887 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
15155845 AAGCATAAAC
*
15155855 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15155888 CATTGGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15156002 original size:23 final size:23
Alignment explanation
Indices: 15155984--15156037 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
15155974 TGTATACACG
15155984 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
15156007 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
15156029 TAC-TAATAA
1 TACATAATAA
15156038 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:15156009 original size:29 final size:26
Alignment explanation
Indices: 15155987--15156046 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
15155977 ATACACGTAC
15155987 ATAATAAAAATATATACTAATACATA
1 ATAATAAAAATATATACTAATACATA
*
15156013 ATAATAATAATAGTAATACTAATA-ATA
1 ATAATAAAAATA-T-ATACTAATACATA
*
15156040 CTAATAA
1 ATAATAA
15156047 TATAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 11 0.37
27 10 0.33
28 9 0.30
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (26 bp):
ATAATAAAAATATATACTAATACATA
Found at i:15156018 original size:3 final size:3
Alignment explanation
Indices: 15155987--15156057 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
15155977 ATACACGTAC
* * * *
15155987 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
15156034 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
15156058 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:15156672 original size:16 final size:16
Alignment explanation
Indices: 15156651--15156688 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15156641 GGTAAAAAAA
* *
15156651 TTTTATTTTTTTTATT
1 TTTTATTTCTTGTATT
15156667 TTTTATTTCTTGTATT
1 TTTTATTTCTTGTATT
15156683 TTTTAT
1 TTTTAT
15156689 ATTATACTTT
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:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTATTTCTTGTATT
Found at i:15164947 original size:17 final size:17
Alignment explanation
Indices: 15164915--15164960 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
15164905 TATAATTTAT
*
15164915 TCTTTATTTTTAATTTTC
1 TCTTT-TTTTTTATTTTC
15164933 T-TGTTTTTTTTATTTTC
1 TCT-TTTTTTTTATTTTC
15164950 TCTTTTTTTTT
1 TCTTTTTTTTT
15164961 CTAAATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (17 bp):
TCTTTTTTTTTATTTTC
Found at i:15164955 original size:16 final size:18
Alignment explanation
Indices: 15164914--15164959 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
15164904 ATATAATTTA
15164914 TTCTTTATTTTTAATTTTC
1 TTCTTT-TTTTTAATTTTC
*
15164933 TTGTTTTTTTT-ATTTTC
1 TTCTTTTTTTTAATTTTC
15164950 -TCTTTTTTTT
1 TTCTTTTTTTT
15164960 TCTAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.36
17 6 0.24
18 5 0.20
19 5 0.20
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (18 bp):
TTCTTTTTTTTAATTTTC
Found at i:15172939 original size:10 final size:10
Alignment explanation
Indices: 15172921--15172978 Score: 71
Period size: 10 Copynumber: 5.7 Consensus size: 10
15172911 AGTTAAATCA
15172921 AGCTCAAACG
1 AGCTCAAACG
*
15172931 AGCTGAAACG
1 AGCTCAAACG
* *
15172941 AGCTAAAATCA
1 AGCTCAAA-CG
15172952 AGCTCAAACG
1 AGCTCAAACG
*
15172962 AGCTGAAACG
1 AGCTCAAACG
15172972 AGCTCAA
1 AGCTCAA
15172979 GTAAGCTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
10 32 0.80
11 8 0.20
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (10 bp):
AGCTCAAACG
Found at i:15172953 original size:31 final size:31
Alignment explanation
Indices: 15172915--15172975 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
15172905 AAACAAAGTT
15172915 AAATCAAGCTCAAACGAGCTGAAACGAGCTA
1 AAATCAAGCTCAAACGAGCTGAAACGAGCTA
15172946 AAATCAAGCTCAAACGAGCTGAAACGAGCT
1 AAATCAAGCTCAAACGAGCTGAAACGAGCT
15172976 CAAGTAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.23, G:0.20, T:0.13
Consensus pattern (31 bp):
AAATCAAGCTCAAACGAGCTGAAACGAGCTA
Found at i:15180877 original size:25 final size:25
Alignment explanation
Indices: 15180847--15180905 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
15180837 TGCAAGTTGA
15180847 ATAATTTTTT-TTA-AAACTTATAAT
1 ATAATTTTTTATTATAAACTTAT-AT
*
15180871 ATAAATTTTTTATTATAACCTTATAT
1 AT-AATTTTTTATTATAAACTTATAT
15180897 ATAATTTTT
1 ATAATTTTT
15180906 ATAACTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 2 0.06
25 15 0.48
26 7 0.23
27 7 0.23
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (25 bp):
ATAATTTTTTATTATAAACTTATAT
Found at i:15180906 original size:24 final size:24
Alignment explanation
Indices: 15180847--15180907 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 24
15180837 TGCAAGTTGA
*
15180847 ATAATTTTTTTTAAAACTTATAAT
1 ATAATTTTTATTAAAACTTATAAT
*
15180871 ATAAATTTTTTATTATAACCTTAT-AT
1 AT-AA-TTTTTATTA-AAACTTATAAT
15180897 ATAATTTTTAT
1 ATAATTTTTAT
15180908 AACTTAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 9 0.28
25 4 0.12
26 12 0.38
27 7 0.22
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (24 bp):
ATAATTTTTATTAAAACTTATAAT
Found at i:15182001 original size:20 final size:19
Alignment explanation
Indices: 15181976--15182026 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
15181966 GAATTTTAAA
* *
15181976 AATTTATATATATAATTGAT
1 AATTTATATAT-TAAATAAT
*
15181996 AATTTAAATATTAAATAAT
1 AATTTATATATTAAATAAT
15182015 -ATTTATATATTA
1 AATTTATATATTA
15182027 CGTTTTCCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 11 0.41
19 6 0.22
20 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
AATTTATATATTAAATAAT
Found at i:15193542 original size:32 final size:32
Alignment explanation
Indices: 15193502--15193565 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
15193492 TAGTCCCCGG
*
15193502 GCTAGCTAAATTAATTTACTATGATCTCAAAA
1 GCTAGCTAAATTAAGTTACTATGATCTCAAAA
15193534 GCTAGCTAAATTAAGTTACTATGATCTCAAAA
1 GCTAGCTAAATTAAGTTACTATGATCTCAAAA
15193566 ACATAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (32 bp):
GCTAGCTAAATTAAGTTACTATGATCTCAAAA
Found at i:15197396 original size:21 final size:21
Alignment explanation
Indices: 15197371--15197412 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15197361 TTATCTAGAA
15197371 GGGACAAATCCTATCTTGATC
1 GGGACAAATCCTATCTTGATC
15197392 GGGACAAATCCTATCTTGATC
1 GGGACAAATCCTATCTTGATC
15197413 AATCATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (21 bp):
GGGACAAATCCTATCTTGATC
Found at i:15208459 original size:28 final size:28
Alignment explanation
Indices: 15208422--15208528 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
15208412 GCAATCAAAT
*
15208422 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
15208450 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
15208478 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
15208506 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
15208529 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:15210654 original size:43 final size:43
Alignment explanation
Indices: 15210607--15210761 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 43
15210597 TGTGTTCTCA
* *
15210607 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTACG
* *
15210650 TGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTACG
* * *
15210691 TGTAAGATCC-TGTCTGGGATAGTGGCATCGATATGTGATTACA
1 TGTAAGA-CCATGTCTGGGACATTGGCATCGATATGTGATTACG
*
15210734 TGTAGGACCATGTCTAGGG-CATTGGCAT
1 TGTAAGACCATGTCT-GGGACATTGGCAT
15210762 TGTACGATAT
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
41 26 0.27
42 20 0.21
43 46 0.48
44 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTACG
Found at i:15210939 original size:16 final size:16
Alignment explanation
Indices: 15210915--15210945 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15210905 TGACTATTTG
*
15210915 ATATGTGATACAAATT
1 ATATATGATACAAATT
15210931 ATATATGATACAAAT
1 ATATATGATACAAAT
15210946 GAAAATATAT
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:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
ATATATGATACAAATT
Found at i:15222294 original size:39 final size:39
Alignment explanation
Indices: 15222250--15222417 Score: 237
Period size: 39 Copynumber: 4.3 Consensus size: 39
15222240 GTATGAGATT
* *
15222250 AAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGG
1 AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
* *
15222289 AAAAATATCCGGACATGAGATCTGCAGGCTATACGCTAG
1 AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
*
15222328 AAATATATCCGGACATGAGATCCGCAGGCTATATGCTAG
1 AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
* * * ** *
15222367 AAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGG
1 AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
15222406 AAAAATATCCGG
1 AAAAATATCCGG
15222418 GTTAAAGACC
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
Found at i:15222434 original size:78 final size:78
Alignment explanation
Indices: 15222250--15222443 Score: 185
Period size: 78 Copynumber: 2.5 Consensus size: 78
15222240 GTATGAGATT
* ** * * *
15222250 AAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCTGCA
1 AAAAATATCCGGACATAAGACCCACAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
*
15222315 GGCTATACGCTAG
66 GGCTACACGCTAG
* * * * * * *
15222328 AAATATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGCA
1 AAAAATATCCGGACATAAGACCCACAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
** *
15222393 GGCTACGTGCTGG
66 GGCTACACGCTAG
** *
15222406 AAAAATATCCGG-GTTAAAGACCCACAGGCT-TACGCTAG
1 AAAAATATCCGGACAT-AAGACCCACAGGCTATATGCTAG
15222444 TAATGTATTC
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 8 0.08
78 89 0.92
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (78 bp):
AAAAATATCCGGACATAAGACCCACAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
GGCTACACGCTAG
Found at i:15227080 original size:13 final size:14
Alignment explanation
Indices: 15227062--15227096 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
15227052 TAATCGCACA
15227062 CGGGCGTGTTAC-T
1 CGGGCGTGTTACAT
15227075 CGGGCGTGTTACAT
1 CGGGCGTGTTACAT
15227089 -GGGCGTGT
1 CGGGCGTGT
15227097 CCCTGCCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 20 0.95
14 1 0.05
ACGTcount: A:0.09, C:0.20, G:0.43, T:0.29
Consensus pattern (14 bp):
CGGGCGTGTTACAT
Found at i:15229774 original size:13 final size:13
Alignment explanation
Indices: 15229756--15229780 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15229746 TATTAGGTTA
15229756 TATATTATTTTTG
1 TATATTATTTTTG
15229769 TATATTATTTTT
1 TATATTATTTTT
15229781 ATTTTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:15233161 original size:40 final size:38
Alignment explanation
Indices: 15233124--15233308 Score: 133
Period size: 40 Copynumber: 4.7 Consensus size: 38
15233114 GCTACTCGTT
15233124 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCG
1 CAAATGCCTTCGGGACATAGCCCGGATT-TAGTAACTCG
* *
15233162 CATAATTGCCTTCGGGACCTAACCCGGATTTAGTAACTCGCG
1 CA-AA-TGCCTTCGGGACATAGCCCGGATTTAGTAACT--CG
* * * *
15233204 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCG
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCG
* * * * * *
15233241 CACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAG
1 --CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCG
* *
15233282 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CA-AATGCCTTCGGGACATAGCCCGGA
15233309 CATCATTCAA
Statistics
Matches: 118, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 31 0.26
40 68 0.58
41 9 0.08
42 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCG
Found at i:15233247 original size:39 final size:39
Alignment explanation
Indices: 15233124--15233255 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 39
15233114 GCTACTCGTT
*
15233124 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGATT-TAGTAACTCGCA
* * * * *
15233164 TAATTGCCTTCGGGACCTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACATAGCCC-GATTTAGTAACTCGCA
* * *
15233204 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCG-ATTTAGTAACTCGCA
15233243 CAAATGCCTTCGG
1 CAAATGCCTTCGG
15233256 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 31 0.40
40 42 0.55
41 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACATAGCCCGATTTAGTAACTCGCA
Found at i:15233268 original size:79 final size:81
Alignment explanation
Indices: 15233124--15233306 Score: 187
Period size: 79 Copynumber: 2.3 Consensus size: 81
15233114 GCTACTCGTT
* ** * *
15233124 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCATAATTGCCTTCGGGACCTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACCTAACCCGG
* * *
15233189 ATTTAGTAAC-TCGCG
66 ATATAGTAACTTAGCA
* * **
15233204 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CCTAACCC
* *
15233266 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
15233284 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
15233307 GACATCATTC
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
78 4 0.05
79 51 0.60
80 30 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACCTAACCCGG
ATATAGTAACTTAGCA
Found at i:15241792 original size:30 final size:30
Alignment explanation
Indices: 15241758--15241815 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15241748 GCGAGCCTAA
15241758 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
* * * *
15241788 GGGCAAAATTGTAATTTTTCAAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
15241816 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:15242630 original size:64 final size:64
Alignment explanation
Indices: 15242550--15242733 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
15242540 AGACATTATG
* * *
15242550 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
15242614 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
15242679 AA
63 AA
* * * *
15242681 AT-TGGCTAGGTCACATGGTTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
15242734 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:15247461 original size:54 final size:53
Alignment explanation
Indices: 15247378--15247546 Score: 196
Period size: 54 Copynumber: 3.1 Consensus size: 53
15247368 CTTTCTTAAA
*
15247378 AAAAAAGAAAAAAAGGGCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGACCTAAT
1 AAAAAAG-ATAAAA-GGCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGA-CTAAT
* * * *
15247434 AAAAAATATAAAAGGCCAAAGTGAAAACTCGCAAAGAGCACTTTGAGATCTAAT
1 AAAAAAGATAAAAGGCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGA-CTAAT
* * * *
15247488 AAAAAAGAT-AAAGAGCCAAATTAAAAACCCACAAAGGGCGCTTTAAGACTCAAT
1 AAAAAAGATAAAAG-GCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGACT-AAT
15247542 AAAAA
1 AAAAA
15247547 TGAAAAAAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 6 0.06
54 80 0.82
55 5 0.05
56 6 0.06
ACGTcount: A:0.52, C:0.16, G:0.17, T:0.15
Consensus pattern (53 bp):
AAAAAAGATAAAAGGCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGACTAAT
Found at i:15248735 original size:44 final size:44
Alignment explanation
Indices: 15248687--15248824 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
15248677 GGCGATTCTC
* *
15248687 ATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTT
1 ATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACAAGCCTT
* * * * * *** ** **
15248731 ATCTCCCTGAAGT-TGCAGTGGAGTAGACCAAAGATGACAAATCTT
1 ATCTCCATGTA-TCAGCAATGGAGCAGATTTAAG-CCACAAGCCTT
*
15248776 ATCTCCATGTATCAGCAATGGAGCAGATTTTAGCCACAAGCCTT
1 ATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACAAGCCTT
15248820 ATCTC
1 ATCTC
15248825 TCTGAGGTAG
Statistics
Matches: 65, Mismatches: 26, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
44 36 0.55
45 29 0.45
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (44 bp):
ATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACAAGCCTT
Found at i:15248974 original size:176 final size:176
Alignment explanation
Indices: 15248761--15249523 Score: 967
Period size: 176 Copynumber: 4.3 Consensus size: 176
15248751 GAGTAGACCA
* * *
15248761 AAGATGACAAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTAGCCACAAGCCTTATCTCT
1 AAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCT
** * *
15248826 CTGAGGTAGCAAGAGAGTGGGTTGAATATTGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGAC
66 CTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
*
15248891 TGAAGATTAAAGATCTTATCTCCCTAAACAGTAGAAGAGCAGATCG
131 TGAAGATTAAAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCG
* *
15248937 AAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGGTTTTAGCCACTTGCCTTATCTCT
1 AAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCT
* *
15249002 CTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTTCTGAGGTAGTAAGGAAGCAGAC
66 CTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
* * *** * *
15249067 TGAACATTGAAGATCTTATCTCCCTGAAGTTGCAGCAGAGCAGATCG
131 TGAAGATTAAAGATCTTATCTCCCT-AAACAGTAGTAGAGCAGATCG
* * * * * *
15249114 ACGATGG-AGAATCTTATCTTCATGTGTCGGAAATGGAGCAGATTTAAGCCACTAGCCTCATCTC
1 AAGATGGCA-AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTC
* * * * * *
15249178 TTTAAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTTTTATCTTTCTGAGGTAGCAAGAAAGTAGA
65 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* * * * *
15249243 CTGAATATTGAAGATCTTATCTCCCTAAACAGTGGTGGAGCAGATCA
130 CTGAAGATTAAAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCG
* * ** *
15249290 AAGATGGCGAATCTTATCTGCATGTATCACCAATGGAGCAGATTTTAGCCATTAGCCTTATCTCT
1 AAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCT
** * *
15249355 CTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAAA
66 CTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGA
* *
15249420 CTGAAGATTGAAA-ATC-TATCTCCCTAAGCAGTAGTGGAGCAGATCG
130 CTGAAGATT-AAAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCG
* ** * * * * *
15249466 AATATGGTGAATATTATATTCATGTATCGGCAATGGAGCAGATGTTA-ACACTAGCCTT
1 AAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTT
15249524 TTTGAGATAG
Statistics
Matches: 506, Mismatches: 76, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
175 9 0.02
176 303 0.60
177 192 0.38
178 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (176 bp):
AAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCT
CTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
TGAAGATTAAAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCG
Found at i:15249048 original size:43 final size:43
Alignment explanation
Indices: 15248993--15249264 Score: 135
Period size: 43 Copynumber: 6.2 Consensus size: 43
15248983 AGCCACTTGC
* *
15248993 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAGT
1 CTTATCTTTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAGT
* * *
15249036 CTTATCTTTCTGAGGTAGTAAG-GAAGCAGACTGAACATTGAAGAT
1 CTTATCTTTCTGAGGTAGCAAGAG-AGCAGATTGAAGATTG-AG-T
** * * * * *
15249081 CTTATCTCCCTGAAGTTGC-AGCAGAGCAGATCGACGATGGAGAAT
1 CTTATCTTTCTGAGGTAGCAAG-AGAGCAGATTGAAGATTGAG--T
* * * * * *
15249126 CTTATC-TTCATG-TGTCGGAA-ATGGAGCAGATTTAAGCCACT-AGC
1 CTTATCTTTC-TGAGGTAGCAAGA--GAGCAGATTGAAG--ATTGAGT
* * *
15249170 CTCATCTCTT-TAAGGTAGCAAGAGAGCAGGTTGAAGATTGAGT
1 CTTATCT-TTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAGT
* * * * *
15249213 TTTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAATATTGAAGAT
1 CTTATCTTTCTGAGGTAGCAAGAGAGCAGATTGAAGATTG-AG-T
15249258 CTTATCT
1 CTTATCT
15249265 CCCTAAACAG
Statistics
Matches: 165, Mismatches: 44, Indels: 38
0.67 0.18 0.15
Matches are distributed among these distances:
42 5 0.03
43 65 0.39
44 29 0.18
45 59 0.36
46 6 0.04
47 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (43 bp):
CTTATCTTTCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAGT
Found at i:15249286 original size:353 final size:354
Alignment explanation
Indices: 15248728--15249522 Score: 1066
Period size: 353 Copynumber: 2.3 Consensus size: 354
15248718 AGCCCCAAGC
* * * * * *
15248728 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACCAAAGAT-GACAAATCTTATCTCCATGTATCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGA-GAATCTTATCTTCATGTATCGGC
* * * * ** *
15248792 AATGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAGAGTGGGTTGAATATTG
65 AATGGAGCAGATTTAAGCCACTAGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTG
*
15248857 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAACAG
130 AGTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAACAG
* ** *
15248922 TAGAAGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGGTTTTAGCC
195 TAGAAGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCACCAATGGAGCAGATTTTAGCC
15248987 ACTT-GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTT-CTGA
260 A-TTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTAT-TTTCCTGA
* * *
15249049 GGTAGTAAGGAAGCAGACTGAACATTGAAGAT
323 GGTAGCAAGGAAGCAAACTGAACATTGAAAAT
** * * *
15249081 CTTATCTCCCTGAAGTTGCAGCAGAGCAGATCGACGATGGAGAATCTTATCTTCATGTGTCGGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGAGAATCTTATCTTCATGTATCGGCA
*
15249146 ATGGAGCAGATTTAAGCCACTAGCCTCATCTCTTTAAGGTAGCAAGAGAGCAGGTTGAAGATTGA
66 ATGGAGCAGATTTAAGCCACTAGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGA
* * * * * *
15249211 GTTTTATCTTTCTGAGGTAGCAAGAAAGTAGACTGAATATTGAAGATCTTATCTCCCTAAACAGT
131 GTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAACAGT
* ** * *
15249276 GGTGGAGCAGATCAAAGATGGCGAATCTTATCTGCATGTATCACCAATGGAGCAGATTTTAGCCA
196 AGAAGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCACCAATGGAGCAGATTTTAGCCA
**
15249341 TTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATTTTCCTGAGGT
261 TTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATTTTCCTGAGGT
*
15249406 AGCAAGGAAGCAAACTGAAGATTGAAAAT
326 AGCAAGGAAGCAAACTGAACATTGAAAAT
** * * * * *
15249435 C-TATCTCCCT-AAGCAGTAGTGGAGCAGATCGAATATGGTGAATATTATATTCATGTATCGGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGAGAATCTTATCTTCATGTATCGGCA
15249498 ATGGAGCAGATGTTAA--CACTAGCCT
66 ATGGAGCAGAT-TTAAGCCACTAGCCT
15249523 TTTTGAGATA
Statistics
Matches: 384, Mismatches: 53, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
351 9 0.02
352 54 0.14
353 278 0.72
354 43 0.11
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (354 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGAGAATCTTATCTTCATGTATCGGCA
ATGGAGCAGATTTAAGCCACTAGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGA
GTCTTATCTTCCTAAGGTAGCAAGAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAACAGT
AGAAGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCACCAATGGAGCAGATTTTAGCCA
TTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATTTTCCTGAGGT
AGCAAGGAAGCAAACTGAACATTGAAAAT
Found at i:15252091 original size:6 final size:6
Alignment explanation
Indices: 15252080--15252118 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
15252070 TTGTTGTATA
* *
15252080 TTATTT TTATTT TTATTT TTATTT TT-TTT GTATTG TTAT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT
15252119 ATCAATTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:15252113 original size:17 final size:18
Alignment explanation
Indices: 15252080--15252118 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
15252070 TTGTTGTATA
* *
15252080 TTATTTTTATTTTTATTT
1 TTATTTTTATTTGTATTG
15252098 TTATTTTT-TTTGTATTG
1 TTATTTTTATTTGTATTG
15252115 TTAT
1 TTAT
15252119 ATCAATTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (18 bp):
TTATTTTTATTTGTATTG
Found at i:15267455 original size:22 final size:22
Alignment explanation
Indices: 15267402--15267478 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 22
15267392 TTTATGTTCT
15267402 TATTTTTATTTTATTTTAAAAC
1 TATTTTTATTTTATTTTAAAAC
*
15267424 TAGTTTTTATTTT-TCTTT-AAGC
1 TA-TTTTTATTTTAT-TTTAAAAC
**
15267446 GTATTTTTATTAGATTTT-AAA-
1 -TATTTTTATTTTATTTTAAAAC
15267467 -ATTTTTATTTTA
1 TATTTTTATTTTA
15267479 CAATTATCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
19 10 0.22
22 19 0.42
23 16 0.36
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (22 bp):
TATTTTTATTTTATTTTAAAAC
Found at i:15275937 original size:23 final size:23
Alignment explanation
Indices: 15275909--15275966 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
15275899 TGGCTTCGTT
*
15275909 CACAACCTACATGGTGGTTTATC
1 CACAACCTACATGGCGGTTTATC
15275932 CACAACCTACATGGCGGTTTATC
1 CACAACCTACATGGCGGTTTATC
15275955 CACAACCTACAT
1 CACAACCTACAT
15275967 AGCAGCTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (23 bp):
CACAACCTACATGGCGGTTTATC
Found at i:15275982 original size:23 final size:23
Alignment explanation
Indices: 15275909--15275974 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
15275899 TGGCTTCGTT
* ** *
15275909 CACAACCTACATGGTGGTTTATC
1 CACAACCTACATAGCAGCTTATC
* * *
15275932 CACAACCTACATGGCGGTTTATC
1 CACAACCTACATAGCAGCTTATC
15275955 CACAACCTACATAGCAGCTT
1 CACAACCTACATAGCAGCTT
15275975 GTCTACAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (23 bp):
CACAACCTACATAGCAGCTTATC
Found at i:15279614 original size:3 final size:3
Alignment explanation
Indices: 15279592--15279653 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
15279582 TCTGGGCAGT
* * ** *
15279592 AGA AGA AAA AG- AGA AAA AGA AGA CTA AG- AGA AGA A-A TGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15279637 AGA AGA A-A AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA
15279654 GAACATGGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
2 7 0.16
3 38 0.84
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:15279614 original size:17 final size:17
Alignment explanation
Indices: 15279592--15279651 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
15279582 TCTGGGCAGT
15279592 AGAAGAAAAAGAGAAAA
1 AGAAGAAAAAGAGAAAA
**
15279609 AGAAGACTAAGAGAAGAA
1 AGAAGAAAAAGAGAA-AA
*
15279627 ATGAAGAAGAAGA-AGAAA
1 A-GAAGAAAAAGAGA-AAA
15279645 AGAAGAA
1 AGAAGAA
15279652 GAGAACATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 19 0.53
18 7 0.19
19 10 0.28
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.03
Consensus pattern (17 bp):
AGAAGAAAAAGAGAAAA
Found at i:15285910 original size:18 final size:18
Alignment explanation
Indices: 15285889--15285924 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15285879 AATTTTCATC
*
15285889 TTTTT-TTATTTATTAAA
1 TTTTTATTATTTATCAAA
15285906 TTTTTATTATTTATCAAA
1 TTTTTATTATTTATCAAA
15285924 T
1 T
15285925 CACCTCAAAA
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:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATTATTTATCAAA
Found at i:15294091 original size:11 final size:11
Alignment explanation
Indices: 15294077--15294122 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
15294067 TTTCGATTTC
15294077 TTTTTATAATT
1 TTTTTATAATT
*
15294088 TTTTTACAATT
1 TTTTTATAATT
*
15294099 TTTTT-TTA-T
1 TTTTTATAATT
15294108 TTTTTATAATAT
1 TTTTTATAAT-T
15294120 TTT
1 TTT
15294123 GAAGGTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
9 6 0.21
10 3 0.11
11 15 0.54
12 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:15301131 original size:18 final size:16
Alignment explanation
Indices: 15301099--15301136 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
15301089 GAGGTGAGAG
15301099 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
15301115 AAAATAAAAACTAAAATA
1 AAAAT-AAAA-TAAAATA
15301133 AAAA
1 AAAA
15301137 AATTACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 4 0.20
18 11 0.55
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:15307747 original size:49 final size:49
Alignment explanation
Indices: 15307691--15307884 Score: 253
Period size: 49 Copynumber: 3.9 Consensus size: 49
15307681 TAGACAAGGC
* * *
15307691 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * *
15307740 TATCTGGTACACGTAGTAGCCTGTACTTAGCACTATACACGTGGCCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * ** *
15307790 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACTTGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
15307839 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
15307885 TCACAATAGA
Statistics
Matches: 120, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
49 81 0.68
50 39 0.32
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:15308151 original size:27 final size:27
Alignment explanation
Indices: 15308111--15308164 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
15308101 AGGTACAACC
* *
15308111 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
15308138 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
15308165 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:15310525 original size:10 final size:10
Alignment explanation
Indices: 15310502--15310536 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
15310492 AATAGACATT
15310502 AAAATAAATA
1 AAAATAAATA
*
15310512 AAAACAAAATA
1 AAAA-TAAATA
15310523 AAAATAAATA
1 AAAATAAATA
15310533 AAAA
1 AAAA
15310537 GTATACAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (10 bp):
AAAATAAATA
Found at i:15311336 original size:52 final size:49
Alignment explanation
Indices: 15311145--15311500 Score: 165
Period size: 51 Copynumber: 7.0 Consensus size: 49
15311135 TCGAAATAGT
* * *
15311145 TTAAAAAAATCAGAACTTTATTTTAAAATTTTAAAC-TTTCCTTTAAAATGA
1 TTAAAAAAAACA-AAATTTTTTTTAAAA-TTTAAACTTTTCCTTTAAAAT-A
** * *
15311196 CTT-AAAAAAACATATTTTTATTTTTCAAAATCTAAACTTTTTACCTTT----TT
1 -TTAAAAAAAACA-AAATTT-TTTTT-AAAATTTAAAC-TTTT-CCTTTAAAATA
* ** * * * *
15311246 TTAAAAAAAATATTATTTTTATTAAAGATTGAAGCTTTTCCTTTGAAATA
1 TTAAAAAAAACAAAATTTTTTTTAAA-ATTTAAACTTTTCCTTTAAAATA
* *
15311296 GTTAAAAAAATCAAAATTTTGTGTTAAAATTTTAAACTTTT-CTTTAAAATTA
1 -TTAAAAAAAACAAAATTTT-TTTTAAAA-TTTAAACTTTTCCTTTAAAA-TA
* * * ** *
15311348 CTAAAAAAAACAAAATATTATTTTTTAAAATCTAAAC-TCTCCTTTTTTATTA
1 TTAAAAAAAAC-AAA-ATT-TTTTTTAAAATTTAAACTTTTCC-TTTAAAATA
* * * * ** *
15311400 TTAAAAAAAACACAATTTTTCTTAAGGA-TTAAAGCTTTTACTTTGTACTA
1 TTAAAAAAAACAAAATTTTTTTTAA-AATTTAAA-CTTTTCCTTTAAAATA
*
15311450 GTTAAAAAAAATCAAAACTTTATTTTAAAATTTAAAC-TTTCCTTTAAAATA
1 -TTAAAAAAAA-CAAAA-TTTTTTTTAAAATTTAAACTTTTCCTTTAAAATA
15311501 ACTGAAAAAA
Statistics
Matches: 229, Mismatches: 48, Indels: 55
0.69 0.14 0.17
Matches are distributed among these distances:
46 5 0.02
47 7 0.03
48 9 0.04
49 17 0.07
50 21 0.09
51 72 0.31
52 57 0.25
53 31 0.14
54 5 0.02
55 5 0.02
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (49 bp):
TTAAAAAAAACAAAATTTTTTTTAAAATTTAAACTTTTCCTTTAAAATA
Found at i:15312121 original size:40 final size:40
Alignment explanation
Indices: 15312066--15312147 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
15312056 AAAACAAAAT
15312066 TATCCAAATAATTATTTTATTGTACTTTTAAATAAGATAA
1 TATCCAAATAATTATTTTATTGTACTTTTAAATAAGATAA
15312106 TATCCAAATAATTATTTTATTGTACTTTTAAATAAGATAA
1 TATCCAAATAATTATTTTATTGTACTTTTAAATAAGATAA
15312146 TA
1 TA
15312148 AAATAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (40 bp):
TATCCAAATAATTATTTTATTGTACTTTTAAATAAGATAA
Found at i:15317520 original size:29 final size:27
Alignment explanation
Indices: 15317502--15317571 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
15317492 ATATTAAGTC
15317502 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
15317529 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
15317557 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
15317572 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:15317565 original size:28 final size:28
Alignment explanation
Indices: 15317502--15317599 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
15317492 ATATTAAGTC
*
15317502 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15317529 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15317557 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15317586 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15317600 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15325626 original size:29 final size:27
Alignment explanation
Indices: 15325608--15325677 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
15325598 ATATTAAGTC
15325608 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
15325635 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
15325663 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
15325678 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:15325671 original size:28 final size:28
Alignment explanation
Indices: 15325608--15325705 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
15325598 ATATTAAGTC
*
15325608 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
15325635 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15325663 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
15325692 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15325706 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15326163 original size:2 final size:2
Alignment explanation
Indices: 15326156--15326187 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
15326146 CATACTTGTG
*
15326156 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15326188 CTTCGGAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15331319 original size:7 final size:8
Alignment explanation
Indices: 15331302--15331326 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15331292 CTATCTGTGC
15331302 AAAAATAA
1 AAAAATAA
15331310 AAAAATAA
1 AAAAATAA
15331318 AAAAATAA
1 AAAAATAA
15331326 A
1 A
15331327 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:15335755 original size:7 final size:8
Alignment explanation
Indices: 15335738--15335762 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15335728 CCAATTTGTG
15335738 AAAAATAA
1 AAAAATAA
15335746 AAAAATAA
1 AAAAATAA
15335754 AAAAATAA
1 AAAAATAA
15335762 A
1 A
15335763 GAACACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:15336595 original size:14 final size:14
Alignment explanation
Indices: 15336578--15336607 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15336568 AATTATTAAA
*
15336578 TATAATTAATTTTT
1 TATAATTAATTCTT
15336592 TATAATTAATTCTT
1 TATAATTAATTCTT
15336606 TA
1 TA
15336608 GTCCTGGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TATAATTAATTCTT
Found at i:15337813 original size:20 final size:19
Alignment explanation
Indices: 15337774--15337825 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
15337764 CTCTTGTATC
*
15337774 TCTT-TTTCTTTTTCTTTT
1 TCTTCTTTCTCTTTCTTTT
15337792 TCCTTCTTT-TCTTTCATTTT
1 T-CTTCTTTCTCTTTC-TTTT
15337812 TCTTCTTTCTCTTT
1 TCTTCTTTCTCTTT
15337826 TTCTTTTACG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 1 0.03
19 15 0.52
20 13 0.45
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (19 bp):
TCTTCTTTCTCTTTCTTTT
Found at i:15337862 original size:13 final size:13
Alignment explanation
Indices: 15337844--15337880 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
15337834 CGTACCTCTG
15337844 TCTTCATCTTTCT
1 TCTTCATCTTTCT
15337857 TCTTCA-C--TCT
1 TCTTCATCTTTCT
15337867 TCTTCATCTTTCT
1 TCTTCATCTTTCT
15337880 T
1 T
15337881 GGTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
12 1 0.05
13 10 0.48
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTCATCTTTCT
Found at i:15346402 original size:6 final size:6
Alignment explanation
Indices: 15346391--15346426 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
15346381 ATCTATTTGG
15346391 TTTTTA TTTTTA TTTTTA TTATTTA TATTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TT-TTTA T-TTTTA TTTT
15346427 GTAACAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 17 0.61
7 10 0.36
8 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:15356190 original size:27 final size:27
Alignment explanation
Indices: 15356130--15356190 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
15356120 GAACACAGTG
* *
15356130 AACGACAGTGAATGGTGAATGACAACG
1 AACGACAGTGAATGGTGAACGACAACA
* *
15356157 AATGACAGTGAATGGTGAACGACAGCA
1 AACGACAGTGAATGGTGAACGACAACA
15356184 AACGACA
1 AACGACA
15356191 ATGATATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.28, T:0.13
Consensus pattern (27 bp):
AACGACAGTGAATGGTGAACGACAACA
Found at i:15356296 original size:17 final size:17
Alignment explanation
Indices: 15356276--15356315 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
15356266 AAAAGGGAAG
** *
15356276 AAAAGAAAGGAAAATGA
1 AAAAGAAAAAAAAAAGA
15356293 AAAAGAAAAAAAAAAGA
1 AAAAGAAAAAAAAAAGA
15356310 AAAAGA
1 AAAAGA
15356316 GGTACAAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAAAAAAGA
Found at i:15359091 original size:14 final size:14
Alignment explanation
Indices: 15359074--15359104 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15359064 TTTCGGATGA
*
15359074 ATGGGTGCAATAAT
1 ATGGCTGCAATAAT
15359088 ATGGCTGCAATAAT
1 ATGGCTGCAATAAT
15359102 ATG
1 ATG
15359105 TAGCCACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (14 bp):
ATGGCTGCAATAAT
Found at i:15359813 original size:21 final size:19
Alignment explanation
Indices: 15359765--15359824 Score: 93
Period size: 19 Copynumber: 3.1 Consensus size: 19
15359755 CTATCTGAAC
15359765 TAAACTTTAATAAATATAT
1 TAAACTTTAATAAATATAT
*
15359784 TAAAGTTTAATAAATATAT
1 TAAACTTTAATAAATATAT
15359803 GTAAAACTTTAATAAATATAT
1 -T-AAACTTTAATAAATATAT
15359824 T
1 T
15359825 TCATGTGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.49
20 2 0.05
21 17 0.46
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
TAAACTTTAATAAATATAT
Found at i:15363357 original size:20 final size:20
Alignment explanation
Indices: 15363315--15363362 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
15363305 AACCGATAAA
*
15363315 ATCAATACCAAGATAAAATT
1 ATCAATACCAAGATAAAAGT
*
15363335 ATCGATACCAA-ATAAAAGGT
1 ATCAATACCAAGATAAAA-GT
15363355 ATCAATAC
1 ATCAATAC
15363363 TTAATGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.52, C:0.17, G:0.08, T:0.23
Consensus pattern (20 bp):
ATCAATACCAAGATAAAAGT
Found at i:15363961 original size:33 final size:33
Alignment explanation
Indices: 15363917--15363981 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
15363907 TGTAATTTTC
15363917 ATTTCAATGTTTTCAACTATCTTATATTCTCTA
1 ATTTCAATGTTTTCAACTATCTTATATTCTCTA
* * * *
15363950 ATTTCAGTGTTTTCAATTATTTTATTTTCTCT
1 ATTTCAATGTTTTCAACTATCTTATATTCTCT
15363982 CCATTCAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (33 bp):
ATTTCAATGTTTTCAACTATCTTATATTCTCTA
Found at i:15366140 original size:15 final size:15
Alignment explanation
Indices: 15366116--15366154 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
15366106 TATAATTTAT
15366116 TAAATAAAAATATTC
1 TAAATAAAAATATTC
* *
15366131 TAAATTAAAATATTT
1 TAAATAAAAATATTC
*
15366146 TTAATAAAA
1 TAAATAAAA
15366155 TACTTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATAAAAATATTC
Found at i:15366334 original size:31 final size:32
Alignment explanation
Indices: 15366299--15366360 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
15366289 TCATAAACTT
* *
15366299 ATAAATTGATTACTTGAA-TTAATAACTCATG
1 ATAAATTAATTAATTGAATTTAATAACTCATG
* *
15366330 ATAAATTAATTAATTTAATTTGATAACTCAT
1 ATAAATTAATTAATTGAATTTAATAACTCAT
15366361 ATTGATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCATG
Found at i:15374856 original size:13 final size:13
Alignment explanation
Indices: 15374838--15374863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15374828 TTTCAAGTTT
15374838 TTTTTAATTAATA
1 TTTTTAATTAATA
15374851 TTTTTAATTAATA
1 TTTTTAATTAATA
15374864 AATCTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTAATTAATA
Found at i:15374881 original size:17 final size:16
Alignment explanation
Indices: 15374839--15374883 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 16
15374829 TTCAAGTTTT
15374839 TTTTAATTAAT--AT-
1 TTTTAATTAATAAATC
15374852 TTTTAATTAATAAATC
1 TTTTAATTAATAAATC
*
15374868 TTTTATTTATATAAAT
1 TTTTAATTA-ATAAAT
15374884 AAAATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 11 0.41
15 2 0.07
16 8 0.30
17 6 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAATTAATAAATC
Found at i:15374952 original size:98 final size:97
Alignment explanation
Indices: 15374847--15375049 Score: 293
Period size: 98 Copynumber: 2.1 Consensus size: 97
15374837 TTTTTTAATT
* * *
15374847 AATATTTTTAATTAATAAATCTTTTATTTATATAAATAAAATTAATTA-TATGTAATTATATAAT
1 AATATTTTTAATTAATAAATCCTTTATTTATATAAA-AAAATTAATAATTATATAATTATATAAT
15374911 -AAAATATCTATTTTAAATATATCATTATGTTAAA
65 AAAAATAT-T-TTTTAAATATATCATTATGTTAAA
**
15374945 AATATTTTTAATTAATAGCTCCTTTATTTATATAAAAAAATTAATAATTATATAATTATATAATA
1 AATATTTTTAATTAATAAATCCTTTATTTATATAAAAAAATTAATAATTATATAATTATATAATA
* *
15375010 AAAATATTTTTTATATTTATCATTATGTTAAA
66 AAAATATTTTTTAAATATATCATTATGTTAAA
*
15375042 TATATTTT
1 AATATTTT
15375050 ATTTTTTAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
97 39 0.41
98 49 0.52
99 7 0.07
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (97 bp):
AATATTTTTAATTAATAAATCCTTTATTTATATAAAAAAATTAATAATTATATAATTATATAATA
AAAATATTTTTTAAATATATCATTATGTTAAA
Found at i:15383990 original size:5 final size:5
Alignment explanation
Indices: 15383980--15384008 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
15383970 AGATGAATTA
15383980 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
15384009 ACTTGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:15383997 original size:99 final size:98
Alignment explanation
Indices: 15383820--15384004 Score: 223
Period size: 99 Copynumber: 1.9 Consensus size: 98
15383810 TTTTTAATTT
* * * **
15383820 ATTATATATTTATATATTTATTTATATAAATAAAGGAGTTATTAATTAAAAATATTTTTAACATA
1 ATTACATATTTATATATTTATTTATATAAATAAAAGAGTTATTAATTAAAAAGATAATTAACATA
* * *
15383885 ATGACATATATAAAATATAAATTTTTATTAAATA
66 ATAAAATAAATAAAATA-AAATTTTTATTAAATA
* *
15383919 ATTACATATTTAT-TATTTTATTTATATAGATAAAAGAGTTATTAGTTAAAAAGATGAATTAA-A
1 ATTACATATTTATATA-TTTATTTATATAAATAAAAGAGTTATTAATTAAAAAGAT-AATTAACA
15383982 -AATAAAATAAAATAAAATAAAAT
64 TAATAAAAT-AAATAAAATAAAAT
15384005 AAAAACTTGA
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
98 12 0.16
99 57 0.78
100 4 0.05
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (98 bp):
ATTACATATTTATATATTTATTTATATAAATAAAAGAGTTATTAATTAAAAAGATAATTAACATA
ATAAAATAAATAAAATAAAATTTTTATTAAATA
Found at i:15392596 original size:46 final size:46
Alignment explanation
Indices: 15392546--15392721 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
15392536 TGGTTGAGCA
*
15392546 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
15392592 TCCGAGCTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGT-AACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA-T--G
* * *
15392637 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
15392685 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15392722 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
45 1 0.01
46 62 0.56
47 28 0.25
48 1 0.01
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:15392702 original size:93 final size:93
Alignment explanation
Indices: 15392543--15392713 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
15392533 GGATGGTTGA
* * * *
15392543 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGCTCGTTGAGT
15392608 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
15392636 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGCTCGTTGAGT
15392701 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
15392714 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:15393028 original size:46 final size:46
Alignment explanation
Indices: 15392975--15393147 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
15392965 TTGGGCATCT
*
15392975 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
* * * *
15393021 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCGTCC
* * *
15393068 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
* *
15393114 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15393148 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 63 0.59
47 32 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
Done.