Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 291 of 444
Found at i:84106804 original size:25 final size:25
Alignment explanation
Indices: 84106772--84106819 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84106762 ATACATAAAC
* * *
84106772 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
84106797 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
84106820 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:84108077 original size:27 final size:27
Alignment explanation
Indices: 84108057--84108403 Score: 385
Period size: 27 Copynumber: 12.9 Consensus size: 27
84108047 AGGGTATTTT
*
84108057 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
84108084 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
84108111 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
84108138 AGTAATTCTATAAATCGATGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
84108165 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
84108192 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
84108219 -GATAATTATGTAAATCTAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
84108246 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
84108273 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
84108300 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
84108327 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
84108354 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
84108381 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
84108404 CTTTGGTAAT
Statistics
Matches: 287, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.01
27 280 0.98
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:84108414 original size:81 final size:81
Alignment explanation
Indices: 84108057--84108403 Score: 430
Period size: 81 Copynumber: 4.3 Consensus size: 81
84108047 AGGGTATTTT
* * ** * * * * *
84108057 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTGT
1 AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
*
84108122 AAATCAAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * *
84108138 AGTAATTCTATAAATCGATGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGT
1 AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
84108203 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * *
84108219 -GATAATTATGTAAATCTAGGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCT
1 AG-TAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCT
*
84108282 ATAAATCGAGGGTAAAAT
64 ATAAATCGAGGGTAAAAC
* * *
84108300 AGTAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTA
1 AGTAATTCTATAAATC-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTA
*
84108364 CAAATCGAGGGTAAAAC
65 TAAATCGAGGGTAAAAC
*
84108381 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
84108404 CTTTGGTAAT
Statistics
Matches: 230, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.01
81 224 0.97
82 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
AAATCGAGGGTAAAAC
Found at i:84108440 original size:27 final size:27
Alignment explanation
Indices: 84108410--84108474 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
84108400 GGTACTTTGG
84108410 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
84108437 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
84108464 TAATTTCACAA
1 TAATTTTACAA
84108475 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:84108441 original size:81 final size:81
Alignment explanation
Indices: 84108095--84108457 Score: 286
Period size: 81 Copynumber: 4.5 Consensus size: 81
84108085 GTAATTTTGT
* * ** * *
84108095 AAATCAAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAA-TCGATGG
1 AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACT-GAGGG
**
84108159 TAAAATGGTAATTCTGT
65 TAAAATGGTAATTCTAC
*** * ** * *
84108176 AAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATCT-AGG
1 AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAG-TAATTCTATAAA-CTGAGG
* **
84108239 GTAAAATGGTAATTATGT
64 GTAAAATGGTAATTCTAC
* ** * * * *
84108257 AAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGG
1 AAATCGA-GGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGG
*
84108321 TAAAATGGTAATTCTAT
65 TAAAATGGTAATTCTAC
** *
84108338 AAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAA-TCGAGGG
1 AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACT-GAGGG
*** *
84108402 TACTTTGGTAATTTTAC
65 TAAAATGGTAATTCTAC
* *** **
84108419 AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTA
1 AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTA
84108458 TTTCAGTAAT
Statistics
Matches: 239, Mismatches: 35, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
80 5 0.02
81 231 0.97
82 2 0.01
83 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
AAATCGAGGGTAAAACAATAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGT
AAAATGGTAATTCTAC
Found at i:84108483 original size:27 final size:27
Alignment explanation
Indices: 84108453--84108584 Score: 210
Period size: 27 Copynumber: 4.9 Consensus size: 27
84108443 TACAGGTCGA
** * *
84108453 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
84108480 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
84108507 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
84108534 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
84108561 GGGTATTTTGGTAATTTTATAAAC
1 GGGTATTTTGGTAATTTTACAAAC
84108585 CAAAGTATTT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:84108538 original size:81 final size:82
Alignment explanation
Indices: 84108399--84108584 Score: 225
Period size: 81 Copynumber: 2.3 Consensus size: 82
84108389 TATAAATCGA
* * * ** *
84108399 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTCA
*
84108463 GTAATTTCACAAATTAG
66 GTAATTTCACAAACTAG
** *
84108480 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTCAATAATTTTAC-AACTAGAGGGTATTTC
* *
84108543 GGTAATTTTACAAACTAG
65 AGTAATTTCACAAACTAG
*
84108561 GGGTATTTTGGTAATTTTATAAAC
1 GGGTATTTTGGTAATTTTACAAAC
84108585 CAAAGTATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 83 0.92
82 7 0.08
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (82 bp):
GGGTATTTTGGTAATTTTACAAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTCA
GTAATTTCACAAACTAG
Found at i:84112460 original size:43 final size:42
Alignment explanation
Indices: 84112412--84112558 Score: 186
Period size: 43 Copynumber: 3.4 Consensus size: 42
84112402 TATCCCATAT
**
84112412 ATGGTCTTACATGTTTTCATATACCGATGCCAACGTCCCAGAC
1 ATGGTCTTACATGTAATCATATA-CGATGCCAACGTCCCAGAC
* * * *
84112455 GTGGTCTTACACGAAATCATATAACGATGCCAACATCCCAGAC
1 ATGGTCTTACATGTAATCATAT-ACGATGCCAACGTCCCAGAC
* * *
84112498 ATGGTCTTACATGTAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCA-TATACGATGCCAACGTCCCAGAC
84112541 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGTAATC
84112559 TCATCTCGAT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 86 0.97
44 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCATATACGATGCCAACGTCCCAGAC
Found at i:84122734 original size:7 final size:7
Alignment explanation
Indices: 84122722--84122746 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
84122712 AGGGTTTGGA
84122722 TTTTTAT
1 TTTTTAT
84122729 TTTTTAT
1 TTTTTAT
84122736 TTTTTAT
1 TTTTTAT
84122743 TTTT
1 TTTT
84122747 ATTCGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:84128691 original size:13 final size:13
Alignment explanation
Indices: 84128673--84128712 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
84128663 CGTGTTAGTG
*
84128673 CACACGGCCGTGT
1 CACACGACCGTGT
*
84128686 CACACGACCATGT
1 CACACGACCGTGT
*
84128699 CCCACGACCGTGT
1 CACACGACCGTGT
84128712 C
1 C
84128713 CTACTTCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.20, C:0.42, G:0.23, T:0.15
Consensus pattern (13 bp):
CACACGACCGTGT
Found at i:84128840 original size:55 final size:55
Alignment explanation
Indices: 84128751--84128878 Score: 152
Period size: 55 Copynumber: 2.3 Consensus size: 55
84128741 GTATATAGGT
* * * *
84128751 GCACGCCCATGTTGTTTTATCAGTCTTGAGCACGGATGT-TGGGCACGGGCGTGTC
1 GCACGCCCATGTTGTTTTATCAGTCTTAACCACGGAT-TCTAGACACGGGCGTGTC
* *
84128806 GCACGCCCATGTTGTTTTCTCAGT-TTCAACCACGGCTTCTAGACACGGGCGTGTC
1 GCACGCCCATGTTGTTTTATCAGTCTT-AACCACGGATTCTAGACACGGGCGTGTC
* *
84128861 GCACGCTCGTGTTGTTTT
1 GCACGCCCATGTTGTTTT
84128879 GACAGATTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 3 0.05
55 60 0.95
ACGTcount: A:0.14, C:0.27, G:0.28, T:0.31
Consensus pattern (55 bp):
GCACGCCCATGTTGTTTTATCAGTCTTAACCACGGATTCTAGACACGGGCGTGTC
Found at i:84128908 original size:55 final size:54
Alignment explanation
Indices: 84128792--84128900 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 54
84128782 ACGGATGTTG
* * *
84128792 GGCACGGGCGTGTCGCACGCCCATGTTGTTTTCTCAGTTTCAACCACGGCTTCTA
1 GGCACGGGCGTGTCGCACGCCCATGTTGTTTTCACAGATTCAACCACGGC-TCAA
* * * * *
84128847 GACACGGGCGTGTCGCACGCTCGTGTTGTTTTGACAGATTCACCCACGGC-CAA
1 GGCACGGGCGTGTCGCACGCCCATGTTGTTTTCACAGATTCAACCACGGCTCAA
84128900 G
1 G
84128901 TCGCACGGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.07
55 43 0.93
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.26
Consensus pattern (54 bp):
GGCACGGGCGTGTCGCACGCCCATGTTGTTTTCACAGATTCAACCACGGCTCAA
Found at i:84132960 original size:22 final size:23
Alignment explanation
Indices: 84132896--84132962 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
84132886 TCTCCGATTA
*
84132896 TTAGCACA-TTAGTGCTCTCCGT
1 TTAGCACATTTAGTGCTCTCTGT
*
84132918 TTAGCACATTCA-TGCTCTCTGT
1 TTAGCACATTTAGTGCTCTCTGT
* *
84132940 TTAGTAC-TTTAGTGCTATCTGT
1 TTAGCACATTTAGTGCTCTCTGT
84132962 T
1 T
84132963 CATTAGTGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 3 0.08
22 33 0.87
23 2 0.05
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (23 bp):
TTAGCACATTTAGTGCTCTCTGT
Found at i:84134271 original size:75 final size:74
Alignment explanation
Indices: 84134143--84134969 Score: 751
Period size: 75 Copynumber: 11.1 Consensus size: 74
84134133 GTTACAGTTA
* * ** * * *
84134143 TCTAATAGCTCGCTGACATAAATTCACAGTTGATATTTTTATGGTCCACTGATTTAAGATCACGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
** *
84134208 CTATCGATTT
65 CCCTCGGTTT
* * * * * *
84134218 TCTAACAGCTCGCTGACCTACATTCGCAACTGATATTTTTGCGGCTCATTGATTTAAGATCGTGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGG-TCACTGATTTAAGATCGCGA
* *
84134283 CCATCGGCTT
65 CCCTCGGTTT
* * ** * * * *
84134293 TCTAATAGCTCGATGACCTACGTTCGTAGCTGATTTTTTTACGGTCTCCTAATTTAAGATTGCGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGTC-ACTGATTTAAGATCGCGA
*
84134358 CCATCGGTTT
65 CCCTCGGTTT
* * *
84134368 T-TAACAGCTCGCTGACCTACGTTCCCAGTTGATATTTTTACGGTCCGCTGATTTAAGATCGCGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
84134432 CCCTCGGTTT
65 CCCTCGGTTT
* * *
84134442 TCTAATAGCTCGCTGACCTACGTTCACAGCTGATATTTTTAGGGTCTGCTGATTTAAGATCGCGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGTC-ACTGATTTAAGATCGCGA
*
84134507 CCCTCGATTT
65 CCCTCGGTTT
* ** * * * * * *
84134517 TCTAACAACTTTCTAACCTACGTTCACAGTTGATACTTTTATGGTCCATTGATTTAAGATCACGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
*
84134582 CCCTTGGTTT
65 CCCTCGGTTT
* * *
84134592 TCTAACAGCTCGTTGACCTACGTTCACAGCTGATATTTTTATGGTTCGCTGATTTAAGATCGCGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGG-TCACTGATTTAAGATCGCGA
***
84134657 -CCTATTTTT
65 CCCTCGGTTT
* * * * ** *
84134666 CTCTAATAGCTCGCTGACCTATGTTCACAGCTGATATTTTTATGATCTGTTGATTTAAGATCACG
1 -TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGTC-ACTGATTTAAGATCGCG
*
84134731 ACCCTCGATTT
64 ACCCTCGGTTT
* * * * * * *
84134742 TCTAACAGCTTGTTGACTTACATTCACAGTTGATATTTTTACGGTCCGCTGATTTAAGATCACGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
**
84134807 CCCTCAATTT
65 CCCTCGGTTT
* * * * ** * *
84134817 TCTAATAGCTC-CATGACCTACATTTACGGCTGATATTTTTATAGTCATTGATTTAATATCGCGA
1 TCTAACAGCTCGC-TGACCTACGTTCACAGCTGATATTTTTACGGTCACTGATTTAAGATCGCGA
* *
84134881 CCTTTGGTTT
65 CCCTCGGTTT
* * * * * * *
84134891 TCTAACAGCTCGTTGACCTACGTTCACAGGTGAGATTTTTATGGTCCGCTTATTTAATATCGCGA
1 TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGT-CACTGATTTAAGATCGCGA
* *
84134956 CCCTTGATTT
65 CCCTCGGTTT
84134966 TCTA
1 TCTA
84134970 GCAATTTGCT
Statistics
Matches: 620, Mismatches: 118, Indels: 28
0.81 0.15 0.04
Matches are distributed among these distances:
74 130 0.21
75 480 0.77
76 10 0.02
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.37
Consensus pattern (74 bp):
TCTAACAGCTCGCTGACCTACGTTCACAGCTGATATTTTTACGGTCACTGATTTAAGATCGCGAC
CCTCGGTTT
Found at i:84134591 original size:150 final size:150
Alignment explanation
Indices: 84134165--84134969 Score: 893
Period size: 150 Copynumber: 5.4 Consensus size: 150
84134155 CTGACATAAA
* * * **
84134165 TTCACAGTTGATATTTTTATGGTCCACTGATTTAAGATCACGACTATCGATTTTCTAACAGCTCG
1 TTCACAGCTGATATTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAACAGCTCG
* * * ** * * *
84134230 CTGACCTACATTCGCAACTGATATTTTTGCGG-CTCATTGATTTAAGATCGTGACCATCGGCTTT
66 CTGACCTACGTTCACAGCTGATATTTTTATGGTC-CATTGATTTAAGATCGCGACCCTCGGTTTT
* *
84134294 CTAATAGCTCGATGACCTACG
130 CTAACAGCTCGTTGACCTACG
** * * * * * *
84134315 TTCGTAGCTGATTTTTTTACGGTCTC-CTAATTTAAGATTGCGACCATCGGTTTT-TAACAGCTC
1 TTCACAGCTGATATTTTTATGGTC-CGCTGATTTAAGATCGCGACCCTCGATTTTCTAACAGCTC
* * * **
84134378 GCTGACCTACGTTCCCAGTTGATATTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGGTTTT
65 GCTGACCTACGTTCACAGCTGATATTTTTATGGTCCATTGATTTAAGATCGCGACCCTCGGTTTT
* *
84134443 CTAATAGCTCGCTGACCTACG
130 CTAACAGCTCGTTGACCTACG
* * * **
84134464 TTCACAGCTGATATTTTTAGGGTCTGCTGATTTAAGATCGCGACCCTCGATTTTCTAACAACTTT
1 TTCACAGCTGATATTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAACAGCTCG
* * * * *
84134529 CTAACCTACGTTCACAGTTGATACTTTTATGGTCCATTGATTTAAGATCACGACCCTTGGTTTTC
66 CTGACCTACGTTCACAGCTGATATTTTTATGGTCCATTGATTTAAGATCGCGACCCTCGGTTTTC
84134594 TAACAGCTCGTTGACCTACG
131 TAACAGCTCGTTGACCTACG
* *** *
84134614 TTCACAGCTGATATTTTTATGGTTCGCTGATTTAAGATCGCGA-CCTATTTTTCTCTAATAGCTC
1 TTCACAGCTGATATTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGATTT-TCTAACAGCTC
* * ** * *
84134678 GCTGACCTATGTTCACAGCTGATATTTTTATGATCTGTTGATTTAAGATCACGACCCTCGATTTT
65 GCTGACCTACGTTCACAGCTGATATTTTTATGGTCCATTGATTTAAGATCGCGACCCTCGGTTTT
* * *
84134743 CTAACAGCTTGTTGACTTACA
130 CTAACAGCTCGTTGACCTACG
* * * * *
84134764 TTCACAGTTGATATTTTTACGGTCCGCTGATTTAAGATCACGACCCTCAATTTTCTAATAGCTC-
1 TTCACAGCTGATATTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAACAGCTCG
* * * * * * *
84134828 CATGACCTACATTTACGGCTGATATTTTTATAGT-CATTGATTTAATATCGCGACCTTTGGTTTT
66 C-TGACCTACGTTCACAGCTGATATTTTTATGGTCCATTGATTTAAGATCGCGACCCTCGGTTTT
84134892 CTAACAGCTCGTTGACCTACG
130 CTAACAGCTCGTTGACCTACG
* * * * *
84134913 TTCACAGGTGAGATTTTTATGGTCCGCTTATTTAATATCGCGACCCTTGATTTTCTA
1 TTCACAGCTGATATTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTA
84134970 GCAATTTGCT
Statistics
Matches: 552, Mismatches: 96, Indels: 15
0.83 0.14 0.02
Matches are distributed among these distances:
149 223 0.40
150 322 0.58
151 7 0.01
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (150 bp):
TTCACAGCTGATATTTTTATGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAACAGCTCG
CTGACCTACGTTCACAGCTGATATTTTTATGGTCCATTGATTTAAGATCGCGACCCTCGGTTTTC
TAACAGCTCGTTGACCTACG
Found at i:84135964 original size:14 final size:14
Alignment explanation
Indices: 84135945--84135984 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
84135935 TATCCTTTAG
*
84135945 AAAAAATATTTTTT
1 AAAAAATAATTTTT
84135959 AAAAAATAATTTTT
1 AAAAAATAATTTTT
*
84135973 -ATAAATAATTTT
1 AAAAAATAATTTT
84135985 ATTTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAAAATAATTTTT
Found at i:84135970 original size:15 final size:15
Alignment explanation
Indices: 84135940--84136000 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 15
84135930 TAATTTATCC
*
84135940 TTTAGAAAAAATATT
1 TTTATAAAAAATATT
84135955 TTT-TAAAAAATAATT
1 TTTATAAAAAAT-ATT
*
84135970 TTTATAAATAATTTTATT
1 TTTATAAA-AA--ATATT
84135988 TTTATATAAAAAT
1 TTTATA-AAAAAT
84136001 TAATTTCAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
14 7 0.19
15 9 0.24
16 5 0.14
17 2 0.05
18 11 0.30
19 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TTTATAAAAAATATT
Found at i:84136006 original size:18 final size:18
Alignment explanation
Indices: 84135958--84136006 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
84135948 AAATATTTTT
*
84135958 TAAAAAATAATTTTTATA
1 TAAAAATTAATTTTTATA
* *
84135976 -AATAATTTTATTTTTATA
1 TAA-AAATTAATTTTTATA
84135994 TAAAAATTAATTT
1 TAAAAATTAATTT
84136007 CAACCAACCA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAAAATTAATTTTTATA
Found at i:84136258 original size:14 final size:14
Alignment explanation
Indices: 84136185--84136265 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 14
84136175 AATATTCTTA
*
84136185 AAATA-TTATTAA-
1 AAATATTTAATAAT
84136197 AAATATTT-AT-AT
1 AAATATTTAATAAT
84136209 AAATATTTAATAAT
1 AAATATTTAATAAT
*
84136223 AAATATATTTTACAATTTAT
1 -AA-ATA-TTT--AA-TAAT
84136243 AAATATTTAATAAT
1 AAATATTTAATAAT
*
84136257 AAATTTTTA
1 AAATATTTA
84136266 GAGTATAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
11 1 0.02
12 14 0.25
13 4 0.07
14 13 0.24
15 4 0.07
16 3 0.05
17 6 0.11
18 3 0.05
19 4 0.07
20 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATATTTAATAAT
Found at i:84136474 original size:26 final size:27
Alignment explanation
Indices: 84136408--84136474 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 27
84136398 TTGCTGATAA
84136408 AAAAGTAAATATTACTATAATATTTTAT
1 AAAAGTAAAT-TTACTATAATATTTTAT
* * *
84136436 AATAAATATATTTA-TAT-TTATTTTATT
1 AA-AAGTAAATTTACTATAATATTTTA-T
84136463 AAAAGTAAATTT
1 AAAAGTAAATTT
84136475 TTTAAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 15 0.47
27 6 0.19
28 5 0.16
29 6 0.19
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (27 bp):
AAAAGTAAATTTACTATAATATTTTAT
Found at i:84142851 original size:128 final size:129
Alignment explanation
Indices: 84142599--84142857 Score: 394
Period size: 129 Copynumber: 2.0 Consensus size: 129
84142589 AGATATTCTT
* * * *
84142599 TCCTTAGTTGATTCAATGTTGCATGTATATATAGTTGTACATATTTGTAAGAAATACATACATTG
1 TCCTTAATTGATTCAATGCTACATGTATATATAGTTGTACATATTTATAAGAAATACATACATTG
*
84142664 AGAGAATTTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGTTATCAGATTTTTA
66 AGAGAATTTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGGTATCAGATTTTTA
* * * * *
84142728 TCCTTAATTGATTCGATGCTACATGTATATATAGTTGTATATATTTATTAGAAATATATACTTTG
1 TCCTTAATTGATTCAATGCTACATGTATATATAGTTGTACATATTTATAAGAAATACATACATTG
* * *
84142793 AGAG-TTTTTTCTTCAATACATTAGAGTATTCATCTCTAATTTTATCATGGTATCAGATTTTTA
66 AGAGAATTTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGGTATCAGATTTTTA
84142856 TC
1 TC
84142858 TAATTTTTGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
128 57 0.49
129 60 0.51
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (129 bp):
TCCTTAATTGATTCAATGCTACATGTATATATAGTTGTACATATTTATAAGAAATACATACATTG
AGAGAATTTTTCCTCAATACATTAGAGTATTCATCTCTAATTTCATCATGGTATCAGATTTTTA
Found at i:84147507 original size:27 final size:27
Alignment explanation
Indices: 84147472--84147525 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
84147462 CTACAACGGT
84147472 TATTGTATTCTTGTGGGAGGAAACTTA
1 TATTGTATTCTTGTGGGAGGAAACTTA
84147499 TATTGTATTCTTGTGGGAGGAAACTTA
1 TATTGTATTCTTGTGGGAGGAAACTTA
84147526 GTCATTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (27 bp):
TATTGTATTCTTGTGGGAGGAAACTTA
Found at i:84148669 original size:101 final size:101
Alignment explanation
Indices: 84148488--84148673 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 101
84148478 TTTTATGAAG
** * *
84148488 CCCTAAAACTTGAGATAAGTGGGATTTAGATGCTCATTTAATTTGATACCGATAATTCTTTCAGT
1 CCCTAAAACTTGAGATAAGTGGGAACTAGATGCTCATTTAATCTGATACCGATAATTCTTTCAAT
* * *
84148553 TCTCTGATGCGATATATTCAGCCAAGGCTTCAGACA
66 GCTCTAATGCCATATATTCAGCCAAGGCTTCAGACA
* *
84148589 CCCTAAAACTTGAGATAAGTGGGAACTAGGTGCTCATTTAATCTGATA-TGCATAATTCTTTCAA
1 CCCTAAAACTTGAGATAAGTGGGAACTAGATGCTCATTTAATCTGATACCG-ATAATTCTTTCAA
*
84148653 TGGTCTAATGCCATATATTCA
65 TGCTCTAATGCCATATATTCA
84148674 AGTAAGACCA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 1 0.01
101 73 0.99
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (101 bp):
CCCTAAAACTTGAGATAAGTGGGAACTAGATGCTCATTTAATCTGATACCGATAATTCTTTCAAT
GCTCTAATGCCATATATTCAGCCAAGGCTTCAGACA
Found at i:84153713 original size:20 final size:20
Alignment explanation
Indices: 84153688--84153725 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
84153678 TAATAAATTA
84153688 ATTGTCATCCTATAATTAGT
1 ATTGTCATCCTATAATTAGT
*
84153708 ATTGTCATCTTATAATTA
1 ATTGTCATCCTATAATTA
84153726 TTAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (20 bp):
ATTGTCATCCTATAATTAGT
Found at i:84154033 original size:2 final size:2
Alignment explanation
Indices: 84154026--84154052 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
84154016 ATTTTACAAG
84154026 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
84154053 CCTCCATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84158757 original size:6 final size:6
Alignment explanation
Indices: 84158746--84158777 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
84158736 TATATTGAAT
84158746 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
84158778 CGTAAACTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:84159974 original size:22 final size:22
Alignment explanation
Indices: 84159926--84159977 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
84159916 CTTAGGTTGA
* *
84159926 TGTTCTTTTGGAAAAACTGATT
1 TGTTGTTTTGGAAAAACCGATT
*
84159948 TGTTGTTTTGGAAAACCCGATT
1 TGTTGTTTTGGAAAAACCGATT
84159970 TGTTGTTT
1 TGTTGTTT
84159978 CCAAAATCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (22 bp):
TGTTGTTTTGGAAAAACCGATT
Found at i:84161621 original size:11 final size:11
Alignment explanation
Indices: 84161589--84161615 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
84161579 GGTTTAGGAA
84161589 AAAATAAAATT
1 AAAATAAAATT
84161600 AAAATAAAATT
1 AAAATAAAATT
84161611 AAAAT
1 AAAAT
84161616 CCAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:84165994 original size:76 final size:75
Alignment explanation
Indices: 84165880--84166138 Score: 245
Period size: 76 Copynumber: 3.4 Consensus size: 75
84165870 CAAGGTTTTG
* * * *
84165880 CGCCCAGCCCTAGTTAGATAAACCAAC-AGTATCAAATGTGTGCCCAACACTAGTCAGATAAAGC
1 CGCCCAGCGCTAGTCAGATAAACCAACGA-TATCAAATGTGTGCCCAGCACTAGTCGGATAAA-C
* * *
84165944 AACAATGAGTTG
64 AACAATCATTTA
* * * * *
84165956 GGCCCAGCGCTAGTCGGATAAACCAACGATATTAAATGTGTGCTCAGCACTAGTCGGATAAATAG
1 CGCCCAGCGCTAGTCAGATAAACCAACGATATCAAATGTGTGCCCAGCACTAGTCGGATAAACA-
84166021 ACAATCATTT-
65 ACAATCATTTA
* ** * * * * *
84166031 CTGCCCAGCACTAGTCAGATAAACTGATGATATCAGATGTGTGCCTAGCACTAGTTGGATATACC
1 C-GCCCAGCGCTAGTCAGATAAACCAACGATATCAAATGTGTGCCCAGCACTAGTCGGATA-AAC
*
84166096 AACAAACATTTA
64 AACAATCATTTA
*
84166108 CGTCCAGCGCTAGTC-GAATAAACCAACGATA
1 CGCCCAGCGCTAGTCAG-ATAAACCAACGATA
84166139 ACAAGCATCA
Statistics
Matches: 147, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
75 2 0.01
76 141 0.96
77 4 0.03
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (75 bp):
CGCCCAGCGCTAGTCAGATAAACCAACGATATCAAATGTGTGCCCAGCACTAGTCGGATAAACAA
CAATCATTTA
Found at i:84166010 original size:40 final size:39
Alignment explanation
Indices: 84165881--84166099 Score: 128
Period size: 40 Copynumber: 5.7 Consensus size: 39
84165871 AAGGTTTTGC
* ** *
84165881 GCCCAGCCCTAGTTAGATAAACCAACAGTATCAAATGTGT
1 GCCCAGCACTAGTCGGATAAACCAACA-TATTAAATGTGT
* * * * * *
84165921 GCCCAACACTAGTCAGATAAAGCAACA-A-TGAGT-TGG
1 GCCCAGCACTAGTCGGATAAACCAACATATTAAATGTGT
*
84165957 GCCCAGCGCTAGTCGGATAAACCAACGATATTAAATGTGT
1 GCCCAGCACTAGTCGGATAAACCAAC-ATATTAAATGTGT
* * * * *
84165997 GCTCAGCACTAGTCGGATAAA-TAGACA-A-T-CATTTCT
1 GCCCAGCACTAGTCGGATAAACCA-ACATATTAAATGTGT
* * ** * *
84166033 GCCCAGCACTAGTCAGATAAACTGATGATATCAGATGTGT
1 GCCCAGCACTAGTCGGATAAAC-CAACATATTAAATGTGT
* * *
84166073 GCCTAGCACTAGTTGGATATACCAACA
1 GCCCAGCACTAGTCGGATAAACCAACA
84166100 AACATTTACG
Statistics
Matches: 132, Mismatches: 37, Indels: 21
0.69 0.19 0.11
Matches are distributed among these distances:
36 47 0.36
37 5 0.04
38 5 0.04
39 7 0.05
40 68 0.52
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (39 bp):
GCCCAGCACTAGTCGGATAAACCAACATATTAAATGTGT
Found at i:84168267 original size:27 final size:27
Alignment explanation
Indices: 84168237--84168297 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
84168227 GTGCACCTAG
*
84168237 ACCCCTAATTGGTAAAATGACTGAAAT
1 ACCCCTAACTGGTAAAATGACTGAAAT
* *
84168264 ACCCCTACCTGGTAAAATGACTGATAT
1 ACCCCTAACTGGTAAAATGACTGAAAT
*
84168291 GCCCCTA
1 ACCCCTA
84168298 TGATATGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (27 bp):
ACCCCTAACTGGTAAAATGACTGAAAT
Found at i:84173293 original size:38 final size:39
Alignment explanation
Indices: 84173249--84173348 Score: 121
Period size: 38 Copynumber: 2.6 Consensus size: 39
84173239 ATCGTGATCT
* * * *
84173249 GAAGCCCGAAGTCTAGCTAAAGTACATAAGTGC-AAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
*
84173287 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
* * *
84173326 AAAGCCAGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTAAAGC
84173349 TCATCAGAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 28 0.52
39 26 0.48
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACG
Found at i:84185917 original size:46 final size:47
Alignment explanation
Indices: 84185846--84186056 Score: 157
Period size: 46 Copynumber: 4.5 Consensus size: 47
84185836 AAGTCAATGC
* * *
84185846 CATGTTCCAGGCATGGTCTTACACTGATTATCATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCGTAGGCCGATG
* **
84185893 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCG-AGGTTGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGTAGGCCGATG
* ** * * *
84185939 CATGTCCCAAACATGTCTTACACT-AGCCCTCGTCTC-AATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGA-CTATCATCTCGTAGGCCGATG
* * * * *
84185985 CCATGTGCCAAACATGGTCTTACACTGGCTCTCATAAT-GT-GGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCGTAGGCCGATG
*
84186033 CATGTCCCAGATATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
84186057 AGCTCACACA
Statistics
Matches: 131, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
45 2 0.02
46 69 0.53
47 37 0.28
48 22 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGTAGGCCGATG
Found at i:84188858 original size:27 final size:26
Alignment explanation
Indices: 84188810--84188861 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
84188800 GCGAGGCTGC
*
84188810 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
84188836 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
84188862 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:84189625 original size:27 final size:27
Alignment explanation
Indices: 84189510--84189627 Score: 146
Period size: 27 Copynumber: 4.4 Consensus size: 27
84189500 GGGGCAAAAT
* * *
84189510 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
84189537 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
84189564 GATATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
84189591 GGTAATTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
84189618 GGTAATTCTA
1 GGTAATTCTA
84189628 TAACTTATCC
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:84196973 original size:28 final size:28
Alignment explanation
Indices: 84196941--84197042 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
84196931 CAAATATGGT
*
84196941 ACTTAGTGTACGAAATATTGAGAATGGC
1 ACTTAGTGTACGAAATATTGAGAATGAC
84196969 ACTTAGTGTACGAAATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
84196997 ACTTAGTGTGCGAGATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
84197025 ACTTAGTGTGCAAAATAT
1 ACTTAGTGTACGAAATAT
84197043 CGAATGATTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ACTTAGTGTACGAAATATTGAGAATGAC
Found at i:84205745 original size:27 final size:25
Alignment explanation
Indices: 84205708--84205802 Score: 109
Period size: 27 Copynumber: 3.6 Consensus size: 25
84205698 AGCATGGCTG
*
84205708 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAG-CA
84205734 CCAGATACAGATAATCGTGGCAGAGCTA
1 CCAGA-ACAGATAAT-GTGGCAGAGC-A
*
84205762 CCAGAACAGATATATGTGGCAGAACCA
1 CCAGAACAGATA-ATGTGGCAG-AGCA
*
84205789 CCAGATCAGATAAT
1 CCAGAACAGATAAT
84205803 TTGTGGAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.11
27 36 0.59
28 18 0.30
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (25 bp):
CCAGAACAGATAATGTGGCAGAGCA
Found at i:84205817 original size:28 final size:28
Alignment explanation
Indices: 84205708--84205820 Score: 99
Period size: 27 Copynumber: 4.1 Consensus size: 28
84205698 AGCATGGCTG
* * *
84205708 CCAGAACAGATAA--TGTGACAGAGTCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
* *
84205734 CCAGATACAGATAA-TCGTGGCAGAGCTA
1 CCAGAT-CAGATAATTTGTGGCAGAGCCA
* * *
84205762 CCAGAACAGAT-ATATGTGGCAGAACCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
* *
84205789 CCAGATCAGATAATTTGTGGAATAGCCA
1 CCAGATCAGATAATTTGTGGCAGAGCCA
84205817 CCAG
1 CCAG
84205821 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
26 6 0.09
27 32 0.47
28 30 0.44
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (28 bp):
CCAGATCAGATAATTTGTGGCAGAGCCA
Found at i:84205820 original size:55 final size:54
Alignment explanation
Indices: 84205708--84205820 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
84205698 AGCATGGCTG
** * *
84205708 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCTA
1 CCAGAACAGATAATGTGACAGAACCACCAGATACAGATAATCGTGGAAGAGCCA
* * *
84205762 CCAGAACAGATATATGTGGCAGAACCACCAGAT-CAGATAATTTGTGGAATAGCCA
1 CCAGAACAGATA-ATGTGACAGAACCACCAGATACAGATAA-TCGTGGAAGAGCCA
84205817 CCAG
1 CCAG
84205821 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 19 0.38
55 31 0.62
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAACCACCAGATACAGATAATCGTGGAAGAGCCA
Found at i:84206267 original size:8 final size:8
Alignment explanation
Indices: 84206251--84206285 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
84206241 CTTTTTAGCA
*
84206251 TTTCAGCT
1 TTTCGGCT
84206259 TTTCGGCT
1 TTTCGGCT
*
84206267 TTTCGACT
1 TTTCGGCT
84206275 TTTCGGCT
1 TTTCGGCT
84206283 TTT
1 TTT
84206286 GCCGATCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.06, C:0.23, G:0.17, T:0.54
Consensus pattern (8 bp):
TTTCGGCT
Found at i:84213605 original size:27 final size:26
Alignment explanation
Indices: 84213570--84213679 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 26
84213560 AGCATGGCTG
* * *
84213570 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
84213596 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
84213624 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
84213651 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
84213679 C
1 C
84213680 TAGGACGCTT
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.08
27 39 0.53
28 29 0.39
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:84213655 original size:55 final size:54
Alignment explanation
Indices: 84213570--84213679 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 54
84213560 AGCATGGCTG
*
84213570 CCAGAACAGATAATGTGACAAAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAAAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * * *
84213624 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAAAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
84213679 C
1 C
84213680 TAGGACGCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 19 0.39
55 30 0.61
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAAAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:84216980 original size:15 final size:15
Alignment explanation
Indices: 84216962--84216998 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
84216952 AACCATGTGT
84216962 CACACACAGCTGAGA
1 CACACACAGCTGAGA
*
84216977 CACACACGGCTGAGA
1 CACACACAGCTGAGA
84216992 CACACAC
1 CACACAC
84216999 TGTGTCTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.38, G:0.19, T:0.05
Consensus pattern (15 bp):
CACACACAGCTGAGA
Found at i:84218018 original size:28 final size:29
Alignment explanation
Indices: 84217985--84218039 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
84217975 ATCCGAAATA
84217985 CTGATA-TCATGGCCCAAAGCCAAATCAG
1 CTGATATTCATGGCCCAAAGCCAAATCAG
**
84218013 CTGATATTCATGGCCTGAAGCCAAATC
1 CTGATATTCATGGCCCAAAGCCAAATC
84218040 GGTATAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (29 bp):
CTGATATTCATGGCCCAAAGCCAAATCAG
Found at i:84219937 original size:30 final size:30
Alignment explanation
Indices: 84219902--84219959 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
84219892 CACGGCCATG
*
84219902 ACACACGGGTGTGTGG-TCTACCCGTGTGTC
1 ACACACGGGCGTGTGGATC-ACCCGTGTGTC
84219932 ACACACGGGCGTGTGGATCACCCGTGTG
1 ACACACGGGCGTGTGGATCACCCGTGTG
84219960 GAAGTACCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTGGATCACCCGTGTGTC
Found at i:84221845 original size:6 final size:6
Alignment explanation
Indices: 84221831--84221872 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
84221821 ATAGAATTGT
* *
84221831 AATAAA AATAGA AATAAA AATAAA AATAAT AAT-AA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
84221873 GGACTCAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:84223434 original size:19 final size:19
Alignment explanation
Indices: 84223410--84223446 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84223400 AAAAATAATA
*
84223410 ATAATGCAGTAAATAAAGG
1 ATAATGAAGTAAATAAAGG
*
84223429 ATAATGAAGTTAATAAAG
1 ATAATGAAGTAAATAAAG
84223447 AAATAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (19 bp):
ATAATGAAGTAAATAAAGG
Found at i:84229254 original size:40 final size:40
Alignment explanation
Indices: 84229195--84229443 Score: 288
Period size: 40 Copynumber: 6.2 Consensus size: 40
84229185 CGGGACTTTA
* * *
84229195 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
84229235 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
84229275 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
84229315 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
84229355 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
84229395 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
84229435 CCCGGATAT
1 CCCGGATAT
84229444 CATTCAATTT
Statistics
Matches: 176, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
37 3 0.02
38 3 0.02
39 1 0.01
40 169 0.96
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:84229287 original size:80 final size:80
Alignment explanation
Indices: 84229195--84229401 Score: 353
Period size: 80 Copynumber: 2.6 Consensus size: 80
84229185 CGGGACTTTA
84229195 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
84229260 GCCTTCGGGTCTTAG
66 GCCTTCGGGTCTTAG
84229275 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
84229340 GCCTTCGGGTCTTAG
66 GCCTTCGGGTCTTAG
* * * * *
84229355 CCCGGATAT-AGCTACTAGCACAATTGCCTTCGGGTCTTAACCCGGAT
1 CCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
84229402 ATAAATTTCA
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
79 1 0.01
80 120 0.99
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (80 bp):
CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
GCCTTCGGGTCTTAG
Found at i:84229341 original size:120 final size:120
Alignment explanation
Indices: 84229210--84229441 Score: 319
Period size: 120 Copynumber: 1.9 Consensus size: 120
84229200 ATATCACGAT
* *
84229210 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTTCGGGTCTTA
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTA
* * *
84229274 GCCCGGATATCACGATTTGCA-CA-AA-TGCCTTCGGGTCTTAGCCCGGATTTAACAAC
65 ACCCGGATAT-A-AATTT-CAGCATAATTGCCTTCGGGGCTTAGCCCGGATTTAACAAC
* * *
84229330 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAA
*
84229395 CCCGGATATAAATTTCAGCATAATTGTCTTCGGGGCTTAGCCCGGAT
66 CCCGGATATAAATTTCAGCATAATTGCCTTCGGGGCTTAGCCCGGAT
84229442 ATCATTCAAT
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
117 2 0.02
118 6 0.06
119 5 0.05
120 86 0.87
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (120 bp):
TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAA
CCCGGATATAAATTTCAGCATAATTGCCTTCGGGGCTTAGCCCGGATTTAACAAC
Found at i:84237380 original size:13 final size:13
Alignment explanation
Indices: 84237362--84237386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84237352 AAGGCTACGC
84237362 TACCCGGATATCT
1 TACCCGGATATCT
84237375 TACCCGGATATC
1 TACCCGGATATC
84237387 ACGATTTGCA
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:0.32, G:0.16, T:0.28
Consensus pattern (13 bp):
TACCCGGATATCT
Found at i:84237436 original size:40 final size:40
Alignment explanation
Indices: 84237372--84237545 Score: 176
Period size: 40 Copynumber: 4.4 Consensus size: 40
84237362 TACCCGGATA
* * *
84237372 TCTTA-CCCGGATATCACGATTTGCACAAATGCCTTCGGG
1 TCTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGG
* *
84237411 TCTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGG
1 TCTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGG
* * * *
84237451 TCTTAGCCCGGATATAGCTACTAGCACAATTGCCTTCGGG
1 TCTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGG
* * *
84237491 TCTTAACCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGG
1 TCTTAGCCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGG
*
84237531 GCTTAGCCCGGATAT
1 TCTTAGCCCGGATAT
84237546 CATTCAATTT
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 6 0.05
40 99 0.89
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
TCTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGG
Found at i:84240979 original size:17 final size:17
Alignment explanation
Indices: 84240972--84241012 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
84240962 ATAGAATTGT
84240972 AATAAAAATAGAAATAA
1 AATAAAAATAGAAATAA
84240989 AATAAAAATA-ATAATAA
1 AATAAAAATAGA-AATAA
84241006 AATAAAA
1 AATAAAA
84241013 GGACTCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AATAAAAATAGAAATAA
Found at i:84240986 original size:6 final size:6
Alignment explanation
Indices: 84240972--84241012 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
84240962 ATAGAATTGT
* *
84240972 AATAAA AATAGA AAT-AA AATAAA AATAAT AAT-AA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
84241013 GGACTCAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
5 8 0.28
6 21 0.72
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:84242573 original size:19 final size:19
Alignment explanation
Indices: 84242549--84242585 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84242539 AAAAATAATA
*
84242549 ATAATGCAGTAAATAAAGG
1 ATAATGAAGTAAATAAAGG
*
84242568 ATAATGAAGTTAATAAAG
1 ATAATGAAGTAAATAAAG
84242586 AAATAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (19 bp):
ATAATGAAGTAAATAAAGG
Found at i:84248388 original size:40 final size:40
Alignment explanation
Indices: 84248329--84248497 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
84248319 CGGGACTTTA
* * *
84248329 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
84248369 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
84248409 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
84248449 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
84248489 CCCGGATAT
1 CCCGGATAT
84248498 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:84256541 original size:20 final size:21
Alignment explanation
Indices: 84256516--84256565 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
84256506 GATATACTAC
*
84256516 TGCCTTCGGGTCTTAGC-AAT
1 TGCCTTCGGGTCTTAACTAAT
84256536 TGCCTTCGGGTCTTAACTAAT
1 TGCCTTCGGGTCTTAACTAAT
84256557 TGCCTTCGG
1 TGCCTTCGG
84256566 ATATAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.14, C:0.26, G:0.24, T:0.36
Consensus pattern (21 bp):
TGCCTTCGGGTCTTAACTAAT
Found at i:84264263 original size:55 final size:54
Alignment explanation
Indices: 84264128--84264265 Score: 150
Period size: 55 Copynumber: 2.5 Consensus size: 54
84264118 GTTTAAGGAT
* * * * *
84264128 ACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAA
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
* *** * * *
84264182 ATCATGTAAGACCATTTTAAGACATGGCATTGATAAACTACTATAAGGCAAAGAT
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAA
*
84264237 CCCATGTAAGACCATGCCAAGGCATGGCA
1 ACCATGTAAGACCATGCCAAGGCATGGCA
84264266 ATGGTGAGTT
Statistics
Matches: 65, Mismatches: 18, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
54 27 0.42
55 38 0.58
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (54 bp):
ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
Found at i:84264304 original size:53 final size:54
Alignment explanation
Indices: 84264122--84264328 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
84264112 ATTAAGGTTT
* * * *
84264122 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * *** * * * *
84264176 AAGGAAATCATGTAAGACCATTTTAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * *
84264231 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * *
84264284 AAGGATACCACGTAAGACCATGACAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
84264329 TAGAAAGGAA
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 45 0.37
54 35 0.29
55 41 0.34
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:84268801 original size:94 final size:93
Alignment explanation
Indices: 84268618--84268879 Score: 314
Period size: 94 Copynumber: 2.8 Consensus size: 93
84268608 TTTGTGTGCC
*
84268618 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
** *
84268683 GACATGGCATCGGGGTTGAGACGAGGGAT
66 GACAT-GCATCGACGTTGAGACGAGAGAT
* *
84268712 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGT-GCTAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-TAGCCAGTGTAAGACCATGTCTG
* *
84268775 GGACATGCATCAGCACGTAT-ATACGAGAGCT
65 GGACATGCATC-G-ACGT-TGAGACGAGAGAT
* * * **
84268806 AATGTAAGACCATGTCTGGGGCATGGCATCGGCCTCGAAGATGATAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGATAGCCAGTGTAAGACCATGTC
84268871 TGGGACATG
63 TGGGACATG
84268880 GCGTCGGCAA
Statistics
Matches: 144, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
92 5 0.03
93 14 0.10
94 69 0.48
95 15 0.10
96 10 0.07
97 16 0.11
98 15 0.10
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGCATCGACGTTGAGACGAGAGAT
Found at i:84268887 original size:49 final size:47
Alignment explanation
Indices: 84268615--84268879 Score: 216
Period size: 46 Copynumber: 5.6 Consensus size: 47
84268605 TGATTTGTGT
*
84268615 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAATATGATA
* **** * * **
84268661 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGGGTTG-AGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAATATGATA
** * *
84268709 GATAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAATATGA-TA
* * * *
84268755 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATATACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-A-ATATGATA
* * * * *
84268803 GCTAATGTAAGACCATGTCTGGGGCATGGCATCGGCCTCGAAGATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAATATGATA
84268852 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
84268880 GCGTCGGCAA
Statistics
Matches: 171, Mismatches: 36, Indels: 22
0.75 0.16 0.10
Matches are distributed among these distances:
45 3 0.02
46 53 0.31
47 27 0.16
48 36 0.21
49 42 0.25
50 7 0.04
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAATATGATA
Found at i:84272195 original size:30 final size:29
Alignment explanation
Indices: 84272159--84272372 Score: 189
Period size: 30 Copynumber: 7.1 Consensus size: 29
84272149 AAGAAACATT
* * *
84272159 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
84272189 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
84272219 ATCA-ATATTAGTAACAGAATCAGAATTAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
*** * *
84272249 ATCAGAATCACAATTAG-GTGACAGAATCAGA
1 ATCAGAATTGTAA-CAGAAT--CAGAATCAGA
*
84272280 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
84272310 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* *
84272340 ATCAGAATTACGTGACAGAATCAGAACCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
84272371 AT
1 AT
84272373 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
29 4 0.03
30 100 0.67
31 43 0.29
32 3 0.02
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:84272279 original size:91 final size:91
Alignment explanation
Indices: 84272180--84272347 Score: 318
Period size: 91 Copynumber: 1.8 Consensus size: 91
84272170 AACCAAAATG
84272180 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
84272245 TAGAATCAGAATCACAATTAGGTGAC
66 CAGAATCAGAATCACAATTAGGTGAC
*
84272271 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
84272336 CAGAATCAGAAT
66 CAGAATCAGAAT
84272348 TACGTGACAG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (91 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATCACAATTAGGTGAC
Found at i:84272365 original size:6 final size:6
Alignment explanation
Indices: 84272180--84272347 Score: 168
Period size: 6 Copynumber: 27.8 Consensus size: 6
84272170 AACCAAAATG
*
84272180 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * *
84272228 AGTAA-C AGAATC AGAATT AGAATC AGAATC ACAATT AG-GTGAC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* *
84272277 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
84272325 AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT
84272348 TACGTGACAG
Statistics
Matches: 135, Mismatches: 14, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
5 10 0.07
6 115 0.85
7 8 0.06
8 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:84272547 original size:27 final size:26
Alignment explanation
Indices: 84272504--84272605 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
84272494 GCTCAGTTAT
* *
84272504 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
84272531 CAGATATTGTGGTAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
84272557 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
84272585 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
84272606 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:84272797 original size:22 final size:22
Alignment explanation
Indices: 84272763--84272827 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
84272753 GCAAATACGT
*
84272763 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
84272785 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
84272807 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
84272828 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:84273309 original size:27 final size:27
Alignment explanation
Indices: 84273252--84273834 Score: 720
Period size: 27 Copynumber: 22.3 Consensus size: 27
84273242 AAGGGCAAAT
* * *
84273252 GGTAATTTTACCCCACA-AGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
* * *
84273278 GGTAATTCCACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
84273305 AGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84273332 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
84273359 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84273386 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84273413 GGTAATTCTACACTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
84273440 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84273467 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
84273494 AATAATTCTA-CCTACA--GG------
1 GGTAATTCTACCCTACAGGGGTATTTC
84273512 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84273539 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84273566 GGTAATTCTACCCTACAAGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84273593 GATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84273620 GGTAATTCTACCCTACAAGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
84273647 GATAATTTTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84273674 GATAATTCTACCCTACA-----A---G
1 GGTAATTCTACCCTACAGGGGTATTTC
84273693 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
84273720 GGTAATTCTACCCTACAAGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
84273747 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
84273774 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
84273801 GGTAATTCTACCCT-CTAGGGGTATTTC
1 GGTAATTCTACCCTAC-AGGGGTATTTC
84273828 GGTAATT
1 GGTAATT
84273835 TTGTAAACTA
Statistics
Matches: 488, Mismatches: 49, Indels: 39
0.85 0.09 0.07
Matches are distributed among these distances:
18 8 0.02
19 22 0.05
21 2 0.00
22 1 0.00
24 3 0.01
26 22 0.05
27 430 0.88
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:84273519 original size:18 final size:19
Alignment explanation
Indices: 84273496--84273534 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
84273486 GGTATTGCAA
84273496 TAATTCTA-CCTACAGGGG
1 TAATTCTACCCTACAGGGG
84273514 TAATTCTACCCTACAGGGG
1 TAATTCTACCCTACAGGGG
84273533 TA
1 TA
84273535 TTTCGATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (19 bp):
TAATTCTACCCTACAGGGG
Found at i:84273700 original size:19 final size:19
Alignment explanation
Indices: 84273676--84273715 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
84273666 GGTATTGCGA
84273676 TAATTCTACCCTACAAGGG
1 TAATTCTACCCTACAAGGG
*
84273695 TAATTCTACCCTACAGGGG
1 TAATTCTACCCTACAAGGG
84273714 TA
1 TA
84273716 TTTCGGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (19 bp):
TAATTCTACCCTACAAGGG
Found at i:84273716 original size:46 final size:46
Alignment explanation
Indices: 84273649--84273796 Score: 188
Period size: 46 Copynumber: 3.0 Consensus size: 46
84273639 GGTATTACGA
* * *
84273649 TAATTTTACCCTACAGGGGTATTGCGATAATTCTACCCTACAAGGG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGG
84273695 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTACG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAA-GG------G
*
84273748 ATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGG
1 -TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGG
84273795 TA
1 TA
84273797 TTTCGGTAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 16
0.82 0.04 0.15
Matches are distributed among these distances:
46 42 0.47
47 3 0.03
53 3 0.03
54 42 0.47
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (46 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGG
Found at i:84273768 original size:100 final size:100
Alignment explanation
Indices: 84273595--84273796 Score: 359
Period size: 100 Copynumber: 2.0 Consensus size: 100
84273585 GGTATTACGA
* *
84273595 TAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTACGATAATTTTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTACGATAATTCTACCC
84273660 TACAGGGGTATTGCGATAATTCTACCCTACAAGGG
66 TACAGGGGTATTGCGATAATTCTACCCTACAAGGG
84273695 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTACGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTACGATAATTCTACCC
* * *
84273760 TACAGGGGTATTTCGGTAATTCTACCCTACAGGGG
66 TACAGGGGTATTGCGATAATTCTACCCTACAAGGG
84273795 TA
1 TA
84273797 TTTCGGTAAT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (100 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTACGATAATTCTACCC
TACAGGGGTATTGCGATAATTCTACCCTACAAGGG
Found at i:84273853 original size:27 final size:27
Alignment explanation
Indices: 84273765--84274021 Score: 143
Period size: 27 Copynumber: 9.6 Consensus size: 27
84273755 TACCCTACAG
* *
84273765 GGGTATTTCGGTAATTCTAC--CCTACA
1 GGGTATTTCGGTAATTTTACAAACTA-A
* *** *
84273791 GGGGTATTTCGGTAATTCTACCCTCTAG
1 -GGGTATTTCGGTAATTTTACAAACTAA
**
84273819 GGGTATTTCGGTAATTTTGTAAACTAA
1 GGGTATTTCGGTAATTTTACAAACTAA
* * * *
84273846 GGGCATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCGGTAATTTTACAAACTAA
* *** *
84273873 GGGTATTTTGGTAATTTTATTGA-TCGA
1 GGGTATTTCGGTAATTTTACAAACT-AA
* * *
84273900 GGGTATTTCAGTAATTTTGCAAACTGA
1 GGGTATTTCGGTAATTTTACAAACTAA
* *
84273927 GGGTATTTCGATAATTTTACAAA-TCGA
1 GGGTATTTCGGTAATTTTACAAACT-AA
* * * **
84273954 GGATATTTGGGTAATTTTATAAACCGA
1 GGGTATTTCGGTAATTTTACAAACTAA
*
84273981 -GGTACTTT-GGTAATTTTAC-AACT-G
1 GGGTA-TTTCGGTAATTTTACAAACTAA
*
84274005 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
84274022 CATAATCGAG
Statistics
Matches: 180, Mismatches: 41, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
24 3 0.02
25 14 0.08
26 14 0.08
27 145 0.81
28 1 0.01
29 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACTAA
Found at i:84273859 original size:81 final size:81
Alignment explanation
Indices: 84273693--84273888 Score: 220
Period size: 81 Copynumber: 2.4 Consensus size: 81
84273683 ACCCTACAAG
*
84273693 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTACGATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTACGATAATTCTAA
* *
84273758 CCTACAGGGGTATTTC
66 ACTACAGGGGCATTTC
* * * *
84273774 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCT-CTAGGGGTATTTCGGTAATTTTG
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAC-AAGGGTATTACGATAA--TTC
*
84273838 TAAACTA-A-GGGCATTTT
63 TAAACTACAGGGGCATTTC
* ** *
84273855 GGTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 GGTAATTCTACCCTA-CAGGGGTATTTCGGTAATT
84273889 TTATTGATCG
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
80 3 0.03
81 88 0.89
82 1 0.01
83 7 0.07
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTACGATAATTCTAA
ACTACAGGGGCATTTC
Found at i:84273914 original size:54 final size:53
Alignment explanation
Indices: 84273856--84274021 Score: 165
Period size: 54 Copynumber: 3.1 Consensus size: 53
84273846 GGGCATTTTG
*** *
84273856 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTCA
1 GTAATTTTACAAACC-GGGGTATTTTGGTAATTTTACAAATCGAGGATATTTCA
* * * * **
84273910 GTAATTTTGCAAACTGAGGGTATTTCGATAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAAACCG-GGGTATTTTGGTAATTTTACAAATCGAGGATATTTCA
* * * * *
84273964 GTAATTTTATAAACCGAGGTACTTTGGTAATTTTACAACT-G-GGGTATTTCA
1 GTAATTTTACAAACCGGGGTATTTTGGTAATTTTACAAATCGAGGATATTTCA
84274015 GTAATTT
1 GTAATTT
84274022 CATAATCGAG
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
51 14 0.16
52 1 0.01
53 20 0.22
54 55 0.61
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (53 bp):
GTAATTTTACAAACCGGGGTATTTTGGTAATTTTACAAATCGAGGATATTTCA
Found at i:84273982 original size:81 final size:81
Alignment explanation
Indices: 84273819--84274021 Score: 220
Period size: 81 Copynumber: 2.5 Consensus size: 81
84273809 TACCCTCTAG
* * * * * * *
84273819 GGGTATTTCGGTAATTTTGTAAACTAAGGGCATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTCGGTAATTTTGCAAACTGAGGGTATTTCGATAATTTTACAAACCAGGGATATTTGGG
** *
84273884 TAATTTTATTGATCGA
66 TAATTTTATAAACCGA
* *
84273900 GGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTCGATAATTTTACAAATC-GAGGATATTTGG
1 GGGTATTTCGGTAATTTTGCAAACTGAGGGTATTTCGATAATTTTACAAACCAG-GGATATTTGG
84273964 GTAATTTTATAAACCGA
65 GTAATTTTATAAACCGA
*
84273981 -GGTACTTT-GGTAATTTTAC-AACTG-GGGTATTTC-AGTAATTT
1 GGGTA-TTTCGGTAATTTTGCAAACTGAGGGTATTTCGA-TAATTT
84274022 CATAATCGAG
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 15 0.14
79 5 0.05
80 14 0.13
81 70 0.67
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTGCAAACTGAGGGTATTTCGATAATTTTACAAACCAGGGATATTTGGG
TAATTTTATAAACCGA
Found at i:84274062 original size:27 final size:27
Alignment explanation
Indices: 84274025--84274172 Score: 226
Period size: 27 Copynumber: 5.5 Consensus size: 27
84274015 GTAATTTCAT
*
84274025 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
84274052 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
**
84274079 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
84274106 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
84274133 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
84274160 AATCGAGGGTAAA
1 AATCGAGGGTAAA
84274173 TGTAACACCC
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
26 1 0.01
27 111 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:84275582 original size:40 final size:40
Alignment explanation
Indices: 84275537--84275666 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
84275527 CGGAATATAA
84275537 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
84275577 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
84275617 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
84275657 CCGGATATAA
1 CCGGATATAA
84275667 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84275687 original size:80 final size:80
Alignment explanation
Indices: 84275553--84275702 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
84275543 ATAACCACGT
* * *
84275553 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATACCTTCGGGGCTTAGCC
84275618 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
84275633 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTATCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TACCTTCGGGGCTTAG
84275696 CCCGGAT
64 CCCGGAT
84275703 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATACCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:84281802 original size:53 final size:54
Alignment explanation
Indices: 84281620--84281826 Score: 179
Period size: 53 Copynumber: 3.8 Consensus size: 54
84281610 ATTAGGGTTT
* *
84281620 AAGGATACCA-AGTAAGACCATGCCAATG-CATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATA-TAAGACCATGCCAA-GACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * *
84281674 AAGGAAATCATGTAAGACCATGTCAAGACATGG-AATTGATAAACTACTATAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAA-TGGT-AAGTTCTATAAGGC
** * * * *
84281729 AAAAATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * *
84281782 AAGGATACCACATAAGACCATGACAAGACCTGACAATGGTAAGTT
1 AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTT
84281827 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 30, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
53 44 0.37
54 32 0.27
55 40 0.34
56 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (54 bp):
AAGGATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:84285304 original size:18 final size:17
Alignment explanation
Indices: 84285266--84285299 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
84285256 AAACCCTAAT
84285266 TTTCCCTTTTCTTTTTC
1 TTTCCCTTTTCTTTTTC
84285283 TTT-CCTTTT-TTTTTC
1 TTTCCCTTTTCTTTTTC
84285298 TT
1 TT
84285300 CTTTCTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 6 0.35
17 3 0.18
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCCCTTTTCTTTTTC
Found at i:84289442 original size:9 final size:9
Alignment explanation
Indices: 84289430--84289486 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
84289420 TTTGATAAAC
84289430 ATGATATGT
1 ATGATATGT
*
84289439 ATGATATGCAC
1 ATGATATG--T
*
84289450 ATGACATGT
1 ATGATATGT
*
84289459 ATGATATGCAC
1 ATGATATG--T
84289470 ATGATATGT
1 ATGATATGT
84289479 ATGATATG
1 ATGATATG
84289487 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:84289453 original size:20 final size:20
Alignment explanation
Indices: 84289428--84289490 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
84289418 ATTTTGATAA
84289428 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
84289448 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
84289468 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
84289488 ACA
1 ACA
84289491 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:84289664 original size:25 final size:24
Alignment explanation
Indices: 84289544--84289650 Score: 180
Period size: 24 Copynumber: 4.4 Consensus size: 24
84289534 GAGGAAGTGC
84289544 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
84289568 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
84289592 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
84289616 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
84289641 AAAAGAGGCT
1 AAAAG-GGCT
84289651 AGGCCTCTAG
Statistics
Matches: 80, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
23 5 0.06
24 52 0.65
25 13 0.16
26 10 0.12
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:84289892 original size:31 final size:31
Alignment explanation
Indices: 84289857--84289920 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
84289847 CGTTTACAGT
*
84289857 AAAGGGTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
84289888 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
84289919 AA
1 AA
84289921 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:84296704 original size:43 final size:43
Alignment explanation
Indices: 84296646--84296847 Score: 174
Period size: 43 Copynumber: 4.7 Consensus size: 43
84296636 AAAAACGATG
* *
84296646 CTATAGAACAAGACCTTTAGCGGTGCTTTTCCCAAAAATGCCA
1 CTATAGAACATGACCTTTAGCGGTGCTTTTCCCACAAATGCCA
* * *** ** * *
84296689 CTATAGAATATGACCTTTAACGGCATTTTTTTCACAAATGTCG
1 CTATAGAACATGACCTTTAGCGGTGCTTTTCCCACAAATGCCA
* * *
84296732 CTATAGAACATGACCTTTAACGGTGCCTTTT-TCACAAATGCCG
1 CTATAGAACATGACCTTTAGCGGTG-CTTTTCCCACAAATGCCA
* * * *
84296775 CTAAAGAACATGACCTTTAGTGGCG-TTTTCCCCACAAACGCCA
1 CTATAGAACATGACCTTTAGCGGTGCTTTT-CCCACAAATGCCA
* * * *
84296818 CTAAAGAACAAGACTTTTAGCGATGCTTTT
1 CTATAGAACATGACCTTTAGCGGTGCTTTT
84296848 ACCAAAAACA
Statistics
Matches: 127, Mismatches: 28, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
41 4 0.03
43 115 0.91
44 8 0.06
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
CTATAGAACATGACCTTTAGCGGTGCTTTTCCCACAAATGCCA
Found at i:84296741 original size:86 final size:85
Alignment explanation
Indices: 84296645--84296855 Score: 224
Period size: 86 Copynumber: 2.4 Consensus size: 85
84296635 AAAAAACGAT
* *
84296645 GCTATAGAACAAGACCTTTAGCGGTGCTTTTCCCAAAAATGCCACTATAGAATATGACCTTTAAC
1 GCTATAGAACAAGACCTTTAGCGGTGCTTTT-CCAAAAATGCCACTAAAGAACATGACCTTTAAC
*** * *
84296710 GGCATTTTTTTCACAAATGTC
65 GGCATTTTCCCCACAAACGCC
* * * * * **
84296731 GCTATAGAACATGACCTTTAACGGTGCCTTTTTCACAAATGCCGCTAAAGAACATGACCTTTAGT
1 GCTATAGAACAAGACCTTTAGCGGTG-CTTTTCCAAAAATGCCACTAAAGAACATGACCTTTAAC
*
84296796 GGCGTTTTCCCCACAAACGCC
65 GGCATTTTCCCCACAAACGCC
* * * *
84296817 ACTAAAGAACAAGACTTTTAGCGATGCTTTTACCAAAAA
1 GCTATAGAACAAGACCTTTAGCGGTGCTTTT-CCAAAAA
84296856 CACCGCTAAA
Statistics
Matches: 100, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
85 5 0.05
86 90 0.90
87 5 0.05
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (85 bp):
GCTATAGAACAAGACCTTTAGCGGTGCTTTTCCAAAAATGCCACTAAAGAACATGACCTTTAACG
GCATTTTCCCCACAAACGCC
Found at i:84297838 original size:34 final size:35
Alignment explanation
Indices: 84297795--84297868 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 35
84297785 TTTTGACCAG
*
84297795 ACAACAGTTCC-TACAACATACCTCGGTCTCAGCT
1 ACAACAGTTCCATACAAAATACCTCGGTCTCAGCT
*
84297829 ACAACAGTTCCAAATTCAAAATACCTCGGTCTCAGCT
1 ACAACAGTTCC--ATACAAAATACCTCGGTCTCAGCT
84297866 ACA
1 ACA
84297869 CAAGCAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
34 11 0.31
37 24 0.69
ACGTcount: A:0.34, C:0.32, G:0.11, T:0.23
Consensus pattern (35 bp):
ACAACAGTTCCATACAAAATACCTCGGTCTCAGCT
Found at i:84300612 original size:20 final size:20
Alignment explanation
Indices: 84300587--84300625 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
84300577 AACACCGTGC
84300587 AAAACACTTTTTTGTCTTTT
1 AAAACACTTTTTTGTCTTTT
*
84300607 AAAACACTTTTTTTTCTTT
1 AAAACACTTTTTTGTCTTT
84300626 CTTCGACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (20 bp):
AAAACACTTTTTTGTCTTTT
Found at i:84301535 original size:2 final size:2
Alignment explanation
Indices: 84301528--84301566 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
84301518 GAGACTAGTC
84301528 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84301567 CACACATGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:84302829 original size:64 final size:64
Alignment explanation
Indices: 84302647--84302830 Score: 176
Period size: 64 Copynumber: 2.8 Consensus size: 64
84302637 ATATAGTTCG
* * * * * * * *
84302647 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACA-TATATCCCAT
84302709 A
64 A
* * * * *
84302710 GCTCTATTGTCTACATGGTGTCCTTCACCTGGAATCACGCATGCGACCTAGCTACATATATCCCA
1 GCTCTCTTGTCTACATGGTG---TACACATAGAATCACCCATGCGACCTAGCTACATATATCCCA
84302775 TA
63 TA
*
84302777 GCTCTCTTGTCTACATGGTGTACACATAGCATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACAT
84302831 CATAATGTCT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 29 0.30
66 21 0.22
67 27 0.28
68 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACATATATCCCATA
Found at i:84303599 original size:30 final size:30
Alignment explanation
Indices: 84303565--84303625 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
84303555 TCCTTAACTC
84303565 AAACTTTTGAAAAATTACAAC-TTTGCCCCT
1 AAACTTTTGAAAAATTAC-ACTTTTGCCCCT
* * *
84303595 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACACTTTTGCCCCT
84303625 A
1 A
84303626 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACACTTTTGCCCCT
Found at i:84305770 original size:40 final size:40
Alignment explanation
Indices: 84305725--84305854 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
84305715 CGGAATACAA
84305725 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
84305765 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
84305805 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
84305845 CCGGATATAA
1 CCGGATATAA
84305855 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:84309458 original size:27 final size:27
Alignment explanation
Indices: 84309400--84309458 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
84309390 GACAATAAAT
* * *
84309400 TATAGTTATGTAAGTTATGATATGATA
1 TATATTTATGTAAATTATGAAATGATA
*
84309427 TATATTTATGTAAATTATGTAAATTATA
1 TATATTTATGTAAATTATG-AAATGATA
84309455 -ATAT
1 TATAT
84309459 GACATATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (27 bp):
TATATTTATGTAAATTATGAAATGATA
Found at i:84309459 original size:36 final size:34
Alignment explanation
Indices: 84309405--84309487 Score: 121
Period size: 36 Copynumber: 2.4 Consensus size: 34
84309395 TAAATTATAG
* *
84309405 TTATGTAAGTTATGATATGATATATATTTATGTAAA
1 TTATGTAAGTTATAATATGACATATATTTATGT--A
*
84309441 TTATGTAAATTATAATATGACATATATTTATGTA
1 TTATGTAAGTTATAATATGACATATATTTATGTA
84309475 TTATGTAAGTTAT
1 TTATGTAAGTTAT
84309488 GATCCAAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 13 0.30
36 30 0.70
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (34 bp):
TTATGTAAGTTATAATATGACATATATTTATGTA
Found at i:84309574 original size:35 final size:35
Alignment explanation
Indices: 84309511--84309588 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
84309501 TTTTTTTATT
*
84309511 CTTTAAATGCTTATATAAATTATGATAATCATAAA
1 CTTTAAATGCTTATATAAATTATCATAATCATAAA
* * *
84309546 CTTTAAATGTTTATTTAAGTTATCATAATCATAAA
1 CTTTAAATGCTTATATAAATTATCATAATCATAAA
84309581 CTTTAAAT
1 CTTTAAAT
84309589 ATTATTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (35 bp):
CTTTAAATGCTTATATAAATTATCATAATCATAAA
Found at i:84310675 original size:19 final size:19
Alignment explanation
Indices: 84310653--84310690 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
84310643 GATAAACAGT
84310653 ATTTTATAATATA-ATATTA
1 ATTTTA-AATATATATATTA
*
84310672 ATTTTAGATATATATATTA
1 ATTTTAAATATATATATTA
84310691 TATAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTAAATATATATATTA
Found at i:84311144 original size:39 final size:40
Alignment explanation
Indices: 84311097--84311250 Score: 138
Period size: 40 Copynumber: 4.0 Consensus size: 40
84311087 GCTAACGCCG
* *
84311097 TTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGC-A
1 TTATAGATCGAGTATTAGCTGCGCTTTTTGAAAAACGCTA
* *
84311136 TTATAGATCAAGTATTAG-TG-GC-TTTTGAAAAATGCTA
1 TTATAGATCGAGTATTAGCTGCGCTTTTTGAAAAACGCTA
* ** * **
84311173 CTATAGATCGAGTATTAGCTGCGCTTTTCAAAAAATGCCG
1 TTATAGATCGAGTATTAGCTGCGCTTTTTGAAAAACGCTA
* * * *
84311213 CTATAGGTCGACTAATTAG-AGCGCTTTTTGAAAAACGC
1 TTATAGATCGAGT-ATTAGCTGCGCTTTTTGAAAAACGC
84311251 CGCAAAAAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
36 12 0.13
37 19 0.20
38 3 0.03
39 18 0.19
40 37 0.39
41 5 0.05
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (40 bp):
TTATAGATCGAGTATTAGCTGCGCTTTTTGAAAAACGCTA
Found at i:84311178 original size:37 final size:38
Alignment explanation
Indices: 84311098--84311206 Score: 123
Period size: 39 Copynumber: 2.9 Consensus size: 38
84311088 CTAACGCCGT
* * * *
84311098 TATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCAT
1 TATAGATCAAGTATTAGCTGCGC-TTTTGAAAAACGCAC
*
84311137 TATAGATCAAGTATTAG-TG-GCTTTTGAAAAATGCTAC
1 TATAGATCAAGTATTAGCTGCGCTTTTGAAAAACGC-AC
* *
84311174 TATAGATCGAGTATTAGCTGCGCTTTTCAAAAA
1 TATAGATCAAGTATTAGCTGCGCTTTTGAAAAA
84311207 ATGCCGCTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
36 12 0.20
37 19 0.32
38 3 0.05
39 26 0.43
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (38 bp):
TATAGATCAAGTATTAGCTGCGCTTTTGAAAAACGCAC
Found at i:84311371 original size:40 final size:40
Alignment explanation
Indices: 84311288--84311394 Score: 101
Period size: 40 Copynumber: 2.7 Consensus size: 40
84311278 ATGTTGTGCT
* * * * *
84311288 TTAGCGGCGCTTTCTGAAAAATGCCGCTATAGATCGAGCA
1 TTAGAGGCGCTTTTTCAAAAACGCCGCTATAGATAGAGCA
*
84311328 TTAGAGGCG-TTTTTCAAAAGACGCCGCTATAGGTAGA-CTA
1 TTAGAGGCGCTTTTTCAAAA-ACGCCGCTATAGATAGAGC-A
* * *
84311368 TTAGCGGTGCTTTTTGAAAAACGCCGC
1 TTAGAGGCGCTTTTTCAAAAACGCCGC
84311395 AAAAAAATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
39 9 0.16
40 37 0.67
41 9 0.16
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
TTAGAGGCGCTTTTTCAAAAACGCCGCTATAGATAGAGCA
Found at i:84311778 original size:21 final size:21
Alignment explanation
Indices: 84311747--84311825 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
84311737 GGTATATGGA
* *
84311747 TTATGGGTTTAGAGATTATGGT
1 TTAT-GGTTTAGAGGTTAGGGT
*
84311769 TTATGGTTTA-AGGGTTGGGGT
1 TTATGGTTTAGA-GGTTAGGGT
*
84311790 TTAAGGTTTAGAGGTTAGGGT
1 TTATGGTTTAGAGGTTAGGGT
*
84311811 TTAGGGTTTAG-GGTT
1 TTATGGTTTAGAGGTT
84311826 TATGTGTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.10
21 39 0.80
22 5 0.10
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.43
Consensus pattern (21 bp):
TTATGGTTTAGAGGTTAGGGT
Found at i:84311811 original size:14 final size:14
Alignment explanation
Indices: 84311751--84311827 Score: 68
Period size: 14 Copynumber: 5.5 Consensus size: 14
84311741 TATGGATTAT
* *
84311751 GGGTTTAGAGATTA
1 GGGTTTAGGGTTTA
* *
84311765 TGGTTTATGGTTTAA
1 GGGTTTAGGGTTT-A
*
84311780 GGG-TTGGGGTTTA
1 GGGTTTAGGGTTTA
*
84311793 AGGTTTAGAGG-TTA
1 GGGTTTAG-GGTTTA
84311807 GGGTTTAGGGTTTA
1 GGGTTTAGGGTTTA
84311821 GGGTTTA
1 GGGTTTA
84311828 TGTGTTATGT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
13 5 0.10
14 39 0.80
15 5 0.10
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (14 bp):
GGGTTTAGGGTTTA
Found at i:84312790 original size:84 final size:84
Alignment explanation
Indices: 84312646--84312799 Score: 200
Period size: 84 Copynumber: 1.8 Consensus size: 84
84312636 ATTATTTCAT
* ** * *
84312646 AAACGCCACTAAAAATTTAATTCCCTATAGTGAAACGTCGACGTTTAAGACAAATGGGTATTGCA
1 AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
84312711 ATTTTACAGCGTTTATGAA
66 ATTTTACAGCGTTTATGAA
* * * * * * *
84312730 AAACGTCACTAAAAATTTAATGCTCTGTAAAGAAACGACGCCATTTAAGTCAAATTGGTATTGTA
1 AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
84312795 ATTTT
66 ATTTT
84312800 GTGGCGTTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 58 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (84 bp):
AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
ATTTTACAGCGTTTATGAA
Found at i:84312807 original size:84 final size:84
Alignment explanation
Indices: 84312646--84312825 Score: 198
Period size: 84 Copynumber: 2.1 Consensus size: 84
84312636 ATTATTTCAT
* ** * *
84312646 AAACGCCACTAAAAATTTAATTCCCTATAGTGAAACGTCGACGTTTAAGACAAATGGGTATTGCA
1 AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
*
84312711 ATTTTACAGCGTTTATGAA
66 ATTTTACAGCGTTAATGAA
* * * * * * *
84312730 AAACGTCACTAAAAATTTAATGCTCTGTAAAGAAACGACGCCATTTAAGTCAAATTGGTATTGTA
1 AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
***
84312795 ATTTTGTGGCGTTAATGAA
66 ATTTTACAGCGTTAATGAA
**
84312814 AAATACCACTAA
1 AAACGCCACTAA
84312826 CGAAACACCT
Statistics
Matches: 77, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (84 bp):
AAACGCCACTAAAAATTTAATGCCCTATAAAGAAACGACGACATTTAAGACAAATGGGTATTGCA
ATTTTACAGCGTTAATGAA
Found at i:84317553 original size:22 final size:22
Alignment explanation
Indices: 84317492--84317556 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
84317482 ACGCCCATGT
*
84317492 AGAGGAGGCACAT-GCC-TATA
1 AGAGGAGGCACATAGCCGTGTA
* * *
84317512 AGAGGAAGCACACA-CGCGTGTG
1 AGAGGAGGCACATAGC-CGTGTA
84317534 AGAGGAGGCACATAGCCGTGTA
1 AGAGGAGGCACATAGCCGTGTA
84317556 A
1 A
84317557 CTCTCTGTCC
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 12 0.35
21 1 0.03
22 20 0.59
23 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.34, T:0.12
Consensus pattern (22 bp):
AGAGGAGGCACATAGCCGTGTA
Found at i:84320723 original size:26 final size:26
Alignment explanation
Indices: 84320666--84320715 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
84320656 ACATATTTTC
*
84320666 TCAAAATTTTACCAAGGGTAAAATCG
1 TCAAAATTTTACCAAGAGTAAAATCG
84320692 TCAAAATTTTACCAAGAGTAAAAT
1 TCAAAATTTTACCAAGAGTAAAAT
84320716 TGTTAAAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (26 bp):
TCAAAATTTTACCAAGAGTAAAATCG
Found at i:84338591 original size:22 final size:22
Alignment explanation
Indices: 84338563--84338608 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
84338553 TATATACACC
84338563 TTCACATTCATCACATCGGCCA
1 TTCACATTCATCACATCGGCCA
*
84338585 TTCACATTCTTCACATCGGCCA
1 TTCACATTCATCACATCGGCCA
84338607 TT
1 TT
84338609 AGGCCTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.35, G:0.09, T:0.33
Consensus pattern (22 bp):
TTCACATTCATCACATCGGCCA
Found at i:84338606 original size:69 final size:71
Alignment explanation
Indices: 84338516--84338657 Score: 234
Period size: 69 Copynumber: 2.0 Consensus size: 71
84338506 TTTATACACT
* *
84338516 TTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATACAC-C-TTCACATTCATCACAT
1 TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACAT
84338579 CGGCCA
66 CGGCCA
* *
84338585 TTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACAT
1 TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACAT
84338650 CGGCCA
66 CGGCCA
84338656 TT
1 TT
84338658 AGGCCTTATC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
69 42 0.63
70 1 0.01
71 24 0.36
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.31
Consensus pattern (71 bp):
TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACAT
CGGCCA
Found at i:84338648 original size:49 final size:49
Alignment explanation
Indices: 84338585--84338868 Score: 463
Period size: 49 Copynumber: 5.9 Consensus size: 49
84338575 ACATCGGCCA
*
84338585 TTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATACACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
84338634 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
*
84338683 TTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
*
84338732 TCCACATTCATCACATCGGCCATTAGGCCTTATCAC----AT--ACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
**
84338775 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTTACACT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
* *
84338824 TTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACA
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
84338869 TCTCATACAT
Statistics
Matches: 220, Mismatches: 9, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
43 40 0.18
45 2 0.01
47 2 0.01
49 176 0.80
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACT
Found at i:84338769 original size:22 final size:22
Alignment explanation
Indices: 84338741--84338812 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
84338731 TTCCACATTC
84338741 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
* * *
84338763 ATCACATAC--ACTTTCA--CATT
1 ATCACAT-CGGCCATT-AGGCCTT
84338783 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
84338806 ATCACAT
1 ATCACAT
84338813 ATATTTACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
20 4 0.11
21 11 0.30
22 18 0.49
23 4 0.11
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:84338847 original size:141 final size:143
Alignment explanation
Indices: 84338587--84338868 Score: 460
Period size: 141 Copynumber: 2.0 Consensus size: 143
84338577 ATCGGCCATT
*
84338587 CACATTCTTCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCG
1 CACATTCATCACATCGGCCATTAGGCCTTATCAC--A-ATA-ACACTTTCACATTCATCACATCG
* *
84338652 GCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATC
62 GCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCGTATC
84338717 ACATATATACACACTTC
127 ACATATATACACACTTC
84338734 CACATTCATCACATCGGCCATTAGGCCTTATCAC-AT-ACACTTTCACATTCATCACATCGGCCA
1 CACATTCATCACATCGGCCATTAGGCCTTATCACAATAACACTTTCACATTCATCACATCGGCCA
** *
84338797 TTAGGCCTTATCACATATATTTACACTTTCACATTCATCACATTGGCCATTAGGCCGTATCACAT
66 TTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCGTATCACAT
84338862 ATATACA
131 ATATACA
84338869 TCTCATACAT
Statistics
Matches: 129, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
141 94 0.73
143 2 0.02
147 33 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (143 bp):
CACATTCATCACATCGGCCATTAGGCCTTATCACAATAACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCGTATCACAT
ATATACACACTTC
Found at i:84341826 original size:40 final size:42
Alignment explanation
Indices: 84341777--84341871 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 42
84341767 GACTCGCTCG
* * *
84341777 ATTGTCTTCGGGACA-TAGCCCGG-TTATAGTGA-TTCGCACA
1 ATTGCCTTCGGGACATTAGCCCGGATT-TAGTCACTTAGCACA
*
84341817 ATTGCCTTCGAGA-ATTAGCCCGGATTTAGTCACTTAGCACA
1 ATTGCCTTCGGGACATTAGCCCGGATTTAGTCACTTAGCACA
**
84341858 AAAGCCTTCGGGAC
1 ATTGCCTTCGGGAC
84341872 TTAATCCGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.02
40 24 0.55
41 19 0.43
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (42 bp):
ATTGCCTTCGGGACATTAGCCCGGATTTAGTCACTTAGCACA
Found at i:84342669 original size:40 final size:40
Alignment explanation
Indices: 84342612--84342772 Score: 270
Period size: 40 Copynumber: 4.0 Consensus size: 40
84342602 CAAATACACG
* * * *
84342612 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
84342652 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
84342692 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
84342732 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
84342771 TC
1 TC
84342773 GTCGAGACTT
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 4 0.03
40 111 0.97
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:84344889 original size:28 final size:28
Alignment explanation
Indices: 84344840--84344908 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
84344830 TTTAAAACCC
* *
84344840 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGATAATTTTGCTCTT
84344867 TAGGGGTAATTTCGATAATTTTGCTCTT
1 TAGGGGTAATTTCGATAATTTTGCTCTT
84344895 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
84344909 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGATAATTTTGCTCTT
Found at i:84345997 original size:12 final size:12
Alignment explanation
Indices: 84345980--84346004 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84345970 AGTTTCGGCT
84345980 AGAGAGGAAAAA
1 AGAGAGGAAAAA
84345992 AGAGAGGAAAAA
1 AGAGAGGAAAAA
84346004 A
1 A
84346005 CCCTAAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AGAGAGGAAAAA
Found at i:84346785 original size:314 final size:314
Alignment explanation
Indices: 84346205--84346834 Score: 1169
Period size: 314 Copynumber: 2.0 Consensus size: 314
84346195 CCTTTAGCAG
*
84346205 AATCCACCTGAACTTCAACACTTACCCCTCCTGCACTAAAAAAAATAAATGCATCTATTTGCCAA
1 AATCCACCTGAACTCCAACACTTACCCCTCCTGCACTAAAAAAAATAAATGCATCTATTTGCCAA
84346270 CACAGGGAACCCGATCCTTGCCTTCCCAAAGCTCCACACGCACTTTTCTAGGAGCTAGTGGCGTC
66 CACAGGGAACCCGATCCTTGCCTTCCCAAAGCTCCACACGCACTTTTCTAGGAGCTAGTGGCGTC
84346335 ACCCTTGCCACTTAACCAAGGCTCTTTTTGTGATGCAATTTACCCATCACTCCACTTAAGGCCAC
131 ACCCTTGCCACTTAACCAAGGCTCTTTTTGTGATGCAATTTACCCATCACTCCACTTAAGGCCAC
84346400 TTAGCCAGAACCCCTAACTCCTAAGTCTAAAATTCCAAAAATTCAACTGGGTTTGGCCAACTCAT
196 TTAGCCAGAACCCCTAACTCCTAAGTCTAAAATTCCAAAAATTCAACTGGGTTTGGCCAACTCAT
*
84346465 TGGGCCTTCTATAAGCCCATTTACCTACTCAAAATACTAATTCCATATCCAAAT
261 TGGGCCTTCTATAAGCCCATTTACCTACTCAAAATACTAATTCCACATCCAAAT
84346519 AATCCACCTGAACTCCAACACTTACCCCTCCTGCACT-AAAAAAATAAATGCATCTATTTGCCAA
1 AATCCACCTGAACTCCAACACTTACCCCTCCTGCACTAAAAAAAATAAATGCATCTATTTGCCAA
*
84346583 CACAGGGAA-TCGATCCCTTGCCTTCCCAAAGCTCCACACGCCACTTTTCTAGGAGCCTAGTGGC
66 CACAGGGAACCCGAT-CCTTGCCTTCCCAAAGCTCCACACG-CACTTTTCTAGGAG-CTAGTGGC
84346647 GTCACCCTTGCCACTTAACCAAGGCTCTTTTTGTGATGCAATTT-CCCATCACTCCACTTAAGGC
128 GTCACCCTTGCCACTTAACCAAGGCTCTTTTTGTGATGCAATTTACCCATCACTCCACTTAAGGC
84346711 CACTTAGCCAGAACCCCTAACTCCTAAGTCTAAAATTCCAAAAATTCAACTGGGTTTTGGCCAAC
193 CACTTAGCCAGAACCCCTAACTCCTAAGTCTAAAATTCCAAAAATTCAACTGGG-TTTGGCCAAC
84346776 TCA-TGGGCCTTCTATAAGCCCATTTACCTACTCAAAATACTAATTCCACATCCAAAT
257 TCATTGGGCCTTCTATAAGCCCATTTACCTACTCAAAATACTAATTCCACATCCAAAT
84346833 AA
1 AA
84346835 AATTTTAAAA
Statistics
Matches: 309, Mismatches: 3, Indels: 8
0.97 0.01 0.03
Matches are distributed among these distances:
312 4 0.01
313 61 0.20
314 179 0.58
315 65 0.21
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (314 bp):
AATCCACCTGAACTCCAACACTTACCCCTCCTGCACTAAAAAAAATAAATGCATCTATTTGCCAA
CACAGGGAACCCGATCCTTGCCTTCCCAAAGCTCCACACGCACTTTTCTAGGAGCTAGTGGCGTC
ACCCTTGCCACTTAACCAAGGCTCTTTTTGTGATGCAATTTACCCATCACTCCACTTAAGGCCAC
TTAGCCAGAACCCCTAACTCCTAAGTCTAAAATTCCAAAAATTCAACTGGGTTTGGCCAACTCAT
TGGGCCTTCTATAAGCCCATTTACCTACTCAAAATACTAATTCCACATCCAAAT
Found at i:84348958 original size:28 final size:28
Alignment explanation
Indices: 84348912--84348980 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84348902 TTTAAAACCC
*
84348912 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
84348939 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
84348967 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
84348981 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:84350632 original size:20 final size:20
Alignment explanation
Indices: 84350609--84350646 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
84350599 CACATCCAAA
*
84350609 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
84350629 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
84350647 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:84356961 original size:28 final size:28
Alignment explanation
Indices: 84356915--84356983 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
84356905 TTTAAAACCC
*
84356915 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
84356942 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
84356970 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
84356984 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:84360127 original size:22 final size:22
Alignment explanation
Indices: 84360099--84360144 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
84360089 TATATACACC
*
84360099 TTCACATTCATCACATCGTCCA
1 TTCACATTCATCACATCGGCCA
*
84360121 TTCACATTCTTCACATCGGCCA
1 TTCACATTCATCACATCGGCCA
84360143 TT
1 TT
84360145 AGGCCTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.35, G:0.07, T:0.35
Consensus pattern (22 bp):
TTCACATTCATCACATCGGCCA
Found at i:84360142 original size:69 final size:71
Alignment explanation
Indices: 84360052--84360193 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 71
84360042 TTTATACACT
* *
84360052 TTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATACAC-C-TTCACATTCATCACAT
1 TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACAT
*
84360115 CGTCCA
66 CGGCCA
* * *
84360121 TTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACGT
1 TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACAT
84360186 CGGCCA
66 CGGCCA
84360192 TT
1 TT
84360194 AGGCCTTATC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 42 0.65
70 1 0.02
71 22 0.34
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.32
Consensus pattern (71 bp):
TTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACACTTTCACATTCATCACAT
CGGCCA
Done.