Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 14 of 228
Found at i:5006366 original size:15 final size:16
Alignment explanation
Indices: 5006329--5006395 Score: 68
Period size: 15 Copynumber: 4.4 Consensus size: 16
5006319 AGCTATTATA
*
5006329 TAATAAT-ATGATAAG
1 TAATAATAATAATAAG
**
5006344 TAGCAATAAT-ATAAG
1 TAATAATAATAATAAG
5006359 TAATAATAATAATAA-
1 TAATAATAATAATAAG
* *
5006374 TAATAGTAATAATAAA
1 TAATAATAATAATAAG
5006390 TAATAA
1 TAATAA
5006396 AAGATGATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
15 32 0.74
16 11 0.26
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (16 bp):
TAATAATAATAATAAG
Found at i:5013701 original size:25 final size:26
Alignment explanation
Indices: 5013653--5013702 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
5013643 TACAATTAAA
* *
5013653 ATTATTATATTATATTATATATATGT
1 ATTATTATATAATATTATACATATGT
*
5013679 ATTATT-TATAATATTTTACATATG
1 ATTATTATATAATATTATACATATG
5013703 GAATATAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTATTATATAATATTATACATATGT
Found at i:5013984 original size:20 final size:20
Alignment explanation
Indices: 5013922--5013985 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
5013912 TATAAACGTG
*
5013922 ATAAATTTATAATCTTATTT
1 ATAAACTTATAATCTTATTT
* * **
5013942 ATAAACCTA-ATATTTTAAAT
1 ATAAACTTATA-ATCTTATTT
*
5013962 ATAAAGTTATAATCTTATTT
1 ATAAACTTATAATCTTATTT
5013982 ATAA
1 ATAA
5013986 CTATTTAAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (20 bp):
ATAAACTTATAATCTTATTT
Found at i:5014070 original size:22 final size:23
Alignment explanation
Indices: 5014045--5014088 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
5014035 AAATTTTATA
*
5014045 AATAATTTAA-AAGAATAAATTC
1 AATAATATAAGAAGAATAAATTC
5014067 AATAATATAATGAAGAATAAAT
1 AATAATATAA-GAAGAATAAAT
5014089 GTTATACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
24 10 0.53
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
AATAATATAAGAAGAATAAATTC
Found at i:5015347 original size:12 final size:12
Alignment explanation
Indices: 5015330--5015362 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
5015320 GTTCACAAAT
5015330 AAAAACATAAAG
1 AAAAACATAAAG
5015342 AAAAACAT-AAG
1 AAAAACATAAAG
5015353 -AAAACATAAA
1 AAAAACATAAA
5015363 AATAACTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.35
11 5 0.25
12 8 0.40
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (12 bp):
AAAAACATAAAG
Found at i:5017522 original size:12 final size:12
Alignment explanation
Indices: 5017505--5017529 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5017495 CTAAATTGAA
5017505 TAAAAGTAAAAC
1 TAAAAGTAAAAC
5017517 TAAAAGTAAAAC
1 TAAAAGTAAAAC
5017529 T
1 T
5017530 TTAAAGACAA
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:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (12 bp):
TAAAAGTAAAAC
Found at i:5018018 original size:21 final size:21
Alignment explanation
Indices: 5017989--5018047 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
5017979 GTGGATCAGT
5017989 TCTCACGAGCTTCTGTTCAAC
1 TCTCACGAGCTTCTGTTCAAC
* * *
5018010 TCTCGCGAGCTTTTGTTCAGC
1 TCTCACGAGCTTCTGTTCAAC
* * *
5018031 TCTTATGAACTTCTGTT
1 TCTCACGAGCTTCTGTT
5018048 AATGATGTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (21 bp):
TCTCACGAGCTTCTGTTCAAC
Found at i:5021926 original size:17 final size:18
Alignment explanation
Indices: 5021893--5021928 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
5021883 TGCTTCCAAG
5021893 AAGCACTTTTGGGACAAA
1 AAGCACTTTTGGGACAAA
5021911 AAGCACTTTT-GGACAAA
1 AAGCACTTTTGGGACAAA
5021928 A
1 A
5021929 TCATTTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (18 bp):
AAGCACTTTTGGGACAAA
Found at i:5041828 original size:30 final size:30
Alignment explanation
Indices: 5041792--5041853 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
5041782 CTATGAAAAG
5041792 TTACAAAATGATCATCAAACTATTACTAAA
1 TTACAAAATGATCATCAAACTATTACTAAA
5041822 TTACAAAATGATCATCAAACTATTACTAAA
1 TTACAAAATGATCATCAAACTATTACTAAA
5041852 TT
1 TT
5041854 TTATTTTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.32
Consensus pattern (30 bp):
TTACAAAATGATCATCAAACTATTACTAAA
Found at i:5047398 original size:18 final size:18
Alignment explanation
Indices: 5047375--5047428 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
5047365 TTAAATCTTT
5047375 AAAATATTAATTATATAA
1 AAAATATTAATTATATAA
* **
5047393 AAAATATGAAAAATATAA
1 AAAATATTAATTATATAA
* *
5047411 AAATATTTTAATTTTATA
1 AAA-ATATTAATTATATA
5047429 CTGATATAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATATTAATTATATAA
Found at i:5047622 original size:3 final size:3
Alignment explanation
Indices: 5047614--5047643 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5047604 ATTTTTCAGG
5047614 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5047644 GAGTTAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5050918 original size:45 final size:44
Alignment explanation
Indices: 5050802--5050925 Score: 149
Period size: 45 Copynumber: 2.8 Consensus size: 44
5050792 GCTATATGCC
* *
5050802 TAAAATGAGTAAGACCATAATTGAAAGATGTTATGGCTTCATGA
1 TAAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
* **
5050846 TAAGGATGAGTAAGACCATAGCAGAAAGATGTTATGGCATCATGA
1 TAA-AATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
* * * *
5050891 TATAAATGAGTAGGATCATGGTTGAAAGACGTTAT
1 TA-AAATGAGTAAGACCATAGTTGAAAGATGTTAT
5050926 AACATCCTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 3 0.05
45 62 0.94
46 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
Found at i:5051095 original size:27 final size:27
Alignment explanation
Indices: 5050948--5051222 Score: 190
Period size: 27 Copynumber: 10.2 Consensus size: 27
5050938 CAGCCCGACA
* * * * *
5050948 GGACGTTAAACACAAGATAATCCAATG
1 GGACATTAAACACGAGATAGTTCAACG
* * * * *
5050975 AGACATTAAACATGGGATAGCTCGACG
1 GGACATTAAACACGAGATAGTTCAACG
** * *
5051002 AAACATTAAATACGAGATAGTTCGACG
1 GGACATTAAACACGAGATAGTTCAACG
* * * ** *
5051029 AGACATTAAACATGGGATAGCCCGACG
1 GGACATTAAACACGAGATAGTTCAACG
*
5051056 GGACGTTAAACACGAGATAGTTCAACG
1 GGACATTAAACACGAGATAGTTCAACG
* * ** *
5051083 GGATATTAAACACAAGATAGTTTGATG
1 GGACATTAAACACGAGATAGTTCAACG
* * * *
5051110 GGATATTAAACATGAGATATTTCAATG
1 GGACATTAAACACGAGATAGTTCAACG
** **
5051137 GGACATTAAACATAAGATAGTTCAATA
1 GGACATTAAACACGAGATAGTTCAACG
* *
5051164 GGACATTAAACACGAGATATTTCAACA
1 GGACATTAAACACGAGATAGTTCAACG
* * * *
5051191 GGACATTAAACACGGGTTAGTCCATCG
1 GGACATTAAACACGAGATAGTTCAACG
5051218 GGACA
1 GGACA
5051223 CTCAACATGG
Statistics
Matches: 195, Mismatches: 53, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (27 bp):
GGACATTAAACACGAGATAGTTCAACG
Found at i:5051102 original size:54 final size:54
Alignment explanation
Indices: 5050943--5051202 Score: 223
Period size: 54 Copynumber: 4.8 Consensus size: 54
5050933 TTTGACAGCC
* * * * * * * **
5050943 CGACAGGACGTTAAACACAAGATAATCCAATGAGACATTAAACATGGGATAGCT
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
** * * * ** *
5050997 CGACGAAACATTAAATACGAGATAGTTCGACGAGACATTAAACATGGGATAGCC
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
* * * *
5051051 CGACGGGACGTTAAACACGAGATAGTTCAACGGGATATTAAACACAAGATAGTT
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
* * * * * * *
5051105 TGATGGGATATTAAACATGAGATATTTCAATGGGACATTAAACATAAGATAGTT
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
* ** * *
5051159 CAATAGGACATTAAACACGAGATATTTCAACAGGACATTAAACA
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACA
5051203 CGGGTTAGTC
Statistics
Matches: 167, Mismatches: 39, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 167 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (54 bp):
CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
Found at i:5057901 original size:30 final size:30
Alignment explanation
Indices: 5057861--5057921 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
5057851 ACACACGAAC
*
5057861 GCCCTTATCTCTG-CTCTCTGCTGCTTCTTT
1 GCCCTCATCTCTGCCT-TCTGCTGCTTCTTT
*
5057891 GCCCTCATCTCTGCCTTCTGCTGGTTCTTT
1 GCCCTCATCTCTGCCTTCTGCTGCTTCTTT
5057921 G
1 G
5057922 TTCTGCCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.03, C:0.36, G:0.16, T:0.44
Consensus pattern (30 bp):
GCCCTCATCTCTGCCTTCTGCTGCTTCTTT
Found at i:5061060 original size:13 final size:13
Alignment explanation
Indices: 5061039--5061086 Score: 87
Period size: 13 Copynumber: 3.7 Consensus size: 13
5061029 ACACTCAAGT
5061039 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
5061052 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
5061065 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
5061078 TTCTCAAAA
1 TTCTCAAAA
5061087 ACAATGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:5070678 original size:20 final size:20
Alignment explanation
Indices: 5070653--5070706 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
5070643 TGTGGTTCAA
*
5070653 CTCATTCAAGCTCAAGTTAG
1 CTCATTCAAGCTCAAGTCAG
*
5070673 CTCATTCATGCTCAAGTCAG
1 CTCATTCAAGCTCAAGTCAG
*
5070693 CTCATTTAAGCTCA
1 CTCATTCAAGCTCA
5070707 GTTTAACTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (20 bp):
CTCATTCAAGCTCAAGTCAG
Found at i:5071090 original size:45 final size:45
Alignment explanation
Indices: 5071040--5071233 Score: 289
Period size: 45 Copynumber: 4.3 Consensus size: 45
5071030 GAACGGCATG
*
5071040 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTTATGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* *
5071085 AAATTAAGGAAGCACTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
5071130 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * *
5071175 AATTTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
5071220 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
5071234 CCATGGCCGA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:5072678 original size:31 final size:31
Alignment explanation
Indices: 5072640--5072701 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
5072630 TGTAAAAAGT
5072640 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
1 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
5072671 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
1 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
5072702 GGCTGGGCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (31 bp):
TCGTGCATGGTGAGTACTAGAGGTGTTCATA
Found at i:5072947 original size:30 final size:30
Alignment explanation
Indices: 5072906--5072963 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
5072896 TTAACAAGCC
*
5072906 AATGCCTCTAAAATAGTAACAAAATTAACA
1 AATGCCTCTAAAATAATAACAAAATTAACA
*
5072936 AATGTCTCTAAAATAATAACAAAATTAA
1 AATGCCTCTAAAATAATAACAAAATTAA
5072964 TAATAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (30 bp):
AATGCCTCTAAAATAATAACAAAATTAACA
Found at i:5076363 original size:30 final size:29
Alignment explanation
Indices: 5076295--5076365 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
5076285 ATATGAGCAA
* * *
5076295 TGATGCAATGTTATATATGAATTTTAATT
1 TGATGTAATTTTATACATGAATTTTAATT
* *
5076324 TTATGTAATTTTATACATGAGATTTTGATT
1 TGATGTAATTTTATACATGA-ATTTTAATT
*
5076354 TGATTTAATTTT
1 TGATGTAATTTT
5076366 TGTAAATAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (29 bp):
TGATGTAATTTTATACATGAATTTTAATT
Found at i:5076514 original size:31 final size:31
Alignment explanation
Indices: 5076474--5076532 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
5076464 AAGACATTTT
5076474 TTTATATGTGTAG-AATTGAATCAAAATCACGG
1 TTTATATGTGT-GTAATTGAAT-AAAATCACGG
*
5076506 TTTA-ATGTGTGTAATTGCATAAAATCA
1 TTTATATGTGTGTAATTGAATAAAATCA
5076533 AAATTCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 8 0.32
31 13 0.52
32 4 0.16
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTATATGTGTGTAATTGAATAAAATCACGG
Found at i:5078748 original size:56 final size:50
Alignment explanation
Indices: 5078658--5078818 Score: 164
Period size: 50 Copynumber: 3.1 Consensus size: 50
5078648 ACATTTGGGT
* * *
5078658 GATGAGA--TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCA---A
* *
5078709 GATTATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
1 G---ATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCAA
** * *
5078762 GATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCAA
*
5078812 TATGAGA
1 GATGAGA
5078819 ACTCTCATAT
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
50 49 0.52
51 1 0.01
53 2 0.02
54 6 0.06
56 36 0.38
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCAA
Found at i:5078767 original size:50 final size:50
Alignment explanation
Indices: 5078658--5078844 Score: 162
Period size: 50 Copynumber: 3.7 Consensus size: 50
5078648 ACATTTGGGT
* * * *
5078658 GATGAGA--TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCA---A
5078709 GATTATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
1 G---ATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
*** * * *
5078762 GATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
* ** * * *
5078812 TATGAGAACTCTCATATAAAACCATATCTGGGA
1 GATGAGAGGTCCCATATAAGACCATGTCTGGGA
5078845 TATGAAATTG
Statistics
Matches: 111, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
50 66 0.59
51 1 0.01
53 2 0.02
54 6 0.05
56 36 0.32
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
Found at i:5080974 original size:40 final size:39
Alignment explanation
Indices: 5080930--5081015 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
5080920 ACATGTGTCA
* * *
5080930 TATATTACCCCAAGGATCCACGACAAGGGCTGGACCTCAT
1 TATATTACCCCAAGAATCCACAACAA-GGCTAGACCTCAT
*
5080970 TATATTA-CCCAAGAATCCACAACAAGGCTAGATCTCAT
1 TATATTACCCCAAGAATCCACAACAAGGCTAGACCTCAT
5081008 TATATTAC
1 TATATTAC
5081016 TCGAGAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 18 0.44
39 16 0.39
40 7 0.17
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (39 bp):
TATATTACCCCAAGAATCCACAACAAGGCTAGACCTCAT
Found at i:5081023 original size:38 final size:38
Alignment explanation
Indices: 5080930--5081056 Score: 128
Period size: 39 Copynumber: 3.3 Consensus size: 38
5080920 ACATGTGTCA
* * * *
5080930 TATATTACCCCAAGGATCCACGACAAGGGCTGGACCTCAT
1 TATATTA-CCCAAGAATCCACAACAA-GGCTAGATCTCAT
5080970 TATATTACCCAAGAATCCACAACAAGGCTAGATCTCAT
1 TATATTACCCAAGAATCCACAACAAGGCTAGATCTCAT
* * *** * *
5081008 TATATTACTCGAGAATCTGTAACAAATGCTAGATCTCGT
1 TATATTACCCAAGAATCCACAAC-AAGGCTAGATCTCAT
5081047 TATATTACCC
1 TATATTACCC
5081057 GATAATTTGT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
38 29 0.39
39 38 0.51
40 7 0.09
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (38 bp):
TATATTACCCAAGAATCCACAACAAGGCTAGATCTCAT
Found at i:5081068 original size:39 final size:39
Alignment explanation
Indices: 5080969--5081089 Score: 145
Period size: 39 Copynumber: 3.1 Consensus size: 39
5080959 CTGGACCTCA
* *** * *
5080969 TTATATTACCCAAGAATCCACAAC-AAGGCTAGATCTCA
1 TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
*
5081007 TTATATTACTCGAGAATCTGTAACAAATGCTAGATCTCG
1 TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
* * *
5081046 TTATATTACCCGATAATTTGTAACAAATGCTAGATCTTG
1 TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
5081085 TTATA
1 TTATA
5081090 ACCTGTGCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 19 0.27
39 52 0.73
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (39 bp):
TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
Found at i:5096397 original size:454 final size:454
Alignment explanation
Indices: 5095742--5097091 Score: 2673
Period size: 454 Copynumber: 3.0 Consensus size: 454
5095732 ATCAAGCCTA
*
5095742 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCAAAATGATATCTTACT
1 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
5095807 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
66 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
5095872 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
131 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
5095937 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
196 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
5096002 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
261 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
*
5096067 ACGATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
326 ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
5096132 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
391 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
5096196 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
1 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
5096261 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
66 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
5096326 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
131 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
5096391 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
196 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
5096456 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
261 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
5096521 ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
326 ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
5096586 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
391 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
5096650 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
1 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
5096715 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
66 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
5096780 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
131 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
5096845 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
196 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
5096910 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
261 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
*
5096975 ACAATAGAAGCAAATTAATAGTACCAAACACGTTTGGTCATTGTTAAATGATTCAGTATTCTAAT
326 ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
5097040 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAA
391 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAA
5097092 GAAATAAAAT
Statistics
Matches: 893, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
454 893 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (454 bp):
CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
Found at i:5099888 original size:13 final size:13
Alignment explanation
Indices: 5099851--5099901 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
5099841 TTCTTCATTA
5099851 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
5099864 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
* *
5099877 CTTTTGAGAAGTA
1 CTTTTGAAAAGTG
5099890 CTTTTGAAAAGT
1 CTTTTGAAAAGT
5099902 TTAGTTTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:5100400 original size:13 final size:13
Alignment explanation
Indices: 5100390--5100414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5100380 TTTCAAAAGT
5100390 ACTTTTGAAAAAC
1 ACTTTTGAAAAAC
5100403 ACTTTTGAAAAA
1 ACTTTTGAAAAA
5100415 TTAAAAATTT
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:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTGAAAAAC
Found at i:5101605 original size:16 final size:16
Alignment explanation
Indices: 5101536--5101603 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
5101526 TTTGGTTCGC
5101536 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
5101552 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
5101568 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
5101584 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
5101600 TGTA
1 TGTA
5101604 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:5101638 original size:45 final size:44
Alignment explanation
Indices: 5101584--5101678 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
5101574 GGATTAGAGG
* *
5101584 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
5101629 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
5101673 TGTAAT
1 TGTAAT
5101679 AAAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:5101848 original size:25 final size:25
Alignment explanation
Indices: 5101816--5101870 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
5101806 TAATTTAATC
*
5101816 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
5101840 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
5101865 ATATAT
1 ATATAT
5101871 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:5102052 original size:47 final size:46
Alignment explanation
Indices: 5102001--5102161 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
5101991 GATTTAATAA
5102001 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
5102048 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
5102089 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
5102136 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
5102162 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:5106089 original size:13 final size:13
Alignment explanation
Indices: 5106073--5106102 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5106063 AATCCTTTCA
5106073 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
5106086 AAAAAAAAAGAAG
1 AAAAAAAAAAAAG
5106099 AAAA
1 AAAA
5106103 TAAAGAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:5106107 original size:12 final size:10
Alignment explanation
Indices: 5106072--5106109 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
5106062 AAATCCTTTC
5106072 AAAA-AAAAA
1 AAAAGAAAAA
5106081 AAAAGAAAAA
1 AAAAGAAAAA
5106091 AAAAGAAGAAA
1 AAAAGAA-AAA
5106102 ATAAAGAA
1 A-AAAGAA
5106110 CCAACCCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 4 0.15
10 12 0.46
11 4 0.15
12 6 0.23
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:5114259 original size:16 final size:16
Alignment explanation
Indices: 5114240--5114281 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
5114230 TAAAATTATT
5114240 AAATATTAAAATAAAA
1 AAATATTAAAATAAAA
*
5114256 AAATA-TAAATATTAAA
1 AAATATTAAA-ATAAAA
5114272 AAA-ATTAAAA
1 AAATATTAAAA
5114282 ATAATATGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATTAAAATAAAA
Found at i:5114283 original size:18 final size:17
Alignment explanation
Indices: 5114251--5114284 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5114241 AATATTAAAA
*
5114251 TAAAAAAATATAAATAT
1 TAAAAAAATAAAAATAT
5114268 TAAAAAAATTAAAAATA
1 TAAAAAAA-TAAAAATA
5114285 ATATGGACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAAATAAAAATAT
Found at i:5116667 original size:25 final size:24
Alignment explanation
Indices: 5116612--5116668 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
5116602 AACTTTAGTT
*
5116612 TAAA-AAAAATAAAAAAACATAAT
1 TAAATAAAAATAAAAAAACATAAA
*
5116635 TAATTAAAAATAAAAAAA-ATCAAA
1 TAAATAAAAATAAAAAAACAT-AAA
5116659 TAACATAAAA
1 TAA-ATAAAA
5116669 CTTTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.18
24 18 0.64
25 5 0.18
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.19
Consensus pattern (24 bp):
TAAATAAAAATAAAAAAACATAAA
Found at i:5118698 original size:23 final size:22
Alignment explanation
Indices: 5118672--5118718 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
5118662 TTATTTTACC
*
5118672 AAAATAAATCTAAAAAAATAAAA
1 AAAATAAA-ATAAAAAAATAAAA
*
5118695 AAAATAAAATAAAAAAATCAAA
1 AAAATAAAATAAAAAAATAAAA
5118717 AA
1 AA
5118719 TCAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (22 bp):
AAAATAAAATAAAAAAATAAAA
Found at i:5125346 original size:21 final size:24
Alignment explanation
Indices: 5125317--5125373 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 24
5125307 TTCTTTTATT
*
5125317 AAATGTATACATACATAA-AA-A-
1 AAATATATACATACATAATAATAG
* *
5125338 AAATATATAAATATATAATAATTAG
1 AAATATATACATACATAATAA-TAG
5125363 AAATATATACA
1 AAATATATACA
5125374 ATCTAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 15 0.54
22 2 0.07
24 1 0.04
25 10 0.36
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (24 bp):
AAATATATACATACATAATAATAG
Found at i:5125460 original size:18 final size:18
Alignment explanation
Indices: 5125429--5125475 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
5125419 TTTAAAAATA
*
5125429 TAAAAATATTTAATAGTTTT
1 TAAAAAT-TATAAT-GTTTT
*
5125449 T-AAAATTATAATTTTTT
1 TAAAAATTATAATGTTTT
5125466 TAAAAATTAT
1 TAAAAATTAT
5125476 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 13 0.54
19 5 0.21
20 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TAAAAATTATAATGTTTT
Found at i:5125518 original size:11 final size:11
Alignment explanation
Indices: 5125502--5125526 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5125492 AAAATTTATA
5125502 ATATTATTTTT
1 ATATTATTTTT
5125513 ATATTATTTTT
1 ATATTATTTTT
5125524 ATA
1 ATA
5125527 ATTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:5125639 original size:11 final size:12
Alignment explanation
Indices: 5125607--5125647 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
5125597 CAATTATCGT
*
5125607 ATTTTTTTTGTAA
1 ATTTTTTTTAT-A
5125620 ATTTTTTTTATA
1 ATTTTTTTTATA
5125632 ATTTTTTTTATA
1 ATTTTTTTTATA
5125644 ATTT
1 ATTT
5125648 ATATGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (12 bp):
ATTTTTTTTATA
Found at i:5132786 original size:22 final size:22
Alignment explanation
Indices: 5132743--5132786 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5132733 TTTATGTGAT
*
5132743 ATAAATTACAAAATATATAAAA
1 ATAAATTACAAAATATACAAAA
5132765 ATAAATTA-AAAATATTACAAAA
1 ATAAATTACAAAATA-TACAAAA
5132787 GTATAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAAATTACAAAATATACAAAA
Found at i:5137921 original size:18 final size:18
Alignment explanation
Indices: 5137896--5137945 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
5137886 TCACCTAAAT
* *
5137896 CCAACCCAATCCAAGTAT
1 CCAACCCAATCCAACTAC
* *
5137914 CTAACCCAACCCAACTAC
1 CCAACCCAATCCAACTAC
5137932 CCAACCCAATCCAA
1 CCAACCCAATCCAA
5137946 TCATAAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.46, G:0.02, T:0.12
Consensus pattern (18 bp):
CCAACCCAATCCAACTAC
Found at i:5138100 original size:9 final size:9
Alignment explanation
Indices: 5138086--5138161 Score: 64
Period size: 9 Copynumber: 8.4 Consensus size: 9
5138076 GTAGTGATTC
5138086 AATTCGGTT
1 AATTCGGTT
*
5138095 AATTCGGAT
1 AATTCGGTT
* *
5138104 AATTTGATT
1 AATTCGGTT
* *
5138113 AATTTGGGT
1 AATTCGGTT
*
5138122 AATTCAGTT
1 AATTCGGTT
5138131 AATTCGAG-T
1 AATTCG-GTT
**
5138140 AATTTAGTT
1 AATTCGGTT
5138149 AATTCGGTT
1 AATTCGGTT
5138158 AATT
1 AATT
5138162 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
8 1 0.02
9 49 0.96
10 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:5138114 original size:18 final size:18
Alignment explanation
Indices: 5138092--5138162 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
5138082 ATTCAATTCG
5138092 GTTAATTCGGATAATTT-
1 GTTAATTCGGATAATTTA
* * *
5138109 GATTAATTTGGGTAATTCA
1 G-TTAATTCGGATAATTTA
5138128 GTTAATTC-GAGTAATTTA
1 GTTAATTCGGA-TAATTTA
*
5138146 GTTAATTCGGTTAATTT
1 GTTAATTCGGATAATTT
5138163 TTAACCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
17 2 0.05
18 39 0.91
19 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (18 bp):
GTTAATTCGGATAATTTA
Found at i:5138124 original size:27 final size:27
Alignment explanation
Indices: 5138080--5138162 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
5138070 AATTATGTAG
* *
5138080 TGATTCAATTCGGTTAATTCGGATAATT
1 TGATT-AATTTGGTTAATTCGGTTAATT
* *
5138108 TGATTAATTTGGGTAATTCAGTTAATT
1 TGATTAATTTGGTTAATTCGGTTAATT
* * *
5138135 CGAGTAATTTAGTTAATTCGGTTAATT
1 TGATTAATTTGGTTAATTCGGTTAATT
5138162 T
1 T
5138163 TTAACCAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 40 0.89
28 5 0.11
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (27 bp):
TGATTAATTTGGTTAATTCGGTTAATT
Found at i:5140257 original size:5 final size:5
Alignment explanation
Indices: 5140247--5140317 Score: 63
Period size: 5 Copynumber: 13.4 Consensus size: 5
5140237 AGCTACCCCA
* *
5140247 TTTAT TTTAT TTTAT TTTAT TATTATT TGTTAT ATTAT TTAAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT T-TTA-T T-TTAT TTTAT TTTAT TTTAT
*
5140295 TTTCT TAATT-T TTTAT TTTAT TT
1 TTTAT T--TTAT TTTAT TTTAT TT
5140318 ATTCATTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
4 2 0.04
5 40 0.73
6 6 0.11
7 7 0.13
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:5140467 original size:12 final size:11
Alignment explanation
Indices: 5140443--5140510 Score: 55
Period size: 12 Copynumber: 5.8 Consensus size: 11
5140433 TTAAGTTTAC
*
5140443 TTTTTTTTGTT
1 TTTTTTTTATT
5140454 TTTGTTTTTATT
1 TTT-TTTTTATT
5140466 TTTTATTTTATT
1 TTTT-TTTTATT
*
5140478 TTCTTATTTATCT
1 TT-TTTTTTAT-T
* *
5140491 TTCTTTTTAAT
1 TTTTTTTTATT
*
5140502 TTTGTTTTA
1 TTTTTTTTA
5140511 GTTGCTTAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
11 12 0.26
12 29 0.63
13 5 0.11
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:5145203 original size:10 final size:10
Alignment explanation
Indices: 5145148--5145228 Score: 64
Period size: 10 Copynumber: 8.4 Consensus size: 10
5145138 GTTTTATAAT
5145148 TAAAATCATT-
1 TAAAAT-ATTA
5145158 TAAAAT-TTA
1 TAAAATATTA
*
5145167 TTAAA-ATTA
1 TAAAATATTA
* *
5145176 TAGAAGACTTA
1 TAAAATA-TTA
*
5145187 TAGAATATTA
1 TAAAATATTA
5145197 TAAAATATTA
1 TAAAATATTA
5145207 TAAAA-A-TA
1 TAAAATATTA
*
5145215 AAAAATATTA
1 TAAAATATTA
5145225 TAAA
1 TAAA
5145229 TTATAAATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
8 8 0.14
9 12 0.21
10 29 0.50
11 9 0.16
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (10 bp):
TAAAATATTA
Found at i:5145240 original size:18 final size:17
Alignment explanation
Indices: 5145193--5145245 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
5145183 CTTATAGAAT
5145193 ATTATAAAATATTATAAA
1 ATTATAAAATATTAT-AA
* *
5145211 AATAAAAAATATTATAA
1 ATTATAAAATATTATAA
5145228 ATTAT-AAATATATATAA
1 ATTATAAAATAT-TATAA
5145245 A
1 A
5145246 AGTGCAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 6 0.20
17 11 0.37
18 13 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTATAAAATATTATAA
Found at i:5145245 original size:10 final size:9
Alignment explanation
Indices: 5145184--5145245 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 9
5145174 TATAGAAGAC
5145184 TTATAGAATA
1 TTATA-AATA
5145194 TTATAAAATA
1 TTAT-AAATA
*
5145204 TTATAAAAA
1 TTATAAATA
* *
5145213 TAAAAAATA
1 TTATAAATA
5145222 TTAT-AA-A
1 TTATAAATA
5145229 TTATAAATA
1 TTATAAATA
5145238 TATATAAA
1 T-TATAAA
5145246 AGTGCAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 5 0.12
8 4 0.10
9 14 0.33
10 18 0.43
11 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
TTATAAATA
Found at i:5145386 original size:9 final size:9
Alignment explanation
Indices: 5145329--5145389 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
5145319 AAAGTTATGA
*
5145329 AAAAAATAT
1 AAAAATTAT
*
5145338 TAAAATTAAT
1 AAAAATT-AT
* *
5145348 AAAATTTAC
1 AAAAATTAT
5145357 AAAATATTAT
1 AAAA-ATTAT
**
5145367 AAAAACCAT
1 AAAAATTAT
5145376 AAAAATTAT
1 AAAAATTAT
5145385 AAAAA
1 AAAAA
5145390 AAACTAAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
9 25 0.64
10 14 0.36
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:5145397 original size:19 final size:18
Alignment explanation
Indices: 5145308--5145400 Score: 53
Period size: 19 Copynumber: 4.9 Consensus size: 18
5145298 ATGAATTGCG
*
5145308 TAAAAAAAAGT-AAAGTTA
1 TAAAAAAAA-TAAAAATTA
*
5145326 TGAAAAAAATATTAAAATTAA
1 T-AAAAAAA-ATAAAAATT-A
*** *
5145347 TAAAATTTACAAAATATTA
1 TAAAAAAAATAAAA-ATTA
**
5145366 TAAAAACCATAAAAATTA
1 TAAAAAAAATAAAAATTA
5145384 TAAAAAAAACTAAAAAT
1 TAAAAAAAA-TAAAAAT
5145401 ACATGAAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
18 12 0.21
19 30 0.53
20 13 0.23
21 2 0.04
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAAAAAATAAAAATTA
Found at i:5145794 original size:20 final size:20
Alignment explanation
Indices: 5145751--5145809 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
5145741 TACAATATTT
*
5145751 TAATTCATATAACTTTTTTAA
1 TAATTTATATAA-TTTTTTAA
5145772 TAATTTATATAATTTTTGT-A
1 TAATTTATATAATTTTT-TAA
5145792 TAATTTATAATAATTTTT
1 TAATTTAT-ATAATTTTT
5145810 ATAAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (20 bp):
TAATTTATATAATTTTTTAA
Found at i:5145795 original size:11 final size:10
Alignment explanation
Indices: 5145758--5145848 Score: 57
Period size: 10 Copynumber: 9.1 Consensus size: 10
5145748 TTTTAATTCA
5145758 TATAACTTTTT
1 TATAA-TTTTT
*
5145769 TAATAA-TTTA
1 T-ATAATTTTT
5145779 TATAATTTTT
1 TATAATTTTT
*
5145789 GTATAATTTAT
1 -TATAATTTTT
*
5145800 AATAA-TTTT
1 TATAATTTTT
*
5145809 TATAAATTTT
1 TATAATTTTT
*
5145819 TAGTCA---TT
1 TA-TAATTTTT
5145827 TATAATATTTT
1 TATAAT-TTTT
5145838 TATAATTTTT
1 TATAATTTTT
5145848 T
1 T
5145849 GCACTTTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
7 2 0.03
8 4 0.06
9 11 0.17
10 22 0.35
11 20 0.32
12 4 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
TATAATTTTT
Found at i:5145803 original size:30 final size:30
Alignment explanation
Indices: 5145769--5145848 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
5145759 ATAACTTTTT
*
5145769 TAATAATTTATATAATTTTTGTA-TAATTTA
1 TAATAATTTTTATAATTTTT-TAGTAATTTA
* *
5145799 TAATAATTTTTATAAATTTTTAGTCATTTA
1 TAATAATTTTTATAATTTTTTAGTAATTTA
5145829 TAAT-ATTTTTATAATTTTTT
1 TAATAATTTTTATAATTTTTT
5145849 GCACTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 17 0.38
30 28 0.62
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (30 bp):
TAATAATTTTTATAATTTTTTAGTAATTTA
Found at i:5145816 original size:20 final size:20
Alignment explanation
Indices: 5145751--5145847 Score: 76
Period size: 20 Copynumber: 4.8 Consensus size: 20
5145741 TACAATATTT
*
5145751 TAATTCATATAACTTTTT-TAA
1 TAATTTATATAA-TTTTTAT-A
*
5145772 TAATTTATATAATTTTTGTA
1 TAATTTATATAATTTTTATA
5145792 TAATTTATAATAATTTTTATA
1 TAATTTAT-ATAATTTTTATA
* * *
5145813 -AATTTTTAGTCATTTATA-A
1 TAATTTATA-TAATTTTTATA
*
5145832 T-ATTTTTATAATTTTT
1 TAATTTATATAATTTTT
5145848 TGCACTTTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
18 6 0.09
19 9 0.14
20 27 0.42
21 23 0.35
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTTATATAATTTTTATA
Found at i:5145881 original size:30 final size:29
Alignment explanation
Indices: 5145825--5145895 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
5145815 TTTTTAGTCA
*
5145825 TTTATAATATTTTTATAATTTTTTGC-ACT
1 TTTAT-ATATTTTTACAATTTTTTGCAACT
5145854 TTTATATATTTTTACATATTCTTTTGCAACT
1 TTTATATATTTTTACA-ATT-TTTTGCAACT
5145885 TTTA-ATATTTT
1 TTTATATATTTT
5145896 AATTATTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
28 10 0.26
29 8 0.21
30 13 0.34
31 7 0.18
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTATATATTTTTACAATTTTTTGCAACT
Found at i:5160212 original size:14 final size:14
Alignment explanation
Indices: 5160193--5160239 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
5160183 TTAGCTTACC
5160193 ATTTTAGTTTATAT
1 ATTTTAGTTTATAT
*
5160207 ATTTTAATTTGATAT
1 ATTTTAGTTT-ATAT
* *
5160222 -TTTTTGTTTTTAT
1 ATTTTAGTTTATAT
5160235 ATTTT
1 ATTTT
5160240 TAAAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 3 0.11
14 20 0.74
15 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (14 bp):
ATTTTAGTTTATAT
Found at i:5160699 original size:19 final size:19
Alignment explanation
Indices: 5160675--5161016 Score: 127
Period size: 19 Copynumber: 16.7 Consensus size: 19
5160665 AGAGGCGCCA
5160675 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
5160694 ATGAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
5160714 AT-AATTAAATT-TATATTTATAGTT
1 ATGAA-T--ATTGTA-ATTT-T-G-T
* * *
5160738 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
5160755 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
5160774 ATGAATATTGTAATTTTGTAATTTTGT
1 ATG-A-A---T-A--TTGTAATTTTGT
* *
5160801 ATGAATATTGTAATGTCGGGATAT
1 ATGAATATTGTAAT-T----TTGT
5160825 ATTGTAATATTGTAATTTTTTGT
1 A-TG-AATATTGTAA--TTTTGT
*
5160848 ATGAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
5160868 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * *
5160892 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
5160909 ATGAATATTGTAATTTTTTGT
1 ATGAATATTGTAA--TTTTGT
5160930 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
5160949 ATGAATATTGTAA-TAT-T
1 ATGAATATTGTAATTTTGT
*
5160966 AT-AATATTGTATGAATATTG-
1 ATGAATATTG--T-AATTTTGT
*
5160986 -T-AATTTTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
5161003 ATGAATATTGTAAT
1 ATGAATATTGTAAT
5161017 GTCGGGATAT
Statistics
Matches: 247, Mismatches: 26, Indels: 100
0.66 0.07 0.27
Matches are distributed among these distances:
16 13 0.05
17 14 0.06
18 12 0.05
19 79 0.32
20 26 0.11
21 36 0.15
22 16 0.06
23 7 0.03
24 10 0.04
25 6 0.02
26 11 0.04
27 16 0.06
28 1 0.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:5160793 original size:27 final size:27
Alignment explanation
Indices: 5160762--5161016 Score: 108
Period size: 27 Copynumber: 10.0 Consensus size: 27
5160752 TGTATGAATA
5160762 TTGTAATTTTGTATGAATATTGTAATT
1 TTGTAATTTTGTATGAATATTGTAATT
5160789 TTGTAATTTTGTATGAATATTGTAA--
1 TTGTAATTTTGTATGAATATTGTAATT
** * *
5160814 -TG----TCGGGAT--ATATTGTAATA
1 TTGTAATTTTGTATGAATATTGTAATT
5160834 TTGTAATTTTTTGTATGAATATTGTAATT
1 TTGTAA--TTTTGTATGAATATTGTAATT
* **
5160863 ATT-TTATAAT-TA--AAT-TTGT-A-T
1 -TTGTAATTTTGTATGAATATTGTAATT
* * * * * *
5160884 TTATAGTTTTGGATTAGTATTTTGTATGAATA
1 TTGTAATTTTGTA-T-GAATATTG--T-AATT
5160916 TTGTAATTTTTTGTATGAATATTGTAATT
1 TTGTAA--TTTTGTATGAATATTGTAATT
*
5160945 TTGT-A-------TGAATATTGTAATA
1 TTGTAATTTTGTATGAATATTGTAATT
* *
5160964 TTATAATATTGTATGAATATTGTAATT
1 TTGTAATTTTGTATGAATATTGTAATT
5160991 TTGTAATTTTGTATGAATATTGTAAT
1 TTGTAATTTTGTATGAATATTGTAAT
5161017 GTCGGGATAT
Statistics
Matches: 166, Mismatches: 28, Indels: 68
0.63 0.11 0.26
Matches are distributed among these distances:
18 9 0.05
19 16 0.10
20 7 0.04
21 6 0.04
22 2 0.01
23 4 0.02
24 5 0.03
26 4 0.02
27 71 0.43
28 1 0.01
29 20 0.12
30 3 0.02
31 1 0.01
32 10 0.06
33 1 0.01
34 6 0.04
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.53
Consensus pattern (27 bp):
TTGTAATTTTGTATGAATATTGTAATT
Found at i:5160928 original size:21 final size:20
Alignment explanation
Indices: 5160903--5161064 Score: 108
Period size: 19 Copynumber: 8.1 Consensus size: 20
5160893 TGGATTAGTA
5160903 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAA-T
5160924 TTTTGTATGAATATTGTAA-
1 TTTTGTATGAATATTGTAAT
5160943 TTTTGTATGAATATTGTAA-
1 TTTTGTATGAATATTGTAAT
* *
5160962 -TAT-TAT-AATATTGTATGAA
1 TTTTGTATGAATATTGTA--AT
* *
5160981 TATTG--T-AATTTTGTAA-
1 TTTTGTATGAATATTGTAAT
5160997 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
** *
5161017 GTCGGGATATATTGTAATATTGTAATT
1 -T---TTTGTA-TG-AATATTGTAA-T
5161044 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
5161064 T
1 T
5161065 ATTTTATAAT
Statistics
Matches: 113, Mismatches: 12, Indels: 33
0.72 0.08 0.21
Matches are distributed among these distances:
16 13 0.12
17 4 0.04
18 4 0.04
19 37 0.33
20 3 0.03
21 30 0.27
22 2 0.02
23 3 0.03
24 3 0.03
25 2 0.02
26 11 0.10
27 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.52
Consensus pattern (20 bp):
TTTTGTATGAATATTGTAAT
Found at i:5160963 original size:8 final size:8
Alignment explanation
Indices: 5160933--5161042 Score: 58
Period size: 8 Copynumber: 12.4 Consensus size: 8
5160923 TTTTTGTATG
5160933 AATATTGT
1 AATATTGT
*
5160941 AATTTTGTAT
1 AATATTG--T
5160951 GAATATTGT
1 -AATATTGT
*
5160960 AATATTAT
1 AATATTGT
5160968 AATATTGTAT
1 AATATTG--T
5160978 GAATATTGT
1 -AATATTGT
*
5160987 AATTTTGT
1 AATATTGT
*
5160995 AATTTTGTAT
1 AATATTG--T
5161005 GAATATTGT
1 -AATATTGT
* * *
5161014 AATGTCGGG
1 AATAT-TGT
5161023 ATATATTGT
1 A-ATATTGT
5161032 AATATTGT
1 AATATTGT
5161040 AAT
1 AAT
5161043 TTTTTGTATG
Statistics
Matches: 79, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
8 47 0.59
9 7 0.09
10 6 0.08
11 19 0.24
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (8 bp):
AATATTGT
Found at i:5161138 original size:60 final size:60
Alignment explanation
Indices: 5161057--5161178 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
5161047 TGTATGAATA
* * * * *
5161057 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
5161117 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
5161177 TT
1 TT
5161179 AGTTTAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:5161262 original size:36 final size:37
Alignment explanation
Indices: 5161211--5161289 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
5161201 CATATAAAGT
*
5161211 TTATAAAAAAAT-AAAATAATTTTATTAAAATTTTAA
1 TTATAAAAAAATAAAAATAATTTTATTAAAAGTTTAA
* *
5161247 TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATAAAAATAATTTTATTAAAAGTTTAA
5161284 TTATAA
1 TTATAA
5161290 CTGACTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 11 0.28
37 28 0.72
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (37 bp):
TTATAAAAAAATAAAAATAATTTTATTAAAAGTTTAA
Found at i:5161367 original size:15 final size:15
Alignment explanation
Indices: 5161326--5161367 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
5161316 GTTAACTAAT
*
5161326 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
5161341 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
5161357 TTAAATTTTAT
1 TTAAATTTTAT
5161368 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:5161529 original size:21 final size:21
Alignment explanation
Indices: 5161498--5161663 Score: 95
Period size: 27 Copynumber: 7.2 Consensus size: 21
5161488 AATTAATTAT
5161498 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
5161520 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
*** *
5161546 CCGACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
5161567 ---AAATTACAATATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
*
5161589 ATACAAAATTATAATATTACAATATTC
1 A-A-AAAATTACAATATT-C-ATA--C
5161616 AAACAAAATTACAATATTCATAC
1 -AA-AAAATTACAATATTCATAC
*
5161639 AAAAAATTATAATATTCATAC
1 AAAAAATTACAATATTCATAC
5161660 AAAA
1 AAAA
5161664 TACTAATACA
Statistics
Matches: 121, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
18 12 0.10
19 1 0.01
20 3 0.02
21 35 0.29
22 11 0.09
23 1 0.01
25 7 0.06
26 14 0.12
27 36 0.30
28 1 0.01
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:5161538 original size:8 final size:8
Alignment explanation
Indices: 5161525--5161633 Score: 58
Period size: 8 Copynumber: 12.4 Consensus size: 8
5161515 CATACAAAAA
5161525 ATTACAAT
1 ATTACAAT
5161533 ATTACAAT
1 ATTACAAT
* * *
5161541 ATATCCCGAC
1 AT-T-ACAAT
5161551 ATTACAAT
1 ATTACAAT
5161559 ATTCATACAA-
1 A-T--TACAAT
5161569 ATTACAAT
1 ATTACAAT
5161577 ATTACAAT
1 ATTACAAT
*
5161585 ATTCATACAAA
1 A-T--TACAAT
*
5161596 ATTATAAT
1 ATTACAAT
5161604 ATTACAAT
1 ATTACAAT
*
5161612 ATTCAAACAAA
1 ATT---ACAAT
5161623 ATTACAAT
1 ATTACAAT
5161631 ATT
1 ATT
5161634 CATACAAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
7 5 0.06
8 43 0.56
9 5 0.06
10 6 0.08
11 18 0.23
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:5161599 original size:19 final size:19
Alignment explanation
Indices: 5161551--5161664 Score: 89
Period size: 19 Copynumber: 6.1 Consensus size: 19
5161541 ATATCCCGAC
5161551 ATTACAATATTCATAC-AA
1 ATTACAATATTCATACAAA
5161569 ATTACAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
5161586 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
*
5161604 ATTACAATATTCAAACAAA
1 ATTACAATATTCATACAAA
5161623 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
5161644 ATTATAATATTCATACAAA
1 ATTACAATATTCATACAAA
5161663 AT
1 AT
5161665 ACTAATACAA
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
15 3 0.04
16 9 0.12
17 4 0.05
18 10 0.13
19 30 0.39
20 1 0.01
21 19 0.25
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:5161605 original size:27 final size:27
Alignment explanation
Indices: 5161551--5161633 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
5161541 ATATCCCGAC
5161551 ATTACAATATTCATAC-AAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
5161577 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
5161604 ATTACAATATTCAAACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
5161631 ATT
1 ATT
5161634 CATACAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 16 0.30
27 37 0.70
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:5161670 original size:19 final size:20
Alignment explanation
Indices: 5161604--5161671 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
5161594 AAATTATAAT
*
5161604 ATTAC-AATATTCAAACAAA
1 ATTACTAATATTCATACAAA
5161623 ATTAC-AATATTCATACAAAAA
1 ATTACTAATATTCATAC--AAA
5161644 ATTA-TAATATTCATACAAA
1 ATTACTAATATTCATACAAA
5161663 A-TACTAATA
1 ATTACTAATA
5161672 CAAAACTATA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 2 0.05
19 24 0.55
21 18 0.41
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (20 bp):
ATTACTAATATTCATACAAA
Found at i:5161689 original size:67 final size:71
Alignment explanation
Indices: 5161551--5161689 Score: 157
Period size: 67 Copynumber: 2.0 Consensus size: 71
5161541 ATATCCCGAC
* * *
5161551 ATTACAATATTCATACAAATTACAATATTACAATATTCATACAAAATTATAATATTACAATATTC
1 ATTACAATATTCATACAAA-TACAATATTACAATATTCATACAAAATTATAATATCAAAATATTA
5161616 AAACAAA
65 AAACAAA
*
5161623 ATTACAATATTCATAC-AA-A-AA-ATTATAATATTCATACAAAA-TACTAATA-CAAAACTA-T
1 ATTACAATATTCATACAAATACAATATTACAATATTCATACAAAATTA-TAATATCAAAA-TATT
5161681 AAATACAAA
64 AAA-ACAAA
5161690 TTTAATTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
66 8 0.13
67 31 0.52
68 2 0.03
69 1 0.02
71 2 0.03
72 16 0.27
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (71 bp):
ATTACAATATTCATACAAATACAATATTACAATATTCATACAAAATTATAATATCAAAATATTAA
AACAAA
Found at i:5162749 original size:25 final size:27
Alignment explanation
Indices: 5162685--5162754 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
5162675 CATATATATT
5162685 TATATATATT--ATAAAAACATGCAAG
1 TATATATATTAAATAAAAACATGCAAG
* *
5162710 TATACTAGATATAAAAAAAAACATGC-A-
1 TATA-TATAT-TAAATAAAAACATGCAAG
5162737 TATATATATTAAATAAAA
1 TATATATATTAAATAAAA
5162755 GAACGACGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 12 0.32
26 8 0.22
27 5 0.14
28 1 0.03
29 11 0.30
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (27 bp):
TATATATATTAAATAAAAACATGCAAG
Found at i:5162752 original size:29 final size:29
Alignment explanation
Indices: 5162667--5162754 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
5162657 CGTGCAACGT
* *
5162667 AAAACATGCATATATAT-TTATATATATTATA
1 AAAACATGCATATATATATTA-A-ATA-AAAA
* *
5162698 AAAACATGCA-AGTATACTA-GATATAAAAA
1 AAAACATGCATA-TATA-TATTAAATAAAAA
5162727 AAAACATGCATATATATATTAAATAAAA
1 AAAACATGCATATATATATTAAATAAAA
5162755 GAACGACGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
28 2 0.04
29 23 0.50
30 5 0.11
31 14 0.30
32 2 0.04
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.31
Consensus pattern (29 bp):
AAAACATGCATATATATATTAAATAAAAA
Found at i:5164027 original size:17 final size:17
Alignment explanation
Indices: 5164005--5164037 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5163995 AAAAATATAT
5164005 AAAAAAATATT-TTATTC
1 AAAAAAA-ATTATTATTC
5164022 AAAAAAAATTATTATT
1 AAAAAAAATTATTATT
5164038 TTTTATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAAAAATTATTATTC
Found at i:5166475 original size:23 final size:23
Alignment explanation
Indices: 5166426--5166536 Score: 129
Period size: 23 Copynumber: 5.0 Consensus size: 23
5166416 CTTGATCAGT
* *
5166426 ATACGACACATAA-GTGTCTG--
1 ATACGACACACAAGGTGCCTGAA
*
5166446 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
*
5166469 ATACGACACACTAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
* *
5166492 ATACGACACATAAAGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
* *
5166515 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
5166537 TCGGCATAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
20 11 0.14
21 6 0.07
23 64 0.79
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (23 bp):
ATACGACACACAAGGTGCCTGAA
Found at i:5166501 original size:46 final size:43
Alignment explanation
Indices: 5166426--5166537 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 43
5166416 CTTGATCAGT
* * *
5166426 ATACGACACATAAGTGTCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAGTGCCTGATACGACACACAAAGTGCCTGAA
* *
5166469 ATACGACACACTAGGTGCCTGAAATACGACACATAAAGTGCCTGAA
1 ATACGACACA-TAAGTGCCTG--ATACGACACACAAAGTGCCTGAA
5166515 ATACGACACATAAAGTGCCTGAT
1 ATACGACACAT-AAGTGCCTGAT
5166538 CGGCATAGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
43 10 0.17
44 10 0.17
45 1 0.02
46 38 0.64
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (43 bp):
ATACGACACATAAGTGCCTGATACGACACACAAAGTGCCTGAA
Found at i:5170622 original size:47 final size:46
Alignment explanation
Indices: 5170484--5170623 Score: 176
Period size: 45 Copynumber: 3.0 Consensus size: 46
5170474 CAAAAATCAA
*
5170484 GCAAGCTAAAAAAATCCCCAATTTCATATGAACCCTAAAAAA-ATT
1 GCAAACTAAAAAAATCCCCAATTTCATATGAACCCTAAAAAATATT
** * * * *
5170529 GCAAACTAAAAAAATCTACAATTTTATATAAATCTTAAAACAATATT
1 GCAAACTAAAAAAATCCCCAATTTCATATGAACCCTAAAA-AATATT
5170576 GCAAACTAAAAAAAATCCCCAATTTCATATGAA-CCTAAAATAATATT
1 GCAAACT-AAAAAAATCCCCAATTTCATATGAACCCTAAAA-AATATT
5170623 G
1 G
5170624 TTAAATATAT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
45 33 0.42
46 2 0.03
47 23 0.29
48 21 0.27
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (46 bp):
GCAAACTAAAAAAATCCCCAATTTCATATGAACCCTAAAAAATATT
Found at i:5172068 original size:40 final size:40
Alignment explanation
Indices: 5172013--5172136 Score: 130
Period size: 37 Copynumber: 3.1 Consensus size: 40
5172003 ACTAGTTTGG
*
5172013 CACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAGTAAATTGA
* * *
5172053 CACCCAGTGTCTCATCGG-TTATACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGGATAAT-CCGAAGTAGTAAATTGA
* * * *
5172090 CATCCAGTGCCTCATCGAATAAATCCAAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGAT-AATCCGAAGTAGTAAATTGA
5172131 CACCCA
1 CACCCA
5172137 ATGTCTCTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
37 24 0.36
38 3 0.05
39 7 0.11
40 19 0.29
41 13 0.20
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATCCGAAGTAGTAAATTGA
Found at i:5173322 original size:24 final size:24
Alignment explanation
Indices: 5173295--5173343 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
5173285 GACGACGCTA
5173295 CCCTAATCGATCCCCTCTGTTTCT
1 CCCTAATCGATCCCCTCTGTTTCT
5173319 CCCTAATCGATCCCCTCTGTTTCT
1 CCCTAATCGATCCCCTCTGTTTCT
5173343 C
1 C
5173344 TTCCGTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.43, G:0.08, T:0.37
Consensus pattern (24 bp):
CCCTAATCGATCCCCTCTGTTTCT
Found at i:5176187 original size:50 final size:51
Alignment explanation
Indices: 5176127--5176225 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
5176117 AAATTAAAAG
5176127 ATTATACATACACCAACAATG-TTTTTAGGGTA-AATAACATTAAACCAATA
1 ATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAATA
5176177 ATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAA
1 ATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAA
5176226 CAAGTAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
50 22 0.47
51 25 0.53
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.29
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAATA
Found at i:5176237 original size:33 final size:34
Alignment explanation
Indices: 5176176--5176284 Score: 111
Period size: 33 Copynumber: 3.3 Consensus size: 34
5176166 TTAAACCAAT
* *
5176176 AATTATACATACACCAACAATGT-TTTTTAGGGAC
1 AATTATACATAAACCAACAA-GTAATTTTAGGGAC
*
5176210 AA-TA-ACATTAAACCAACAAGTAATTTTA-GGTC
1 AATTATACA-TAAACCAACAAGTAATTTTAGGGAC
* * *
5176242 AATTATACATACACCAACAATTAATTTTA-GGTC
1 AATTATACATAAACCAACAAGTAATTTTAGGGAC
5176275 AATTATACAT
1 AATTATACAT
5176285 GCTTTATAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.77
34 5 0.08
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
AATTATACATAAACCAACAAGTAATTTTAGGGAC
Found at i:5179742 original size:137 final size:135
Alignment explanation
Indices: 5179631--5179900 Score: 398
Period size: 137 Copynumber: 2.0 Consensus size: 135
5179621 CATATAAGAA
* *
5179631 TATG-AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTAT
1 TATGCAATTA-TAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTAT
* * *
5179695 GTTTAAATACGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA
65 GTTTAAATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATA
5179760 ACAAATT
130 ACAAA-T
* ****
5179767 TCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 TATGC-AATTATAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTAT
* *
5179832 GTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTA
65 GTTTAAATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATA
5179897 ACAA
130 ACAA
5179901 TAATCATTTA
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
136 3 0.03
137 112 0.93
138 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (135 bp):
TATGCAATTATAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATG
TTTAAATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
CAAAT
Found at i:5179754 original size:67 final size:66
Alignment explanation
Indices: 5179679--5179891 Score: 150
Period size: 67 Copynumber: 3.2 Consensus size: 66
5179669 ATTATAATGT
5179679 ATTT-AATAATAATTATGTTTAAATACGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATACGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
5179743 AA
65 AA
* * ** * * * * * * *
5179745 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAATAC-GATTA-AATATTTATTATTGATATTAATA-ATCTT
5179805 AATTAAAA
61 -ATT-AAA
* * * *
5179813 TATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATACGATT-AAATATTTATTATTGATATTAATAATCTTAT
5179878 TAAA
63 TAAA
5179882 ATTTAAATAA
1 ATTTAAATAA
5179892 CATTAACAAT
Statistics
Matches: 104, Mismatches: 27, Indels: 31
0.64 0.17 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.12
67 25 0.24
68 16 0.15
69 19 0.18
70 19 0.18
71 7 0.07
72 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATACGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:5179811 original size:18 final size:17
Alignment explanation
Indices: 5179783--5179817 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5179773 AATTATAAGA
*
5179783 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5179800 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5179818 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5179882 original size:70 final size:69
Alignment explanation
Indices: 5179669--5179883 Score: 167
Period size: 70 Copynumber: 3.1 Consensus size: 69
5179659 ATATACCAAA
* * * * *
5179669 ATTATAATGTATTTAATAATAATTATGTTTAAATACGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAATA
5179734 ATCTT
65 ATCTT
* ** * ** * * *
5179739 ATTAAAATTTAAATAACAATAACAAAT-TTCTGCTAAT-T-A-TAAGAAT-TTTATTA-AATTAT
1 ATTAAAATATATTTAATAATAA-TTATGTT-T--AAATATGATTAA-AATATTTATTATGATAAT
*
5179798 -AT-ATTTT
61 AATAATCTT
5179805 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAAT
5179870 AATCTT
64 AATCTT
5179876 ATTAAAAT
1 ATTAAAAT
5179884 TTAAATAACA
Statistics
Matches: 106, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
64 3 0.03
65 1 0.01
66 11 0.10
67 32 0.30
68 3 0.03
69 4 0.04
70 39 0.37
71 10 0.09
73 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (69 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATGATAATAATAA
TCTT
Found at i:5179889 original size:50 final size:51
Alignment explanation
Indices: 5179833--5180046 Score: 122
Period size: 50 Copynumber: 4.2 Consensus size: 51
5179823 AATAATTATG
5179833 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
** * * * * ** *
5179883 TTTAAATAACATTAACAATAATCATTTAC-CAAAATAATTTTCTGCTAATTATAA
1 TTTAAATATGATTAA-AATATTTA-TTACTGATAATAATAATCT--TAATTAAAA
* * * * * * *
5179937 ---GAATTTTATTAAATTATATATT-TTAATTAA-AATAGAT-TTAATTATAATTA
1 TTTAAATATGATTAAAATATTTATTACTGA-TAATAATA-ATCTTAATTA-AA--A
5179987 TGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 --TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
5180039 TTTAAATA
1 TTTAAATA
5180047 ACAATAACAA
Statistics
Matches: 115, Mismatches: 30, Indels: 38
0.63 0.16 0.21
Matches are distributed among these distances:
47 6 0.05
48 1 0.01
49 7 0.06
50 29 0.25
51 24 0.21
52 5 0.04
53 1 0.01
54 8 0.07
55 26 0.23
56 8 0.07
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (51 bp):
TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
Found at i:5179933 original size:137 final size:145
Alignment explanation
Indices: 5179668--5180086 Score: 473
Period size: 156 Copynumber: 2.9 Consensus size: 145
5179658 TATATACCAA
* * * * * *
5179668 AATTATAATGTATTTAATAATAATTATGTTTAAATACGATTAAATTATTTATTATTGATATTAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
* * ** * *
5179733 AATCTTATTAAAATTTAAATAACAATAACAA-ATTTC-TGCTAATTATAAGAATTTTAT--TAA-
66 AATCTTATTAAAATTTAAATAACAATAACAATA-ATCAT--TTACCAAAACAATTTTATGCTAAT
*
5179793 -ATTA-TA-T-ATT-T-T
128 TATAATTATTAATTATAT
5179805 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
* * *
5179870 AATCTTATTAAAATTTAAATAACATTAACAATAATCATTTACCAAAATAATTTTCTGCTAATTAT
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT
5179935 AAGAATTTTATTAAATTATATATTTT
131 ---AA--TTATT-AA-T-TATA---T
* *
5179961 AATTAAAATAGATTTAATTATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
5180026 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
66 AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAA
5180087 GGGTATTCTA
Statistics
Matches: 240, Mismatches: 20, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
136 12 0.05
137 91 0.38
138 5 0.02
140 2 0.01
143 1 0.00
146 2 0.01
147 1 0.00
149 1 0.00
150 1 0.00
151 1 0.00
152 1 0.00
156 122 0.51
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (145 bp):
AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
AATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAACAATTTTATGCTAATTAT
AATTATTAATTATAT
Found at i:5179941 original size:156 final size:156
Alignment explanation
Indices: 5179759--5180086 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
5179749 AAATAACAAT
* *
5179759 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATA
5179824 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
5179889 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
* *
5179915 AATAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATA
5179980 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
5180045 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
5180071 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
5180087 GGGTATTCTA
Statistics
Matches: 165, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 165 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:5179967 original size:18 final size:18
Alignment explanation
Indices: 5179929--5179987 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
5179919 ATTTTCTGCT
5179929 AATTATAAGAATTTT-ATTA
1 AATTAT-AG-ATTTTAATTA
*
5179948 AATTATATATTTTAATTA
1 AATTATAGATTTTAATTA
5179966 AA--ATAGA-TTTAATTA
1 AATTATAGATTTTAATTA
5179981 TAATTAT
1 -AATTAT
5179988 GTTTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 8 0.24
16 6 0.18
17 5 0.15
18 9 0.26
19 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTATAGATTTTAATTA
Found at i:5180189 original size:44 final size:45
Alignment explanation
Indices: 5180139--5180229 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
5180129 ACCTCTATTC
* * *
5180139 CATTCAACCAAACAAAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGATTAGCTATTACACCTCTAATCCAATA
***
5180183 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACAAAAGATTAGCTATTACACCTCTAATCCAATA
5180228 CA
1 CA
5180230 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACAAAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:5180231 original size:16 final size:16
Alignment explanation
Indices: 5180210--5180277 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
5180200 GATTAGCTAT
5180210 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5180226 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
5180242 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
5180258 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5180274 TACA
1 TACA
5180278 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5183576 original size:18 final size:19
Alignment explanation
Indices: 5183553--5183597 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
5183543 AAATTCATAT
5183553 CTAAATTATACTTTATT-C
1 CTAAATTATACTTTATTAC
*
5183571 CTAAATTATATTTTATTAC
1 CTAAATTATACTTTATTAC
5183590 CTAAATTA
1 CTAAATTA
5183598 CCTAACTCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (19 bp):
CTAAATTATACTTTATTAC
Found at i:5189228 original size:19 final size:19
Alignment explanation
Indices: 5189206--5189283 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 19
5189196 AAAAAATCAA
*
5189206 TAAAAGTTATAAAAATTAT
1 TAAAATTTATAAAAATTAT
*
5189225 TAAATTTTAATAAAAAAAATTATT
1 TAAAATTT-AT---AAAAATTA-T
* *
5189249 TAAAAATTATAAAAATCA-
1 TAAAATTTATAAAAATTAT
5189267 TAAAATTTTATAAAAAT
1 TAAAA-TTTATAAAAAT
5189284 CGTAAAAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
18 5 0.11
19 16 0.34
20 9 0.19
23 10 0.21
24 7 0.15
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (19 bp):
TAAAATTTATAAAAATTAT
Found at i:5189260 original size:23 final size:23
Alignment explanation
Indices: 5189216--5189263 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
5189206 TAAAAGTTAT
**
5189216 AAAAATTATTAAATTTTAATAAA
1 AAAAATTATTAAAAATTAATAAA
5189239 AAAAATTATTTAAAAATT-ATAAA
1 AAAAATTA-TTAAAAATTAATAAA
5189262 AA
1 AA
5189264 TCATAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATTATTAAAAATTAATAAA
Found at i:5189297 original size:19 final size:19
Alignment explanation
Indices: 5189256--5189300 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
5189246 ATTTAAAAAT
***
5189256 TATAAAAATCATAAAATTT
1 TATAAAAATCATAAAAGAA
*
5189275 TATAAAAATCGTAAAAGAA
1 TATAAAAATCATAAAAGAA
5189294 TATAAAA
1 TATAAAA
5189301 TATATAGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
TATAAAAATCATAAAAGAA
Found at i:5189873 original size:24 final size:23
Alignment explanation
Indices: 5189845--5189896 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
5189835 CTAGATTATG
5189845 TATATATATATTTCTGAATTT-TTT
1 TATATATATATTTC--AATTTATTT
*
5189869 TATATATTTATTTCAATTTATTT
1 TATATATATATTTCAATTTATTT
5189892 TATAT
1 TATAT
5189897 TTTTTAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 8 0.31
24 13 0.50
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (23 bp):
TATATATATATTTCAATTTATTT
Found at i:5197814 original size:47 final size:47
Alignment explanation
Indices: 5197745--5197840 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
5197735 GTACCTTTCA
*
5197745 AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAATTCATT
1 AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAACTCATT
5197792 AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAACTCATT
1 AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAACTCATT
5197839 AA
1 AA
5197841 GTTAAATTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (47 bp):
AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAACTCATT
Found at i:5197819 original size:24 final size:24
Alignment explanation
Indices: 5197745--5197819 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
5197735 GTACCTTTCA
5197745 AAATTTAAAATTTTAGTCATCACC
1 AAATTTAAAATTTTAGTCATCACC
* * * * **
5197769 AAA-TGATAACTATTA--AATTCATT
1 AAATTTA-AAATTTTAGTCA-TCACC
5197792 AAATTTAAAATTTTAGTCATCACC
1 AAATTTAAAATTTTAGTCATCACC
5197816 AAAT
1 AAAT
5197820 GATAACTATT
Statistics
Matches: 34, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
22 1 0.03
23 14 0.41
24 18 0.53
25 1 0.03
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATTTAAAATTTTAGTCATCACC
Found at i:5200103 original size:35 final size:36
Alignment explanation
Indices: 5200064--5200146 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 36
5200054 AAGGTACAAA
*
5200064 ATATATACATGTACATATATA-TA-AAAAAAATAAT
1 ATATATACATGTACATATAGATTATAAAAAAATAAT
* * *
5200098 -TATATACATATATATATAGATTATAAAAAGATAATT
1 ATATATACATGTACATATAGATTATAAAAAAATAA-T
* *
5200134 ACATATATATGTA
1 ATATATACATGTA
5200147 AAAACAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
33 17 0.45
34 2 0.05
35 9 0.24
36 1 0.03
37 9 0.24
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (36 bp):
ATATATACATGTACATATAGATTATAAAAAAATAAT
Found at i:5200114 original size:29 final size:29
Alignment explanation
Indices: 5200078--5200173 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 29
5200068 ATACATGTAC
*
5200078 ATATATATAAAAAAAATAATTATATACAT
1 ATATATATAAAAAAAATAATAATATACAT
*
5200107 ATATATATAGATTATAAAAA-GATAAT-TACAT
1 ATATATATA-A--A-AAAAATAATAATATACAT
*
5200138 ATATATGTAAAAACAAATAATAATAATTACAT
1 ATATATATAAAAA-AAATAATAAT-A-TACAT
5200170 ATAT
1 ATAT
5200174 TGAAATTAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
27 2 0.04
28 4 0.07
29 14 0.26
30 2 0.04
31 13 0.24
32 14 0.26
33 5 0.09
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATATATAAAAAAAATAATAATATACAT
Found at i:5200115 original size:33 final size:35
Alignment explanation
Indices: 5200065--5200143 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
5200055 AGGTACAAAA
* *
5200065 TATATACATGTACATATATA-TA-AAAAAAATAAT
1 TATATACATATACATATAGATTATAAAAAAATAAT
* *
5200098 TATATACATATATATATAGATTATAAAAAGATAAT
1 TATATACATATACATATAGATTATAAAAAAATAAT
* *
5200133 TACATATATAT
1 TATATACATAT
5200144 GTAAAAACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 17 0.45
34 2 0.05
35 19 0.50
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (35 bp):
TATATACATATACATATAGATTATAAAAAAATAAT
Found at i:5200335 original size:17 final size:17
Alignment explanation
Indices: 5200313--5200356 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
5200303 TAGGAAATAA
5200313 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
5200330 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
5200347 -ATATGTATAT
1 AAAATGTATAT
5200357 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:5202682 original size:20 final size:20
Alignment explanation
Indices: 5202611--5202682 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
5202601 AAATATTTTT
*
5202611 TTTTGAAATTTTTATAAA-TA
1 TTTTGAATTTTTTA-AAATTA
*
5202631 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTTAAAATTA
5202650 TTTTGAATTTTTTAAAATTA
1 TTTTGAATTTTTTAAAATTA
5202670 TTTTGAATTTTTT
1 TTTTGAATTTTTT
5202683 TGTTGAGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
18 3 0.06
19 14 0.29
20 31 0.65
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTTGAATTTTTTAAAATTA
Found at i:5207000 original size:12 final size:12
Alignment explanation
Indices: 5206983--5207009 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5206973 AACACTTAAC
5206983 GAGCTTGTATTT
1 GAGCTTGTATTT
5206995 GAGCTTGTATTT
1 GAGCTTGTATTT
5207007 GAG
1 GAG
5207010 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.30, T:0.44
Consensus pattern (12 bp):
GAGCTTGTATTT
Found at i:5212659 original size:18 final size:18
Alignment explanation
Indices: 5212636--5212673 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5212626 CCAGCAACAG
*
5212636 CAACAGCAACTACTGCAA
1 CAACAGCAACTACAGCAA
*
5212654 CAACAGCAGCTACAGCAA
1 CAACAGCAACTACAGCAA
5212672 CA
1 CA
5212674 TGCTCAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.34, G:0.13, T:0.08
Consensus pattern (18 bp):
CAACAGCAACTACAGCAA
Found at i:5212663 original size:27 final size:27
Alignment explanation
Indices: 5212633--5212685 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5212623 ACACCAGCAA
5212633 CAGCAACAGCAAC-TACTGCAACAACAG
1 CAGCAACAGCAACATACT-CAACAACAG
* *
5212660 CAGCTACAGCAACATGCTCAACAACA
1 CAGCAACAGCAACATACTCAACAACA
5212686 ATTACAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.43, C:0.34, G:0.13, T:0.09
Consensus pattern (27 bp):
CAGCAACAGCAACATACTCAACAACAG
Found at i:5212672 original size:15 final size:15
Alignment explanation
Indices: 5212609--5212673 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
5212599 TCCTCAAATG
*
5212609 CAGCAGCCACAGCAA
1 CAGCAGCTACAGCAA
* *
5212624 CACCAGCAACAGCAA
1 CAGCAGCTACAGCAA
* *
5212639 CAGCAACTACTGCAACAA
1 CAGCAGCTA---CAGCAA
5212657 CAGCAGCTACAGCAA
1 CAGCAGCTACAGCAA
5212672 CA
1 CA
5212674 TGCTCAACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
15 26 0.67
18 13 0.33
ACGTcount: A:0.43, C:0.37, G:0.15, T:0.05
Consensus pattern (15 bp):
CAGCAGCTACAGCAA
Found at i:5217171 original size:68 final size:67
Alignment explanation
Indices: 5217058--5217195 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 67
5217048 AATGGGACTC
* *
5217058 AAATATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTTTAAATTAATATTTTA
1 AAATATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTCTAAATTAATATTTAA
5217123 AA
66 AA
5217125 AAATGATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTCTAAATTAATATTTA
1 AAAT-ATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTCTAAATTAATATTTA
5217190 AAA
65 AAA
5217193 AAA
1 AAA
5217196 ATTACTCTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
67 4 0.06
68 64 0.94
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (67 bp):
AAATATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTCTAAATTAATATTTAA
AA
Found at i:5223551 original size:16 final size:16
Alignment explanation
Indices: 5223518--5223551 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5223508 TCTTTTTGTT
* *
5223518 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
5223534 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
5223550 AA
1 AA
5223552 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:5226377 original size:21 final size:21
Alignment explanation
Indices: 5226351--5226391 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5226341 AGACGAGCAA
* *
5226351 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5226372 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
5226392 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5228328 original size:16 final size:16
Alignment explanation
Indices: 5228295--5228328 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5228285 GGAGATTGTT
* *
5228295 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
5228311 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
5228327 AA
1 AA
5228329 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:5234098 original size:3 final size:3
Alignment explanation
Indices: 5234092--5234152 Score: 77
Period size: 3 Copynumber: 20.3 Consensus size: 3
5234082 GTACTTTTGC
* * * *
5234092 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT TTT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
5234140 TAT TAT TAG TAT T
1 TAT TAT TAT TAT T
5234153 GGTATTATGG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:5239450 original size:30 final size:28
Alignment explanation
Indices: 5239368--5239451 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 28
5239358 CAAATGAATT
*
5239368 TTAAATTTTAAAGTAAAAAATGA-AGAAA
1 TTAAATTTTAAAATAAAAAAT-ATAGAAA
* * *
5239396 TCAAATTTTAAAAAAATAAAAATATAGAGA
1 TTAAATTTT-AAAATA-AAAAATATAGAAA
5239426 TTAAATTTTAAATATAAAAGAATATA
1 TTAAATTTTAAA-ATAAAA-AATATA
5239452 ATAAATTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
28 8 0.18
29 11 0.24
30 26 0.58
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (28 bp):
TTAAATTTTAAAATAAAAAATATAGAAA
Found at i:5244753 original size:11 final size:10
Alignment explanation
Indices: 5244733--5244811 Score: 68
Period size: 11 Copynumber: 7.3 Consensus size: 10
5244723 CTCGAATTTA
5244733 ATTTTTTATT
1 ATTTTTTATT
5244743 ATTTTTCTATT
1 ATTTTT-TATT
5244754 ATTTTTTTATT
1 A-TTTTTTATT
* *
5244765 ATTTTATTGTC
1 ATTTT-TTATT
*
5244776 ATTATATTATT
1 ATT-TTTTATT
*
5244787 ATATTATTATT
1 AT-TTTTTATT
5244798 ATTTTATTATT
1 ATTTT-TTATT
5244809 ATT
1 ATT
5244812 ATTATTTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
10 12 0.21
11 38 0.67
12 7 0.12
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (10 bp):
ATTTTTTATT
Found at i:5244756 original size:3 final size:3
Alignment explanation
Indices: 5244738--5244817 Score: 75
Period size: 3 Copynumber: 28.7 Consensus size: 3
5244728 ATTTAATTTT
* * *
5244738 TTA TTA TT- TT- TCTA TTA TT- TTT TTA TTA TT- TTA TTG TCA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5244780 -TA TTA TTA -TA TTA TTA TTA TT- TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5244818 TAAATATTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
2 13 0.20
3 51 0.78
4 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:5244825 original size:17 final size:17
Alignment explanation
Indices: 5244787--5244825 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
5244777 TTATATTATT
*
5244787 ATATTATTATTATTTTA
1 ATATTATTATTATTTAA
*
5244804 TTATTATTATTATTTAA
1 ATATTATTATTATTTAA
5244821 ATATT
1 ATATT
5244826 GTCCTGAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTATTATTATTTAA
Done.