Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 166 of 325
Found at i:53794506 original size:40 final size:40
Alignment explanation
Indices: 53794429--53794646 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
53794419 AAACCAAGTA
* * *
53794429 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
53794468 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53794508 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53794548 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAGAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
53794588 CCTTCGGGGCTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
53794628 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53794647 TTATCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53797482 original size:22 final size:23
Alignment explanation
Indices: 53797418--53797538 Score: 117
Period size: 24 Copynumber: 5.2 Consensus size: 23
53797408 GGCTCTTCAT
53797418 GAGCTGATAATAGTAAGCTCTATC
1 GAGCTGA-AATAGTAAGCTCTATC
*
53797442 GAGCTGAAAATAGTAAGCTCTATT
1 GAGCTG-AAATAGTAAGCTCTATC
* *
53797466 GAGCTG-CATAGTGAGCTCT-TCC
1 GAGCTGAAATAGTAAGCTCTAT-C
53797488 GAGCTG-AATCAGTAAGCTCCTAT-
1 GAGCTGAAAT-AGTAAGCT-CTATC
*
53797511 GAGCTAAAATAGTAAGCTCATAT-
1 GAGCTGAAATAGTAAGCTC-TATC
53797534 GAGCT
1 GAGCT
53797539 ATGGTGAGTC
Statistics
Matches: 83, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.01
22 20 0.24
23 28 0.34
24 32 0.39
25 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (23 bp):
GAGCTGAAATAGTAAGCTCTATC
Found at i:53797483 original size:46 final size:45
Alignment explanation
Indices: 53797427--53797529 Score: 113
Period size: 46 Copynumber: 2.2 Consensus size: 45
53797417 TGAGCTGATA
53797427 ATAGTAAGCTCTAT-CGAGCTGAAAAT-AGTAAGCT-CTATTGAGCTGC
1 ATAGTAAGCTCT-TCCGAGCTG--AATCAGTAAGCTCCTA-TGAGCTGC
* **
53797473 ATAGTGAGCTCTTCCGAGCTGAATCAGTAAGCTCCTATGAGCTAAA
1 ATAGTAAGCTCTTCCGAGCTGAATCAGTAAGCTCCTATGAGCT-GC
53797519 ATAGTAAGCTC
1 ATAGTAAGCTC
53797530 ATATGAGCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
44 3 0.06
45 15 0.31
46 31 0.63
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (45 bp):
ATAGTAAGCTCTTCCGAGCTGAATCAGTAAGCTCCTATGAGCTGC
Found at i:53797539 original size:23 final size:22
Alignment explanation
Indices: 53797416--53797539 Score: 101
Period size: 23 Copynumber: 5.4 Consensus size: 22
53797406 TAGGCTCTTC
*
53797416 ATGAGCTGATAATAGTAAGCTCT
1 ATGAGCT-AAAATAGTAAGCTCT
53797439 ATCGAGCTGAAAATAGTAAGCTCT
1 AT-GAGCT-AAAATAGTAAGCTCT
** *
53797463 ATTGAGCT-GCATAGTGAGCTCT
1 A-TGAGCTAAAATAGTAAGCTCT
*
53797485 -TCCGAGCT-GAATCAGTAAGCTCCT
1 AT--GAGCTAAAAT-AGTAAGCT-CT
53797509 ATGAGCTAAAATAGTAAGCTCAT
1 ATGAGCTAAAATAGTAAGCTC-T
53797532 ATGAGCTA
1 ATGAGCTA
53797540 TGGTGAGTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 18
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.01
22 20 0.24
23 31 0.36
24 31 0.36
25 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (22 bp):
ATGAGCTAAAATAGTAAGCTCT
Found at i:53802839 original size:4 final size:4
Alignment explanation
Indices: 53802830--53802855 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
53802820 TGTGGGTGTA
53802830 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
53802856 TAGTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:53803661 original size:16 final size:16
Alignment explanation
Indices: 53803637--53803671 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
53803627 ACAAATCCCA
* *
53803637 AAATGCCGAAAAGCTG
1 AAATACCGAAAAGCCG
53803653 AAATACCGAAAAGCCG
1 AAATACCGAAAAGCCG
53803669 AAA
1 AAA
53803672 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.09
Consensus pattern (16 bp):
AAATACCGAAAAGCCG
Found at i:53803925 original size:28 final size:29
Alignment explanation
Indices: 53803893--53803958 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
53803883 TGTATATTTT
53803893 TTTGGGCCTAAT-GGCCATATAAATGTGA
1 TTTGGGCCTAATGGGCCATATAAATGTGA
53803921 TTTGGGCCTAATGGGCCATATAAATGTGA
1 TTTGGGCCTAATGGGCCATATAAATGTGA
53803950 TTTGGGCCT
1 TTTGGGCCT
53803959 CATAAGCCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 12 0.32
29 25 0.68
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (29 bp):
TTTGGGCCTAATGGGCCATATAAATGTGA
Found at i:53808205 original size:37 final size:37
Alignment explanation
Indices: 53808152--53808250 Score: 162
Period size: 37 Copynumber: 2.7 Consensus size: 37
53808142 CGAATAGTCT
* *
53808152 CCACATGTAGTTATCGGGTCTTACCCGGACAAAATCA
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCA
* *
53808189 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCA
53808226 CCACACGTAGTCATCGGGTCTTACC
1 CCACACGTAGTCATCGGGTCTTACC
53808251 TGGAATATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCA
Found at i:53808453 original size:48 final size:48
Alignment explanation
Indices: 53808395--53808791 Score: 695
Period size: 48 Copynumber: 8.3 Consensus size: 48
53808385 ATATACACAC
* *
53808395 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
53808443 ATCTCATACATATTTCATACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
53808491 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
53808539 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACAACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
53808587 ATCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
53808635 ATCTCATACATATTTCAAATTAGCCATTCGGCTTTACCACAGATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
53808683 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
53808731 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACAACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
53808779 ATCTCATACATAT
1 ATCTCATACATAT
53808792 ATCTCATATA
Statistics
Matches: 332, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 332 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:53811370 original size:27 final size:27
Alignment explanation
Indices: 53811290--53811412 Score: 106
Period size: 27 Copynumber: 4.6 Consensus size: 27
53811280 TTGTAGAATC
*
53811290 ACCAAAATACCCCT-AGTTTGTAAAATT
1 ACCAAAATACCCCTGA-TTTATAAAATT
* * *
53811317 ACCAAAATA-CCGTCGACTTGTAAAATT
1 ACCAAAATACCCCT-GATTTATAAAATT
* *
53811344 ACCAAAGTACCCCTGATTTATAGAATT
1 ACCAAAATACCCCTGATTTATAAAATT
*** * *
53811371 ACCATTTTACCCTTGATTTACAAAATT
1 ACCAAAATACCCCTGATTTATAAAATT
*
53811398 ACCGAAATACCCCTG
1 ACCAAAATACCCCTG
53811413 TAGGGTAGGA
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
26 3 0.04
27 68 0.91
28 4 0.05
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.29
Consensus pattern (27 bp):
ACCAAAATACCCCTGATTTATAAAATT
Found at i:53812109 original size:27 final size:26
Alignment explanation
Indices: 53812078--53812129 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53812068 CACGCTGCAA
*
53812078 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
53812105 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
53812130 GCAGCCTCGC
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:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:53812178 original size:18 final size:18
Alignment explanation
Indices: 53812144--53812180 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
53812134 CCTCGCTGCA
* *
53812144 ATCTGGTGGCTTCGCCAC
1 ATCTGGTGGCCTAGCCAC
53812162 ATCTGGTGGCCTAGCCAC
1 ATCTGGTGGCCTAGCCAC
53812180 A
1 A
53812181 ATATCTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.27, T:0.24
Consensus pattern (18 bp):
ATCTGGTGGCCTAGCCAC
Found at i:53813682 original size:27 final size:27
Alignment explanation
Indices: 53813652--53813966 Score: 409
Period size: 27 Copynumber: 11.7 Consensus size: 27
53813642 TTAGTTTACC
53813652 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
53813679 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
53813706 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
53813733 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
53813760 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
53813787 AAATTACCAAAATAACCC-TAGTTTATA
1 AAATTACCAAAAT-ACCCTTGGTTTGTA
* * *
53813814 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
53813841 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
53813868 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
53813895 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
53813922 AAATTACCAAAACA-CCTCTGATTTGTG
1 AAATTACCAAAATACCCT-TGGTTTGTA
**
53813949 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
53813967 CGACCTGTAA
Statistics
Matches: 252, Mismatches: 32, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
26 6 0.02
27 239 0.95
28 7 0.03
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:53813717 original size:54 final size:54
Alignment explanation
Indices: 53813652--53814037 Score: 434
Period size: 54 Copynumber: 7.1 Consensus size: 54
53813642 TTAGTTTACC
* * *
53813652 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
*
53813706 AAATCACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* * * * * *
53813760 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATAACCCTAGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* * *
53813814 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* *
53813868 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
* * * ** ***
53813922 AAATTACCAAAACA-CCTCTGATTTGTGAAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCT-TGGTTTGTAAAATTACCAAAATACCCCT-GGTTTGTA
*** **** * * *
53813976 AAATTATTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
*
53814030 GAATTACC
1 AAATTACC
53814038 GTTTTACCCT
Statistics
Matches: 282, Mismatches: 46, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
53 7 0.02
54 268 0.95
55 7 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
Found at i:53813947 original size:81 final size:81
Alignment explanation
Indices: 53813652--53814037 Score: 409
Period size: 81 Copynumber: 4.8 Consensus size: 81
53813642 TTAGTTTACC
* * * * * *
53813652 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACCAAA
53813717 ATACCCTTGGTTTGTA
66 ATACCCTTGGTTTGTA
* * *
53813733 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTG-TTTATAAAATTACCAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTGATTTATAAAATTACCAA
* *
53813797 AATAACCC-TAGTTTATA
65 AAT-ACCCTTGGTTTGTA
* * * * * *
53813814 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACCAAA
53813879 ATACCCTTGGTTTGTA
66 ATACCCTTGGTTTGTA
* * * * * **
53813895 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAACACCTCTGATTTGTGAAATTACTGAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACCAAA
* ***
53813960 ATACCCTCGACCTGTA
66 ATACCCTTGGTTTGTA
*** ** * *
53813976 AAATTATTGAAATA-CCCTCAACTTGTAAAATTACCAAAGTACCCCTGATTTATAGAATTACC
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACC
53814038 GTTTTACCCT
Statistics
Matches: 261, Mismatches: 39, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
80 10 0.04
81 244 0.93
82 7 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACCAAA
ATACCCTTGGTTTGTA
Found at i:53814018 original size:27 final size:26
Alignment explanation
Indices: 53813652--53814037 Score: 221
Period size: 27 Copynumber: 14.3 Consensus size: 26
53813642 TTAGTTTACC
* *
53813652 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACC-AAATACCCTCGATTTGTA
* * * *
53813679 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTAC-CAAATACCCTCGATTTGTA
* * *
53813706 AAATCACCAAAATACCCTTGGTTTGTA
1 AAATTACC-AAATACCCTCGATTTGTA
*
53813733 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACC-AAATACCCTC-GATTTGTA
* * *
53813760 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTAC-CAAATACCC-TCGATTTGTA
* *
53813787 AAATTACCAAAATAACCCTAG-TTTATA
1 AAATTACC-AAAT-ACCCTCGATTTGTA
* * *
53813814 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTAC-CAAATACCC-TCGATTTGTA
*
53813841 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACC-AAATACCCTC-GATTTGTA
* *
53813868 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACC-AAATACCCTCGATTTGTA
* *
53813895 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTA-CCAAATACCCTCGA-TTTGTA
*
53813922 AAATTACCAAA-ACACCTCTGATTTGTG
1 AAATTACCAAATAC-CCTC-GATTTGTA
* **
53813949 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
** * *
53813976 AAATTATTGAAATACCCTCAACTTGTA
1 AAATTA-CCAAATACCCTCGATTTGTA
*
53814003 AAATTACCAAAGTACCC-CTGATTTATA
1 AAATTACCAAA-TACCCTC-GATTTGTA
*
53814030 GAATTACC
1 AAATTACC
53814038 GTTTTACCCT
Statistics
Matches: 297, Mismatches: 38, Indels: 48
0.78 0.10 0.13
Matches are distributed among these distances:
25 2 0.01
26 15 0.05
27 264 0.89
28 14 0.05
29 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTGTA
Found at i:53814086 original size:27 final size:27
Alignment explanation
Indices: 53814058--53814467 Score: 427
Period size: 27 Copynumber: 15.2 Consensus size: 27
53814048 CGATTTACAA
* * * *
53814058 AATTACTGGAATACCCTTGTAGCGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53814085 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53814112 AATTACCGAAATA-CCCTAGTTGGGTAG
1 AATTACTGAAATACCCCT-GTAGGGTAG
* **
53814139 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53814166 AATTATTGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
53814193 AAATA-TCGGAATACCCATGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
53814220 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
53814247 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
53814274 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53814301 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53814328 AATTACTGAAATATCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53814355 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
** *
53814382 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
53814409 AATTACT-AAAGTACCCCTGTAGGGTGG
1 AATTACTGAAA-TACCCCTGTAGGGTAG
* * * * *
53814436 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
53814462 AATTAC
1 AATTAC
53814468 CATTTTGCCC
Statistics
Matches: 323, Mismatches: 50, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
26 24 0.07
27 293 0.91
28 6 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:53814152 original size:81 final size:80
Alignment explanation
Indices: 53814067--53814469 Score: 506
Period size: 81 Copynumber: 5.0 Consensus size: 80
53814057 AAATTACTGG
* * * *
53814067 AATACCCTTGTAGCGTAAAAATACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTAGT
1 AATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCT-GT
* *
53814132 TGGGTAGAAATACCAA
65 AGGGTAGAATTACCAA
* * * * * *
53814148 AATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGATAGAAATATCGGAATACCCATGT
1 AATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCC-TGT
**
53814213 AGGGTAGAATTACCGG
65 AGGGTAGAATTACCAA
*
53814229 AATACCCTTGTAGGGTAGAATTA-TCGAAATACCCCTGTAGGGTAGAATTACCGGAATACCCCTG
1 AATACCCTTGTAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAGAATTACCGAAATA-CCCTG
*
53814293 TAGGGTAGAATTACCGA
64 TAGGGTAGAATTACCAA
* * *
53814310 AATACTCC-TGTAGGGTAGAATTACTGAAATATCCCTGTAGGGTAGAATTATCGCAATACCCCTG
1 AATAC-CCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATA-CCCTG
53814374 TAGGGTAGAATTACCAA
64 TAGGGTAGAATTACCAA
* * *
53814391 AATACCCTTGTAGGGTAGAATTACT-AAAGTACCCCTGTAGGGTGGAATTACCGAGATACCTTGT
1 AATACCCTTGTAGGGTAGAATTACTGAAA-TACCCCTGTAGGGTAGAATTACCGAAATACCCTGT
* *
53814455 GGGGTAAAATTACCA
65 AGGGTAGAATTACCA
53814470 TTTTGCCCCT
Statistics
Matches: 284, Mismatches: 31, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
80 24 0.08
81 253 0.89
82 7 0.02
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (80 bp):
AATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTGTA
GGGTAGAATTACCAA
Found at i:53814928 original size:22 final size:22
Alignment explanation
Indices: 53814895--53814959 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
53814885 TTAAAGCCTT
*
53814895 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
53814917 CT-ATATATGGCTCTGTGCCAAC
1 CTGAT-TATGGCTTTGTGCCAAC
*
53814939 CTGATTATGCCTTTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
53814960 ACGTATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:53815219 original size:27 final size:26
Alignment explanation
Indices: 53815118--53815219 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
53815108 ATTCTGTTAA
* * *
53815118 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTCTGCCACAATATCT-GTTCTG
*
53815145 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
53815172 GTGGCTCTACCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
53815199 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
53815220 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.14
27 50 0.77
28 6 0.09
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:53817487 original size:24 final size:24
Alignment explanation
Indices: 53817456--53817568 Score: 76
Period size: 24 Copynumber: 4.9 Consensus size: 24
53817446 AAGCTCTTCA
* *
53817456 TGAGCTGATAATAGTAAGCTCTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
* *
53817480 TGAGCTGAAAACGGTTAGCTCTAT
1 TGAGCTGAAAACAGTAAGCTCTAT
* * *
53817504 TGAGCTG--CACAGTAGGTTCT-T
1 TGAGCTGAAAACAGTAAGCTCTAT
* *
53817525 TCAAGCTG-AATCAGTAAGCTCCTA-
1 T-GAGCTGAAAACAGTAAGCT-CTAT
*
53817549 TGAGCT-AAAACAATAAGCTC
1 TGAGCTGAAAACAGTAAGCTC
53817569 ATACAAGTTA
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
21 2 0.03
22 14 0.21
23 21 0.31
24 30 0.45
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAT
Found at i:53820817 original size:17 final size:17
Alignment explanation
Indices: 53820795--53820828 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
53820785 AATTATAAGC
53820795 ATTATAATA-TAAAATAT
1 ATTATAA-AGTAAAATAT
53820812 ATTATAAAGTAAAATAT
1 ATTATAAAGTAAAATAT
53820829 GAGTGGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTATAAAGTAAAATAT
Found at i:53826864 original size:33 final size:33
Alignment explanation
Indices: 53826822--53826890 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
53826812 CATTGCTGAG
*
53826822 ATTGTGAGATTGCACGGGGTGCCTATTTCTATC
1 ATTGTGAGATTGCACAGGGTGCCTATTTCTATC
53826855 ATTGTGAGATTGCACAGGGTGCCTATTTCTATC
1 ATTGTGAGATTGCACAGGGTGCCTATTTCTATC
53826888 ATT
1 ATT
53826891 TCGGATAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (33 bp):
ATTGTGAGATTGCACAGGGTGCCTATTTCTATC
Found at i:53828719 original size:51 final size:52
Alignment explanation
Indices: 53828624--53828787 Score: 200
Period size: 51 Copynumber: 3.2 Consensus size: 52
53828614 TGATGGCCAG
* *
53828624 CACATAGTACCAC-C-ATTGTAGTCAAAGCTACCTTT-TTCACAAAGTGGCCTT
1 CACATAGTACCACACTATTG-A-CCAAAGCTATCTTTCTTCACAAAGTGGCCTT
53828675 C-CATAGTACCACACT-TGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTAT-TGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
* * *
53828726 CAAATAGTATCACACTATTGACC-AAGCTATC--TCTTCTCAAAGTGGCCTT
1 CACATAGTACCACACTATTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
53828775 CACATAGTACCAC
1 CACATAGTACCAC
53828788 CCTCGAGTCA
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
49 28 0.28
50 23 0.23
51 29 0.29
52 19 0.19
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (52 bp):
CACATAGTACCACACTATTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
Found at i:53828748 original size:52 final size:52
Alignment explanation
Indices: 53828624--53828787 Score: 200
Period size: 49 Copynumber: 3.2 Consensus size: 52
53828614 TGATGGCCAG
* *
53828624 CACATAGTACCAC-CATTGT-AGTCAAAGCTACCTTT-TTCACAAAGTGGCCTT
1 CACATAGTACCACAC-TTGTGA-CCAAAGCTATCTTTCTTCACAAAGTGGCCTT
53828675 C-CATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
* * *
53828726 CAAATAGTATCACACTAT-TGACC-AAGCTATC--TCTTCTCAAAGTGGCCTT
1 CACATAGTACCACACT-TGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
53828775 CACATAGTACCAC
1 CACATAGTACCAC
53828788 CCTCGAGTCA
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
49 28 0.28
50 27 0.27
51 28 0.28
52 17 0.17
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (52 bp):
CACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
Found at i:53838241 original size:49 final size:51
Alignment explanation
Indices: 53838076--53838253 Score: 227
Period size: 51 Copynumber: 3.5 Consensus size: 51
53838066 CAGATACACG
* * * * * *
53838076 GTGGCCTACACGTAGTACCACCCTTGT-AGTCAAAGCTACCTTCCTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAA
*
53838127 GTGGCCTTCACATAGTACTACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
* * *
53838179 GTGGCCTTTACATAGTACCACATTTGTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
53838228 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
53838254 AGTCACTAGT
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
49 33 0.29
51 40 0.36
52 39 0.35
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:53841330 original size:42 final size:42
Alignment explanation
Indices: 53841277--53841389 Score: 136
Period size: 43 Copynumber: 2.7 Consensus size: 42
53841267 TAAAGATTAA
* ***
53841277 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATACGAGATCCC
* * *
53841319 GTGTAAAACCATAGCTGGGCTATTGGCATCGATACGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATACGAGATCCC
* *
53841362 ATGTAAGACCATATTTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
53841390 TGGTATGGTA
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATACGAGATCCC
Found at i:53841459 original size:12 final size:12
Alignment explanation
Indices: 53841442--53841466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53841432 TATTCCAAGT
53841442 AATTCAACGGGA
1 AATTCAACGGGA
53841454 AATTCAACGGGA
1 AATTCAACGGGA
53841466 A
1 A
53841467 TGTTGAAGTT
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:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (12 bp):
AATTCAACGGGA
Found at i:53844521 original size:44 final size:43
Alignment explanation
Indices: 53844473--53844629 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
53844463 TGTGTTATCG
*
53844473 TGTAAGACCATGTCTGGGACATTGGCATC-AACTTATGATTTAAA
1 TGTAAGACCATGTCTGGGACATTGGCATCGAA-TT-TGATTTACA
** * *
53844517 TGTAAGACCATGTCTGGGACAGCGGCATCGTATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGAATTTGATTTACA
** *
53844559 TGTAAGACTTTGTCTGGGAC-TGTGGGATCGATATTTG-TTTACA
1 TGTAAGACCATGTCTGGGACAT-TGGCATCGA-ATTTGATTTACA
* *
53844602 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
53844630 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
42 27 0.29
43 34 0.37
44 30 0.33
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGAATTTGATTTACA
Found at i:53859416 original size:18 final size:18
Alignment explanation
Indices: 53859393--53859436 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
53859383 CTTGGCCCAT
* *
53859393 TGCAGTAAGAATACA-CAG
1 TGCAGTAACAATA-ATCAA
53859411 TGCAGTAACAATAATCAA
1 TGCAGTAACAATAATCAA
53859429 TGCAGTAA
1 TGCAGTAA
53859437 TGGTATACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (18 bp):
TGCAGTAACAATAATCAA
Found at i:53859812 original size:27 final size:27
Alignment explanation
Indices: 53859770--53859940 Score: 173
Period size: 27 Copynumber: 6.3 Consensus size: 27
53859760 TTGGGCAAGG
* *
53859770 CAGTCATCTTACCACATAAGGGAAAAA
1 CAGTCATTTTACCACAAAAGGGAAAAA
* * *
53859797 CAATCATTTTAACACAAAAGGGAAAAC
1 CAGTCATTTTACCACAAAAGGGAAAAA
*
53859824 CAGTCATTTTACCACATAAGGGAAAAA
1 CAGTCATTTTACCACAAAAGGGAAAAA
* **
53859851 TAGTCATTTTACGTCAAAAGGGAAAAA
1 CAGTCATTTTACCACAAAAGGGAAAAA
* * ** *
53859878 TAGTTATTTTACCTTAAAAGGGCAAAA
1 CAGTCATTTTACCACAAAAGGGAAAAA
* * *
53859905 CAATCATTTTATCTCAAAA-GGACAAAA
1 CAGTCATTTTACCACAAAAGGGA-AAAA
53859932 CAGTCATTT
1 CAGTCATTT
53859941 AATTAATTTA
Statistics
Matches: 119, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 2 0.02
27 117 0.98
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (27 bp):
CAGTCATTTTACCACAAAAGGGAAAAA
Found at i:53859836 original size:54 final size:54
Alignment explanation
Indices: 53859770--53859940 Score: 202
Period size: 54 Copynumber: 3.2 Consensus size: 54
53859760 TTGGGCAAGG
* * *
53859770 CAGTCATCTTACCACATAAGGGAAAAACAATCATTTTAACACAAAAGGGAAAAC
1 CAGTCATTTTACCACATAAGGGAAAAACAATCATTTTAACTCAAAAGGGAAAAA
* *
53859824 CAGTCATTTTACCACATAAGGGAAAAATAGTCATTTT-ACGTCAAAAGGGAAAAA
1 CAGTCATTTTACCACATAAGGGAAAAACAATCATTTTAAC-TCAAAAGGGAAAAA
* * ** * * *
53859878 TAGTTATTTTACCTTAAAAGGGCAAAACAATCATTTTATCTCAAAA-GGACAAAA
1 CAGTCATTTTACCACATAAGGGAAAAACAATCATTTTAACTCAAAAGGGA-AAAA
53859932 CAGTCATTT
1 CAGTCATTT
53859941 AATTAATTTA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 5 0.05
54 92 0.94
55 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (54 bp):
CAGTCATTTTACCACATAAGGGAAAAACAATCATTTTAACTCAAAAGGGAAAAA
Found at i:53862425 original size:46 final size:45
Alignment explanation
Indices: 53862332--53862417 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
53862322 TACATTTCAC
* * * *
53862332 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACAAGTTCGGA-ATGCGCAACCATAAGT
*
53862378 GAACTCAGACTCAACTCAACAAGTTCGG-ATGCTCAACCAT
1 GAACTCAGACTCAACTCAACAAGTTCGGAATGCGCAACCAT
53862418 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACAAGTTCGGAATGCGCAACCATAAGT
Found at i:53862863 original size:30 final size:30
Alignment explanation
Indices: 53862829--53862888 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
53862819 ATTTAATATG
*
53862829 AACTTTGGAAAAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
53862859 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
53862889 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:53867048 original size:40 final size:40
Alignment explanation
Indices: 53867000--53867181 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
53866990 GCTACTCGCT
* * *
53867000 CAAATGCCTTCGGGACATAGCCC-GATTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCACA
*
53867040 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
53867080 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
* ** * *
53867120 CAAATGCCTTCAGGACTT-GCCCGGAACTAGTCACT-AGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCA-CA
* *
53867159 TAGATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
53867182 AGTTATCATC
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 30 0.24
40 91 0.72
41 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACA
Found at i:53869469 original size:53 final size:47
Alignment explanation
Indices: 53869342--53869444 Score: 179
Period size: 47 Copynumber: 2.2 Consensus size: 47
53869332 CACTTAACTC
*
53869342 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
53869389 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
53869436 TCACATATA
1 TCACATATA
53869445 CATATATTGT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:53885436 original size:20 final size:20
Alignment explanation
Indices: 53885408--53885445 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53885398 ATGATTTGAC
*
53885408 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
*
53885428 ATGAAATGCGCATGATAT
1 ATGAAATGCACATGATAT
53885446 ATTCATATAT
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:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:53890816 original size:47 final size:47
Alignment explanation
Indices: 53890750--53891174 Score: 674
Period size: 47 Copynumber: 9.1 Consensus size: 47
53890740 GAAATGATAG
53890750 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53890797 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
53890844 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53890891 TAAGGCCTAATAGCCGATGTGATGAATGTGAAA-TGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53890937 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
53890984 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53891031 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53891078 TAAGGCCTAATGGTCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
53891124 CAGGGCCGAGTGGCCAACGTGATGGATGCGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53891171 TAAG
1 TAAG
53891175 TCCCGAAGGG
Statistics
Matches: 356, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 84 0.24
47 272 0.76
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:53891065 original size:187 final size:187
Alignment explanation
Indices: 53890750--53891174 Score: 672
Period size: 187 Copynumber: 2.3 Consensus size: 187
53890740 GAAATGATAG
*
53890750 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
* *
53890815 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
*
53890880 TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA-TGTATATATGTGA
131 TATATATGTGATAAGGCCTAATAGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
*
53890937 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
53891002 GTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
53891067 TATATATGTGATAAGGCCTAATGGTCGATGTGTGAATGTGAAAGTGTATATATGTGA
131 TATATATGTGATAAGGCCTAATAGCCGATGTGTGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
53891124 CAGGGCCGAGTGGCCAACGTGATGGATGCGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53891175 TCCCGAAGGG
Statistics
Matches: 218, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
186 11 0.05
187 207 0.95
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (187 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATAGCCGATGTGTGAATGTGAAAGTGTATATATGTGA
Found at i:53891146 original size:140 final size:141
Alignment explanation
Indices: 53890750--53891174 Score: 683
Period size: 140 Copynumber: 3.0 Consensus size: 141
53890740 GAAATGATAG
53890750 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
53890815 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
*
53890880 TATATGTGTGA
131 TATATATGTGA
* *
53890891 TAAGGCCTAATAGCCGATGTGATGAATGTGAAA-TGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
53890955 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
*
53891020 TATATATGTAA
131 TATATATGTGA
*
53891031 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * * * * * * *
53891096 GTG-TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGCGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
53891160 CATAAATGTGA
131 TATATATGTGA
53891171 TAAG
1 TAAG
53891175 TCCCGAAGGG
Statistics
Matches: 263, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
140 199 0.76
141 64 0.24
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGA
Found at i:53891348 original size:37 final size:37
Alignment explanation
Indices: 53891292--53891370 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
53891282 CCGAGCTCTA
* *
53891292 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
53891329 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53891366 AAGAC
1 AAGAC
53891371 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53897862 original size:9 final size:9
Alignment explanation
Indices: 53897817--53897931 Score: 64
Period size: 9 Copynumber: 12.6 Consensus size: 9
53897807 AATCTTATTT
53897817 TTATATTATA
1 TTAT-TTATA
*
53897827 TTATATA-A
1 TTATTTATA
53897835 TTATTT-TA
1 TTATTTATA
53897843 TTA-TT-TA
1 TTATTTATA
*
53897850 TTATTCATA
1 TTATTTATA
53897859 TTATTTATA
1 TTATTTATA
53897868 TATATTATATA
1 T-TATT-TATA
*
53897879 TTATTTTTA
1 TTATTTATA
*
53897888 -CATTTATA
1 TTATTTATA
53897896 CTTTCATATTATA
1 --TT-AT-TTATA
53897909 -TA-TTATA
1 TTATTTATA
53897916 TTTATTTTATA
1 -TTA-TTTATA
53897927 TTATT
1 TTATT
53897932 ATGTCATTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 29
0.69 0.07 0.24
Matches are distributed among these distances:
7 12 0.14
8 17 0.20
9 21 0.25
10 16 0.19
11 10 0.12
12 2 0.02
13 5 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
TTATTTATA
Found at i:53897866 original size:20 final size:20
Alignment explanation
Indices: 53897812--53897981 Score: 104
Period size: 20 Copynumber: 8.3 Consensus size: 20
53897802 TTTTTAATCT
53897812 TATT-TTTATATTATATTATA
1 TATTATTTATA-TATATTATA
*
53897832 TAATTATTTTATTATTTATTATTCA
1 T-ATTA-TTTA-TATATATTA-T-A
53897857 TATTATTTATATATATTATA
1 TATTATTTATATATATTATA
* *
53897877 TATTATTTTTACAT-TTATA
1 TATTATTTATATATATTATA
*
53897896 CT-TTCATAT-TATATATTATA
1 -TATT-ATTTATATATATTATA
*
53897916 T-TTATTT-TATATTATTATG
1 TATTATTTATATA-TATTATA
*
53897935 TCATT-TTTTTATACTATTATA
1 T-ATTATTTATATA-TATTATA
* *
53897956 TATATTTTTATCTATATTAT-
1 TAT-TATTTATATATATTATA
53897976 TATTAT
1 TATTAT
53897982 CAAAAGTTTT
Statistics
Matches: 122, Mismatches: 13, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
18 7 0.06
19 23 0.19
20 31 0.25
21 24 0.20
22 14 0.11
23 14 0.11
24 7 0.06
25 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (20 bp):
TATTATTTATATATATTATA
Found at i:53897883 original size:32 final size:31
Alignment explanation
Indices: 53897811--53897976 Score: 81
Period size: 29 Copynumber: 5.5 Consensus size: 31
53897801 ATTTTTAATC
*
53897811 TTATTTTTATATTATATTATATA-ATTAT-T-
1 TTATTATTATATTAT-TTATATATATTATATA
*
53897840 TTATTATT-TATTATTCATAT-TATT-TATA
1 TTATTATTATATTATTTATATATATTATATA
* *
53897868 TATATTA-TATATTATTTTTACAT-TTATACT-
1 T-TATTATTATATTATTTATATATATTATA-TA
* *
53897898 TTCA-TATTATA-TA-TTATATTTATTTTATA
1 TT-ATTATTATATTATTTATATATATTATATA
*
53897927 TTATTATGTCAT-TTTTTTATACTAT-TATATATA
1 TTATTAT-T-ATATTATTTATA-TATAT-TATATA
*
53897960 TTTTTATCTATATTATT
1 TTATTAT-TATATTATT
53897977 ATTATCAAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 36
0.67 0.10 0.24
Matches are distributed among these distances:
26 1 0.01
27 9 0.09
28 15 0.15
29 37 0.36
30 10 0.10
31 4 0.04
32 8 0.08
33 18 0.18
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (31 bp):
TTATTATTATATTATTTATATATATTATATA
Found at i:53897887 original size:45 final size:41
Alignment explanation
Indices: 53897823--53897976 Score: 137
Period size: 39 Copynumber: 3.7 Consensus size: 41
53897813 ATTTTTATAT
53897823 TATATTATATAATTATTTTATTATTTATTATTCATATTATTTATA
1 TATATTATAT-ATTATTTTA-TATTTATTATTCAT-TTATTT-TA
* *
53897868 TATATTATATATTATTTTTACATTTA-TA--C-TTTCATATTA
1 TATATTATATATTA-TTTTATATTTATTATTCATTT-ATTTTA
53897907 TATATTATAT-TTATTTTATA-TTATTATGTCATTT-TTTTA
1 TATATTATATATTATTTTATATTTATTAT-TCATTTATTTTA
53897946 TACTATTATATA-TATTTT-TATCTATATTATT
1 TA-TATTATATATTATTTTATAT-T-TATTATT
53897977 ATTATCAAAA
Statistics
Matches: 93, Mismatches: 4, Indels: 28
0.74 0.03 0.22
Matches are distributed among these distances:
36 3 0.03
37 8 0.09
38 3 0.03
39 22 0.24
40 19 0.20
41 6 0.06
42 6 0.06
43 2 0.02
44 9 0.10
45 15 0.16
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (41 bp):
TATATTATATATTATTTTATATTTATTATTCATTTATTTTA
Found at i:53897971 original size:24 final size:22
Alignment explanation
Indices: 53897901--53897978 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 22
53897891 TTATACTTTC
* *
53897901 ATATTATATATTATATTTATTTT
1 ATATTATATA-TATTTTTATTAT
*
53897924 ATATTATTATGTCATTTTT-TTAT
1 ATATTA-TATAT-ATTTTTATTAT
53897947 ACTATTATATATATTTTTATCTAT
1 A-TATTATATATATTTTTAT-TAT
53897971 ATTATTAT
1 A-TATTAT
53897979 TATCAAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 6 0.13
23 16 0.36
24 23 0.51
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (22 bp):
ATATTATATATATTTTTATTAT
Found at i:53898315 original size:12 final size:13
Alignment explanation
Indices: 53898271--53898319 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
53898261 ATTTTTTTTG
*
53898271 TTATTATATATTA
1 TTATTAAATATTA
53898284 TATATTAAATATTA
1 T-TATTAAATATTA
53898298 TT-TTAAA-ATTA
1 TTATTAAATATTA
53898309 TTATTAAATAT
1 TTATTAAATAT
53898320 CATTTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.19
12 10 0.31
13 4 0.12
14 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTAAATATTA
Found at i:53910515 original size:205 final size:205
Alignment explanation
Indices: 53910210--53911100 Score: 1469
Period size: 205 Copynumber: 4.4 Consensus size: 205
53910200 CAAACCAAAA
* *
53910210 ACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATATCTGT
1 ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
* *
53910275 ATTGTCAGAGAGCAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATC
66 ATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATAAATAGCAGATC
* * * *
53910340 TCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGATTTAGCATTCTTGTTCTTACAAGGAA
131 TCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAG
* * *
53910405 CAAACCAAAG
196 CGAATCGAAG
* *
53910415 ACATAGTTGATTTGGCTTTCACCTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
1 ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
* *
53910480 ATTGTCAAAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATAAATAGTAGATC
66 ATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATAAATAGCAGATC
* * *
53910545 TCACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTAGTATCCTTGTGTTTACAAGGAG
131 TCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAG
53910610 CGAATCGAAG
196 CGAATCGAAG
* * *
53910620 ACATAGCTGATTTGTCTTTCACGTGTTTACGTTGAAGAAAATCTAAGATGATTTGGCATCTCTCT
1 ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
* * * *
53910685 ATTGTCAGAGAGAAAATCGAAGTCTGGCATCTCCACTTCAAC-AGGAGCAGATAAATAGTAGACC
66 ATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATAAATAGCAGATC
53910749 TCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAG
131 TCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAG
53910814 CGAATCGAAG
196 CGAATCGAAG
* *
53910824 ACATTGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTCTGT
1 ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
* * *
53910889 ATTGTTAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCACATACATAGCAGATC
66 ATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATAAATAGCAGATC
* *
53910954 TCACCTTCAGATGTTTATACTGAAGCAGATCTAAGATGATTTAGCATCCTTGTGCTAACAAGGAG
131 TCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAG
53911019 CGAATCGAAG
196 CGAATCGAAG
* *
53911029 ACAAAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTTGT
1 ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
53911094 ATTGTCA
66 ATTGTCA
53911101 AGGAACACAC
Statistics
Matches: 636, Mismatches: 49, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
204 192 0.30
205 444 0.70
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (205 bp):
ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
ATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATAAATAGCAGATC
TCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAG
CGAATCGAAG
Found at i:53910923 original size:409 final size:410
Alignment explanation
Indices: 53910210--53911100 Score: 1469
Period size: 409 Copynumber: 2.2 Consensus size: 410
53910200 CAAACCAAAA
* *
53910210 ACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCATATCTGT
1 ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
* * * *
53910275 ATTGTCAGAGAGCAAATCAAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATACATAGCAGATC
66 ATTGTCAGAGAGAAAATCAAAGTCTGGCATCTCCACTTCAACGAGGAGCAGATAAATAGCAGACC
* *
53910340 TCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGATTTAGCATTCTTGTTCTTACAAGGAA
131 TCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAA
* *
53910405 CAAACCAAAGACATAGTTGATTTGGCTTTCACCTGTTTACGTTGAAGCAAATCTAAGATGATTTG
196 CAAACCAAAGACATAGCTGATTTGGCTTTCACCTGTTTACGTTAAAGCAAATCTAAGATGATTTG
*
53910470 GCATCTCTGTATTGTCAAAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCAGATAA
261 GCATCTCTGTATTGTCAAAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCACATAA
* * *
53910535 ATAGTAGATCTCACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTAGTATCCTTGTGT
326 ATAGCAGATCTCACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTAGCATCCTTGTGC
*
53910600 TTACAAGGAGCGAATCGAAG
391 TAACAAGGAGCGAATCGAAG
* * *
53910620 ACATAGCTGATTTGTCTTTCACGTGTTTACGTTGAAGAAAATCTAAGATGATTTGGCATCTCTCT
1 ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
* *
53910685 ATTGTCAGAGAGAAAATCGAAGTCTGGCATCTCCACTTCAAC-AGGAGCAGATAAATAGTAGACC
66 ATTGTCAGAGAGAAAATCAAAGTCTGGCATCTCCACTTCAACGAGGAGCAGATAAATAGCAGACC
* *
53910749 TCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAG
131 TCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAA
* * * * *
53910814 CGAATCGAAGACATTGCTGATTTGGCTTTCACGTGTTTACGTTAAAGCAAATCTAAGATGATTTG
196 CAAACCAAAGACATAGCTGATTTGGCTTTCACCTGTTTACGTTAAAGCAAATCTAAGATGATTTG
* * *
53910879 GCATCTCTGTATTGTTAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCACATAC
261 GCATCTCTGTATTGTCAAAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCACATAA
* *
53910944 ATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCTAAGATGATTTAGCATCCTTGTGC
326 ATAGCAGATCTCACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTAGCATCCTTGTGC
53911009 TAACAAGGAGCGAATCGAAG
391 TAACAAGGAGCGAATCGAAG
* *
53911029 ACAAAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTTTGT
1 ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
53911094 ATTGTCA
66 ATTGTCA
53911101 AGGAACACAC
Statistics
Matches: 444, Mismatches: 37, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
409 344 0.77
410 100 0.23
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (410 bp):
ACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
ATTGTCAGAGAGAAAATCAAAGTCTGGCATCTCCACTTCAACGAGGAGCAGATAAATAGCAGACC
TCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTGCTTACAAGGAA
CAAACCAAAGACATAGCTGATTTGGCTTTCACCTGTTTACGTTAAAGCAAATCTAAGATGATTTG
GCATCTCTGTATTGTCAAAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACGGGGAGCACATAA
ATAGCAGATCTCACCTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTAGCATCCTTGTGC
TAACAAGGAGCGAATCGAAG
Found at i:53912796 original size:32 final size:31
Alignment explanation
Indices: 53912760--53912876 Score: 107
Period size: 32 Copynumber: 3.6 Consensus size: 31
53912750 CTTTTTAATC
53912760 TTATTTTTATATTATATTATATAATTAT-T-
1 TTATTTTTATATTATATTATATAATTATATA
53912789 TTATTATTTATTATTCATATTATTTATATATTATATA
1 TTATT-TTTA-TATT-ATATTA--TATA-ATTATATA
* *
53912826 TTATTTTTACATATATACTTTTAT-ATTATATA
1 TTATTTTTATAT-TATA-TTATATAATTATATA
*
53912858 TTA-TTTTATTTTATATTAT
1 TTATTTTTATATTATATTAT
53912877 TATGTCATTT
Statistics
Matches: 73, Mismatches: 5, Indels: 20
0.74 0.05 0.20
Matches are distributed among these distances:
29 8 0.11
30 8 0.11
31 10 0.14
32 17 0.23
34 7 0.10
35 10 0.14
36 8 0.11
37 5 0.07
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (31 bp):
TTATTTTTATATTATATTATATAATTATATA
Found at i:53912800 original size:23 final size:22
Alignment explanation
Indices: 53912764--53912923 Score: 73
Period size: 23 Copynumber: 7.1 Consensus size: 22
53912754 TTAATCTTAT
53912764 TTTTA-TATTATATTATATAATTA
1 TTTTATTATT-TATTATAT-ATTA
53912787 TTTTATTATTTATTATTCATATTA
1 TTTTATTATTTATTA-T-ATATTA
53912811 -TTTA-TA--TATTATATATTA
1 TTTTATTATTTATTATATATTA
* * *
53912829 TTTTTACATATATACTTTTATATTA
1 -TTTTA-TTATTTA-TTATATATTA
* *
53912854 -TATATTATTTTATTTTATATTA
1 TTTTATTA-TTTATTATATATTA
* * * *
53912876 TTATGTCATTTTTTATACTATTA
1 TTTTATTATTTATTATA-TATTA
* *
53912899 -TATATTTTTTATCTATATTATTA
1 TTTTATTATTTAT-TATA-TATTA
53912922 TT
1 TT
53912924 ATCAAAAGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 29
0.72 0.09 0.19
Matches are distributed among these distances:
18 6 0.06
19 1 0.01
20 9 0.08
22 31 0.28
23 39 0.36
24 12 0.11
25 11 0.10
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (22 bp):
TTTTATTATTTATTATATATTA
Found at i:53912811 original size:9 final size:9
Alignment explanation
Indices: 53912766--53912920 Score: 72
Period size: 8 Copynumber: 18.6 Consensus size: 9
53912756 AATCTTATTT
53912766 TTATATTATA
1 TTAT-TTATA
*
53912776 TTATATA-A
1 TTATTTATA
53912784 TTATTT-TA
1 TTATTTATA
53912792 TTA-TT-TA
1 TTATTTATA
*
53912799 TTATTCATA
1 TTATTTATA
53912808 TTATTTATA
1 TTATTTATA
53912817 -TATTATATA
1 TTATT-TATA
*
53912826 TTATTTTTA
1 TTATTTATA
* *
53912835 -CATATATA
1 TTATTTATA
*
53912843 CT-TTTATA
1 TTATTTATA
53912851 TTA--TATA
1 TTATTTATA
53912858 TTATTT-TA
1 TTATTTATA
53912866 -T-TTTATA
1 TTATTTATA
*
53912873 TTATTATGTCA
1 TTATT-TAT-A
*
53912884 TTTTTTATA
1 TTATTTATA
*
53912893 CTA-TTATA
1 TTATTTATA
53912901 -TATTT-T-
1 TTATTTATA
*
53912907 TTATCTATA
1 TTATTTATA
53912916 TTATT
1 TTATT
53912921 ATTATCAAAA
Statistics
Matches: 109, Mismatches: 18, Indels: 37
0.66 0.11 0.23
Matches are distributed among these distances:
6 3 0.03
7 24 0.22
8 37 0.34
9 28 0.26
10 12 0.11
11 5 0.05
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (9 bp):
TTATTTATA
Found at i:53912821 original size:43 final size:41
Alignment explanation
Indices: 53912772--53912923 Score: 142
Period size: 39 Copynumber: 3.8 Consensus size: 41
53912762 ATTTTTATAT
53912772 TATATTATATAATTATTTTATTATTTATTATTCATATTATTTA
1 TATATTATAT-ATTATTTTATTATTTATTATTCAT-TTATTTA
** * *
53912815 TATATTATATATTA-TTT-TTACATA-TATACTTTTATATTA
1 TATATTATATATTATTTTATTATTTATTATTCATTTAT-TTA
53912854 TATATTAT-T-TTATTTTA-TA-TTATTATGTCATTT-TTTA
1 TATATTATATATTATTTTATTATTTATTAT-TCATTTATTTA
53912891 TACTATTATATATT-TTTTATCTATATTATTATT
1 TA-TATTATATATTATTTTAT-TAT-TTATTATT
53912924 ATCAAAAGTT
Statistics
Matches: 90, Mismatches: 7, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
37 10 0.11
38 20 0.22
39 26 0.29
40 7 0.08
41 5 0.06
42 5 0.06
43 17 0.19
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (41 bp):
TATATTATATATTATTTTATTATTTATTATTCATTTATTTA
Found at i:53912834 original size:20 final size:20
Alignment explanation
Indices: 53912772--53912925 Score: 87
Period size: 20 Copynumber: 7.8 Consensus size: 20
53912762 ATTTTTATAT
53912772 TATATTATATAATTATTTTATTA
1 TATATTATAT-ATTA-TTT-TTA
*
53912795 TTTATTAT-TCA-TATTATTTA
1 TATATTATAT-ATTATT-TTTA
53912815 TATATTATATATTATTTTTA
1 TATATTATATATTATTTTTA
* * *
53912835 CATA-TATACTTTTA-TATTA
1 TATATTATA-TATTATTTTTA
53912854 TATATTAT-T-TTA-TTTTA
1 TATATTATATATTATTTTTA
*
53912871 TATTATTATGTCA-T-TTTTTA
1 TA-TATTATAT-ATTATTTTTA
*
53912891 TACTATTATATATT-TTTTATC
1 TA-TATTATATATTATTTT-TA
53912912 TATATTAT-TATTAT
1 TATATTATATATTAT
53912926 CAAAAGTTTT
Statistics
Matches: 107, Mismatches: 11, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
17 9 0.08
18 7 0.07
19 17 0.16
20 54 0.50
21 11 0.10
22 2 0.02
23 7 0.07
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (20 bp):
TATATTATATATTATTTTTA
Found at i:53912839 original size:15 final size:17
Alignment explanation
Indices: 53912805--53912866 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
53912795 TTTATTATTC
*
53912805 ATATTATTTATATATTAT
1 ATATTATTT-TATATCAT
53912823 ATATTATTTT-TA-CAT
1 ATATTATTTTATATCAT
*
53912838 ATA-TACTTTTATATTAT
1 ATATTA-TTTTATATCAT
53912855 ATATTATTTTAT
1 ATATTATTTTAT
53912867 TTTATATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 2 0.05
15 9 0.24
16 4 0.11
17 12 0.32
18 11 0.29
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTATTTTATATCAT
Found at i:53913245 original size:24 final size:24
Alignment explanation
Indices: 53913218--53913266 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
53913208 TAATTTTTTG
*
53913218 TTATTAT-ATATTATATATTAAATA
1 TTATTATAAAATTAT-TATTAAATA
*
53913242 TTATTTTAAAATTATTATTAAATA
1 TTATTATAAAATTATTATTAAATA
53913266 T
1 T
53913267 CATATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTATAAAATTATTATTAAATA
Found at i:53913262 original size:12 final size:13
Alignment explanation
Indices: 53913218--53913266 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
53913208 TAATTTTTTG
*
53913218 TTATTATATATTA
1 TTATTAAATATTA
53913231 TATATTAAATATTA
1 T-TATTAAATATTA
53913245 TT-TTAAA-ATTA
1 TTATTAAATATTA
53913256 TTATTAAATAT
1 TTATTAAATAT
53913267 CATATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.19
12 10 0.31
13 4 0.12
14 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTAAATATTA
Found at i:53913272 original size:12 final size:12
Alignment explanation
Indices: 53913231--53913272 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
53913221 TTATATATTA
53913231 TATATTAAATAT
1 TATATTAAATAT
*
53913243 TATTTTAAA-AT
1 TATATTAAATAT
53913254 TATTATTAAATAT
1 TA-TATTAAATAT
*
53913267 CATATT
1 TATATT
53913273 TTTTTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 4 0.16
12 18 0.72
13 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTAAATAT
Found at i:53913350 original size:17 final size:18
Alignment explanation
Indices: 53913307--53913353 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
53913297 ATTACTCACT
53913307 TTATTTTATAT-TTTTTA
1 TTATTTTATATATTTTTA
*
53913324 TTCTTTTATATATTTTTA
1 TTATTTTATATATTTTTA
*
53913342 -TATTCTATATAT
1 TTATTTTATATAT
53913354 ATCATTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTATATATTTTTA
Found at i:53913352 original size:19 final size:19
Alignment explanation
Indices: 53913313--53913355 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
53913303 CACTTTATTT
*
53913313 TATATTTTTTATTCTTTTA
1 TATATTTTTTATTCTTATA
53913332 TATATTTTTATATTC-TATA
1 TATATTTTT-TATTCTTATA
53913351 TATAT
1 TATAT
53913356 CATTTATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (19 bp):
TATATTTTTTATTCTTATA
Found at i:53915615 original size:20 final size:20
Alignment explanation
Indices: 53915587--53915624 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53915577 ATGATTTGAC
*
53915587 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
*
53915607 ATGAAATGCGCATGATAT
1 ATGAAATGCACATGATAT
53915625 ATTCATATAT
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:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:53915703 original size:25 final size:25
Alignment explanation
Indices: 53915670--53915739 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
53915660 GAGGAAGTGA
*
53915670 AAAAGGGCTTTGCCCGAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
53915695 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
53915720 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53915740 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:53915763 original size:50 final size:50
Alignment explanation
Indices: 53915670--53915764 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
53915660 GAGGAAGTGA
* **
53915670 AAAAGGGCTTTGCCCGAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCG
**
53915720 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
53915765 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCG
Found at i:53919302 original size:93 final size:93
Alignment explanation
Indices: 53919193--53919363 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
53919183 GCCCCTAAGT
* * * * *
53919193 GAACTCGGAGTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGCACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53919258 CGAGTTCGAATGCCTAGTTACATTTCAC
66 CGAGTTCGAATGCCTAGTTACATTTCAC
*
53919286 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53919351 CGAGTTCGGATGC
66 CGAGTTCGAATGC
53919364 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATTTCAC
Found at i:53919360 original size:46 final size:46
Alignment explanation
Indices: 53919188--53919360 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
53919178 AACCCGCCCC
* * * * *
53919188 TAAGTGAACTCGGAGTCAACTCAACGAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
53919234 TAAGTGCACTCGGACTCAACTCAACGAGTTC-GA-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
53919280 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
53919327 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53919361 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 60 0.58
47 28 0.27
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:53921307 original size:15 final size:15
Alignment explanation
Indices: 53921281--53921336 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
53921271 CATGGAAACC
53921281 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
53921296 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
53921311 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
53921326 GAATAAAGAAA
1 GAATAAAGAAA
53921337 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:53924367 original size:46 final size:46
Alignment explanation
Indices: 53924300--53924471 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
53924290 AACCCGCCCC
* *
53924300 TAAGTGAACTCGGAGTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
53924346 TAAGTGCACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
53924394 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
53924439 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
53924472 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 57 0.56
47 26 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:53924414 original size:93 final size:93
Alignment explanation
Indices: 53924305--53924475 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
53924295 GCCCCTAAGT
* * * * *
53924305 GAACTCGGAGTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGCACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53924370 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
53924398 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53924463 CGAGTTCGGATGC
66 CGAGTTCGGATGC
53924476 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:53929752 original size:27 final size:27
Alignment explanation
Indices: 53929720--53929773 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
53929710 AAATTTGAGG
*
53929720 TTGAAAATTTATTTTAATATTATTTTA
1 TTGAAAATTTATTCTAATATTATTTTA
53929747 TTGAAAATTTATTCTAATATTATTTTA
1 TTGAAAATTTATTCTAATATTATTTTA
53929774 AGTGTTTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (27 bp):
TTGAAAATTTATTCTAATATTATTTTA
Found at i:53931825 original size:39 final size:38
Alignment explanation
Indices: 53931741--53931975 Score: 308
Period size: 39 Copynumber: 6.0 Consensus size: 38
53931731 AAAATCCAAT
* * *
53931741 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* *
53931781 TACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCCTTCGGGAC-TTAGCCCGGATATAA
* *
53931820 CACCAGCATGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCA-CAAAGCCTTCGGGACTTAGCCCGGATATAA
*
53931859 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
*
53931898 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
* *
53931937 CACCAGCACAAATGTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACAAA-GCCTTCGGGACTTAGCCCGGATATAA
53931976 TTCTCCATTA
Statistics
Matches: 181, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
38 2 0.01
39 144 0.80
40 35 0.19
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (38 bp):
CACCAGCACAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:53931974 original size:117 final size:119
Alignment explanation
Indices: 53931758--53931975 Score: 343
Period size: 117 Copynumber: 1.8 Consensus size: 119
53931748 ACAAAGCATG
*
53931758 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAACAC
1 CGGGACTTTAAGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAACAC
**
53931823 CAGCATGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
66 CAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
53931877 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACA
1 CGGGACTTTAAGCCCGGATATAACACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACA
* *
53931939 CCAGCACAAATGTCTTTGGGACTTAGCCCGGATATAA
65 CCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
53931976 TTCTCCATTA
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
117 71 0.78
118 14 0.15
119 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (119 bp):
CGGGACTTTAAGCCCGGATATAACACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAACAC
CAGCACAAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:53946728 original size:17 final size:17
Alignment explanation
Indices: 53946706--53946738 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
53946696 ACACAACTTC
53946706 AAACATTTCATTATAGG
1 AAACATTTCATTATAGG
53946723 AAACATTTCATTATAG
1 AAACATTTCATTATAG
53946739 CCCAAAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (17 bp):
AAACATTTCATTATAGG
Found at i:53948559 original size:24 final size:24
Alignment explanation
Indices: 53948514--53948560 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
53948504 TTATTTACAG
*
53948514 ATTATCCCCATTTCTAATAAACAT
1 ATTATCCCCATTTCTAAAAAACAT
*
53948538 ATTA-CCCCATTTTTAACAAAACA
1 ATTATCCCCATTTCTAA-AAAACA
53948561 ACATACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (24 bp):
ATTATCCCCATTTCTAAAAAACAT
Found at i:53949539 original size:22 final size:21
Alignment explanation
Indices: 53949509--53949563 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
53949499 ACACATTATG
*
53949509 TATATACATTTAAATACTATAT
1 TATATACATTT-AATACCATAT
*
53949531 TATACACATATTAATACCATAT
1 TATATACAT-TTAATACCATAT
53949553 TATATACATTT
1 TATATACATTT
53949564 TTTTTCATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 25 0.86
23 2 0.07
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATACATTTAATACCATAT
Found at i:53953742 original size:48 final size:47
Alignment explanation
Indices: 53953636--53953814 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 47
53953626 GATGTGGCTA
* * * * *
53953636 ATGCATGTCCCATACATGTCTTACACT-G-GCTCTTGTCTCAAAGGCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCGCACATATCTC-GAGGCG
*
53953682 ATGCATGTCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCGCACATATCTCGAGGC-G
* * * * *
53953730 ATGCATGTCCCAGACATGTCTTCCACTAGCTTTCGCA-ATGT-GA-TCG
1 ATGCATGTCCCAGACATGTCTTACACTAGC--GCACATATCTCGAGGCG
* *
53953776 ATGCATGTCCCAGACATGTCTTACGCTGGCGCACATATC
1 ATGCATGTCCCAGACATGTCTTACACTAGCGCACATATC
53953815 ACCTACACTG
Statistics
Matches: 110, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 54 0.49
47 6 0.05
48 39 0.35
49 3 0.03
50 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCGCACATATCTCGAGGCG
Found at i:53953747 original size:94 final size:93
Alignment explanation
Indices: 53953631--53953814 Score: 237
Period size: 94 Copynumber: 2.0 Consensus size: 93
53953621 TTGATGATGT
* * *
53953631 GGCTAATGCATGTCCCATACATGTCTTACACTGGCTCTTGTCTCAAAG-G-CGATGCATGTCCCA
1 GGCTAATGCATGTCCCAGACATGTCTTACACTAG--CTT-TCGCAAAGTGACGATGCATGTCCCA
53953694 GACATGTCTTACACTAGCACACATATCTCGA
63 GACATGTCTTACACTAGCACACATATCTCGA
* * *
53953725 GGCTGATGCATGTCCCAGACATGTCTTCCACTAGCTTTCGCAATGTGATCGATGCATGTCCCAGA
1 GGCTAATGCATGTCCCAGACATGTCTTACACTAGCTTTCGCAAAGTGA-CGATGCATGTCCCAGA
* * *
53953790 CATGTCTTACGCTGGCGCACATATC
65 CATGTCTTACACTAGCACACATATC
53953815 ACCTACACTG
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
91 6 0.08
92 4 0.05
94 68 0.87
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GGCTAATGCATGTCCCAGACATGTCTTACACTAGCTTTCGCAAAGTGACGATGCATGTCCCAGAC
ATGTCTTACACTAGCACACATATCTCGA
Found at i:53957989 original size:41 final size:41
Alignment explanation
Indices: 53957944--53958072 Score: 170
Period size: 41 Copynumber: 3.1 Consensus size: 41
53957934 GTTCATTAAG
* * * *
53957944 TGGAAAATGAATTTTTAAAATGATTTTATGGATTAG-TTATA
1 TGGAAAATGAATATATAAAATGATTATAT-GAATAGATTATA
53957985 TGGAAAATGAATATATAAAATGATTATATGAATAGATTATA
1 TGGAAAATGAATATATAAAATGATTATATGAATAGATTATA
* * * *
53958026 TGAAAAATGAATATATAAATTGATTATTTGAATCGATTATA
1 TGGAAAATGAATATATAAAATGATTATATGAATAGATTATA
53958067 TGGAAA
1 TGGAAA
53958073 TAGAAATACA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 5 0.06
41 73 0.94
ACGTcount: A:0.46, C:0.01, G:0.16, T:0.38
Consensus pattern (41 bp):
TGGAAAATGAATATATAAAATGATTATATGAATAGATTATA
Found at i:53958004 original size:13 final size:13
Alignment explanation
Indices: 53957988--53958044 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
53957978 AGTTATATGG
53957988 AAAATGAATATAT
1 AAAATGAATATAT
*
53958001 AAAATGATTATAT
1 AAAATGAATATAT
* *
53958014 -GAATAGATTATAT
1 AAAAT-GAATATAT
53958027 GAAAAATGAATATAT
1 --AAAATGAATATAT
53958042 AAA
1 AAA
53958045 TTGATTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 3 0.08
13 23 0.64
15 7 0.19
16 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (13 bp):
AAAATGAATATAT
Found at i:53958026 original size:28 final size:28
Alignment explanation
Indices: 53958001--53958057 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
53957991 ATGAATATAT
* *
53958001 AAAATGATTATATGAATAGATTATATGA
1 AAAATGAATATATAAATAGATTATATGA
* *
53958029 AAAATGAATATATAAATTGATTATTTGA
1 AAAATGAATATATAAATAGATTATATGA
53958057 A
1 A
53958058 TCGATTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (28 bp):
AAAATGAATATATAAATAGATTATATGA
Found at i:53960822 original size:34 final size:33
Alignment explanation
Indices: 53960783--53960875 Score: 91
Period size: 34 Copynumber: 2.8 Consensus size: 33
53960773 CGAGATGATG
53960783 AATAAGACCATAGTTGGGCTATGGCAAATCGAAT
1 AATAAGACCATAGTTGGGCTATGGCAAAT-GAAT
** * **
53960817 AATAAGACCATAACTGGGTTATGGCATGTGAAT
1 AATAAGACCATAGTTGGGCTATGGCAAATGAAT
* *
53960850 -ATAAGACCACAGTAGGGCCT-TGGCAA
1 AATAAGACCATAGTTGGG-CTATGGCAA
53960876 TGTATGTGTA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
32 18 0.38
33 5 0.11
34 24 0.51
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (33 bp):
AATAAGACCATAGTTGGGCTATGGCAAATGAAT
Found at i:53968053 original size:42 final size:43
Alignment explanation
Indices: 53968005--53968107 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
53967995 GAGATTACGA
* * * *
53968005 GTAAGACCATATCTGGGATA-TGGCGTCGATATGAGA-CTTCTT
1 GTAAGACCATATCTGGGATATTGGCATCAATATGAGATC-CCAT
* *
53968047 GTAAGACCATAGCTGGGCTATTGGCATCAATATGAGATCCCAT
1 GTAAGACCATATCTGGGATATTGGCATCAATATGAGATCCCAT
53968090 GTAAGACCATATCTGGGA
1 GTAAGACCATATCTGGGA
53968108 CATGACACTG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 18 0.35
43 32 0.63
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
GTAAGACCATATCTGGGATATTGGCATCAATATGAGATCCCAT
Found at i:53969215 original size:32 final size:31
Alignment explanation
Indices: 53969149--53969215 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
53969139 CAGAAACAGT
* *
53969149 GTAGGCCTCAGCCCATTACAGAATCAGTATCA
1 GTAGGCCTAAGCCCATTACAAAATCAG-ATCA
53969181 GTAGGACCTAAGCCCATTACAAAATCA-ATGCA
1 GTAGG-CCTAAGCCCATTACAAAATCAGAT-CA
53969213 GTA
1 GTA
53969216 TGCAATCAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 2 0.06
32 10 0.32
33 19 0.61
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (31 bp):
GTAGGCCTAAGCCCATTACAAAATCAGATCA
Found at i:53970817 original size:28 final size:27
Alignment explanation
Indices: 53970774--53970856 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
53970764 GGAGGAAGCG
* *
53970774 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTAGTGGCTCTGCCAC-AATATCTGT
53970802 TTCTAGTGGCTCTGCCACAATATCTGT
1 TTCTAGTGGCTCTGCCACAATATCTGT
* * * * *
53970829 ATATAGTGACTCTGTCATAATATCTGT
1 TTCTAGTGGCTCTGCCACAATATCTGT
53970856 T
1 T
53970857 CTGGCAACCA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 31 0.66
28 16 0.34
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (27 bp):
TTCTAGTGGCTCTGCCACAATATCTGT
Found at i:53970989 original size:6 final size:6
Alignment explanation
Indices: 53970980--53971095 Score: 85
Period size: 6 Copynumber: 18.8 Consensus size: 6
53970970 TTGCATTCAC
* *
53970980 ATTCTG ATTCTG ATTCT- ATTACCTG ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
** * *
53971030 ATTCTG ATTCTG ATTCTG ATTCCA ATTCTG -TCACCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
53971079 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
53971096 AGTTCTAGTA
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
5 5 0.06
6 68 0.80
7 7 0.08
8 5 0.06
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:53971015 original size:31 final size:31
Alignment explanation
Indices: 53970980--53971083 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
53970970 TTGCATTCAC
53970980 ATTCTGATTCTGATTCTATTACCTGATTCTG
1 ATTCTGATTCTGATTCTATTACCTGATTCTG
*
53971011 ATTCTGATTCTG-TCACCTAATT--CTGATTCTG
1 ATTCTGATTCTGAT--TCT-ATTACCTGATTCTG
** * * *
53971042 ATTCTGATTCCAATTCTGTCACCTGATTCTA
1 ATTCTGATTCTGATTCTATTACCTGATTCTG
53971073 ATTCTGATTCT
1 ATTCTGATTCT
53971084 CATTTTGATT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
29 1 0.02
30 3 0.05
31 49 0.83
32 3 0.05
33 3 0.05
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATTACCTGATTCTG
Found at i:53971043 original size:37 final size:37
Alignment explanation
Indices: 53971002--53971095 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
53970992 ATTCTATTAC
*
53971002 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
** *
53971039 CTGATTCTGATTCCAATTCTGTCACCTGATTCTAATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
* *
53971076 CTGATTCTCATTTTGATTCT
1 CTGATTCTGATTCTGATTCT
53971096 AGTTCTAGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTAATT
Found at i:53971047 original size:25 final size:25
Alignment explanation
Indices: 53970980--53971047 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
53970970 TTGCATTCAC
* * *
53970980 ATTCTGATTCTGATTCTATTACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
53971005 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
53971030 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
53971048 ATTCCAATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:53977329 original size:40 final size:40
Alignment explanation
Indices: 53977246--53977391 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
53977236 TTGAACGATG
* * * *
53977246 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
53977286 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53977326 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
53977367 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53977392 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53977398 original size:80 final size:80
Alignment explanation
Indices: 53977246--53977424 Score: 188
Period size: 80 Copynumber: 2.2 Consensus size: 80
53977236 TTGAACGATG
* *
53977246 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
53977311 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
53977326 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCAGG-CTATG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACC-GGACTAAGAT-CCGAAGGCA
*
53977388 TTTGAACGAGTAGCTATA
63 TTTGAACGAGTAGCTAAA
* *
53977406 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
53977425 TACGTGATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
79 17 0.20
80 58 0.69
81 9 0.11
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:53978600 original size:25 final size:26
Alignment explanation
Indices: 53978572--53978620 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
53978562 ATTTTATATA
53978572 TTTTTATAT-TTATATATTA-ATATTC
1 TTTTTATATATTAT-TATTATATATTC
53978597 TTTTTATATATTATTATTATATAT
1 TTTTTATATATTATTATTATATAT
53978621 ATATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTTATATATTATTATTATATATTC
Found at i:53978608 original size:35 final size:35
Alignment explanation
Indices: 53978563--53978636 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
53978553 ATTCTAAATA
* *
53978563 TTTTATATATTTTTA-TATTTATATATTAATATTCT
1 TTTTATATATTATTATTATATATATATTAAT-TTCT
*
53978598 TTTTATATATTATTATTATATATATATTTATTTCT
1 TTTTATATATTATTATTATATATATATTAATTTCT
53978633 TTTT
1 TTTT
53978637 TTTGTATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (35 bp):
TTTTATATATTATTATTATATATATATTAATTTCT
Found at i:53979028 original size:21 final size:21
Alignment explanation
Indices: 53978998--53979086 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
53978988 CTCACAAAGA
* *
53978998 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
53979018 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
53979039 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
53979060 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
53979084 AAA
1 AAA
53979087 TCTTTTCTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:53979079 original size:24 final size:21
Alignment explanation
Indices: 53978998--53979066 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
53978988 CTCACAAAGA
* * *
53978998 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
53979018 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
53979039 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
53979060 AAAAAGA
1 AAAAAGA
53979067 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:53986232 original size:80 final size:80
Alignment explanation
Indices: 53986080--53986258 Score: 188
Period size: 80 Copynumber: 2.2 Consensus size: 80
53986070 TTGAACGATG
*
53986080 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
**
53986145 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
53986160 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAT-CGGGCTATG-TCTCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCGGACTAAGATC-CGAAGGCA
*
53986222 TTTGAACGAGTAGCTATA
63 TTTGAACGAGTAGCTAAA
* *
53986240 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
53986259 TACGTGATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
79 18 0.21
80 57 0.68
81 9 0.11
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:53986239 original size:40 final size:41
Alignment explanation
Indices: 53986080--53986225 Score: 176
Period size: 40 Copynumber: 3.6 Consensus size: 41
53986070 TTGAACGATG
* * *
53986080 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
53986120 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53986160 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
53986201 T-CGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53986226 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 80 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:53990246 original size:21 final size:20
Alignment explanation
Indices: 53990211--53990253 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
53990201 ATACATGAGT
*
53990211 ATTATGATGTTTGATGATAG
1 ATTATGATATTTGATGATAG
*
53990231 ATTATGAATATTTGATGTTAG
1 ATTATG-ATATTTGATGATAG
53990252 AT
1 AT
53990254 AAACAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (20 bp):
ATTATGATATTTGATGATAG
Found at i:53991057 original size:27 final size:27
Alignment explanation
Indices: 53991026--53991080 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
53991016 TTATAATAAG
*
53991026 TTGAGAACTTATGGGTTATGATATAGA
1 TTGAGAACCTATGGGTTATGATATAGA
53991053 TTGAGAACCTATGGGTTATGATATAGA
1 TTGAGAACCTATGGGTTATGATATAGA
53991080 T
1 T
53991081 AAACTTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (27 bp):
TTGAGAACCTATGGGTTATGATATAGA
Found at i:53993270 original size:28 final size:27
Alignment explanation
Indices: 53993192--53993273 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
53993182 GTCACCGGAT
*
53993192 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
* ** *
53993220 ATAGAT-ATACGTGGCAGGGCCACCAGA
1 ACAGATAATTTGTGGCA-TGCCACCAGA
53993247 ACAGATAATTTGTGGCATAGCCACCAG
1 ACAGATAATTTGTGGCAT-GCCACCAG
53993274 GACGCTTCCT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
27 22 0.51
28 21 0.49
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGATAATTTGTGGCATGCCACCAGA
Found at i:53993426 original size:28 final size:28
Alignment explanation
Indices: 53993379--53993443 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
53993369 AAATTAACCC
*
53993379 TAAGGGTATAAAGGTCATTTTGCACACA
1 TAAGGGTATAAAGGTAATTTTGCACACA
* *
53993407 TAAGGGTATAATGGTAATTTTGCATACA
1 TAAGGGTATAAAGGTAATTTTGCACACA
*
53993435 TAGGGGTAT
1 TAAGGGTAT
53993444 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (28 bp):
TAAGGGTATAAAGGTAATTTTGCACACA
Found at i:53994492 original size:12 final size:13
Alignment explanation
Indices: 53994473--53994505 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
53994463 GGGTTCGGCT
53994473 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
53994486 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
53994498 ATGGAGAA
1 ATGGAGAA
53994506 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:53998721 original size:42 final size:42
Alignment explanation
Indices: 53998660--53998773 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
53998650 TTTGAATTTA
* *
53998660 CATGTAAGACTATATCTGGGATATGGCATCGATATAAGA-CTT
1 CATGTAAGACCATATCTGGGATATGGCATCGATATAAGATC-C
* * * *
53998702 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCC
1 CATGTAAGACCATATCTGGGATA-TGGCATCGATATAAGATCC
* *
53998745 CATGTAAGACCGTATCTAGGATATGGCAT
1 CATGTAAGACCATATCTGGGATATGGCAT
53998774 TGGTATGGTG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 25 0.42
43 33 0.56
44 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATCGATATAAGATCC
Found at i:53999687 original size:45 final size:45
Alignment explanation
Indices: 53999629--53999719 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
53999619 CGGGTGTGTG
* * *
53999629 TCTAGGTCGTGTTTGACATACGGCTTGCCCCATGGGCGTGTGATC
1 TCTAGGCCATGTTTGACATACGGCTTGCCCCATGGCCGTGTGATC
53999674 TCTAGGCCATGTTTGACATACGGCTTGCCCCATGGCCGTGTGATC
1 TCTAGGCCATGTTTGACATACGGCTTGCCCCATGGCCGTGTGATC
53999719 T
1 T
53999720 AGCCATGTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.14, C:0.26, G:0.29, T:0.31
Consensus pattern (45 bp):
TCTAGGCCATGTTTGACATACGGCTTGCCCCATGGCCGTGTGATC
Found at i:54007294 original size:47 final size:47
Alignment explanation
Indices: 54007240--54007358 Score: 220
Period size: 47 Copynumber: 2.5 Consensus size: 47
54007230 TCCATAAGTG
*
54007240 AACTCGGACTCAACTCAACGATTTCGGATGCCTAGTTACATTTCACA
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACA
*
54007287 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACA
54007334 AACTCGGACTCAACTCAACGAGTTC
1 AACTCGGACTCAACTCAACGAGTTC
54007359 AGACATTCGC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACA
Found at i:54011227 original size:365 final size:365
Alignment explanation
Indices: 54010550--54011644 Score: 2109
Period size: 365 Copynumber: 3.0 Consensus size: 365
54010540 GAGATGAAAT
*
54010550 GTGCTGATTTTGTTAATCGATCAACGACAACTCAAATAGCATCTTTTTTTTTCAGAGACAAAGGC
1 GTGCTGATTTTGTTAATCGATCAACGACAACTCAAATAGCATCTTTCTTTTTCAGAGACAAAGGC
54010615 AATCCTGATACGAAATCCATCGTAACTCTATCCCATTTCCACTTTGGTATCATCACAGGCTGTAG
66 AATCCTGATACGAAATCCATCGTAACTCTATCCCATTTCCACTTTGGTATCATCACAGGCTGTAG
*
54010680 CAAACCCAAAGGTACTTGGTGTTCGACTTTTACTTGCTGACAAGTCAAAAACCTCGATACAAATT
131 CAAACCCAAAGGTACTTGGTGTTCGACTTTTACTTGCTGACAAGTCAAACACCTCGATACAAATT
54010745 CAAATGTGTCTCGCTTCATACCCGACCACCAATATAACCGTTTCAAATCATTGTACATTTTATTA
196 CAAATGTGTCTCGCTTCATACCCGACCACCAATATAACCGTTTCAAATCATTGTACATTTTATTA
54010810 CTTCCAAGATGAACGGATAAACGGATAAACAACCACTATGTGCCTCGTGCAAATTTTTTTGAATG
261 CTTCCAAGATGAACGGATAAACGGATAAACAACCACTATGTGCCTCGTGCAAATTTTTTTGAATG
*
54010875 AACTCAGAATTATTTGGTACACATATTCTGTTTCAGAACA
326 AACTCAGAATTATTTGGTACACAGATTCTGTTTCAGAACA
* * *
54010915 GTGCTGGTTTTGTTAATCGATCAACGAAAACTCAAATAGCATCTTTCTTTTTCAGAGACAGAGGC
1 GTGCTGATTTTGTTAATCGATCAACGACAACTCAAATAGCATCTTTCTTTTTCAGAGACAAAGGC
54010980 AATCCTGATACGAAATCCATCGTAACTCTATCCCATTTCCACTTTGGTATCATCACAGGCTGTAG
66 AATCCTGATACGAAATCCATCGTAACTCTATCCCATTTCCACTTTGGTATCATCACAGGCTGTAG
54011045 CAAACCCAAAGGTACTTGGTGTTCGACTTTTACTTGCTGACAAGTCAAACACCTCGATACAAATT
131 CAAACCCAAAGGTACTTGGTGTTCGACTTTTACTTGCTGACAAGTCAAACACCTCGATACAAATT
54011110 CAAATGTGTCTCGCTTCATACCCGACCACCAATATAACCGTTTCAAATCATTGTACATTTTATTA
196 CAAATGTGTCTCGCTTCATACCCGACCACCAATATAACCGTTTCAAATCATTGTACATTTTATTA
*
54011175 CTTCCAAGATGAATGGATAAACGGATAAACAACCACTATGTGCCTCGTGCAAATTTTTTTGAATG
261 CTTCCAAGATGAACGGATAAACGGATAAACAACCACTATGTGCCTCGTGCAAATTTTTTTGAATG
54011240 AACTCAGAATTATTTGGTACACAGATTCTGTTTCAGAACA
326 AACTCAGAATTATTTGGTACACAGATTCTGTTTCAGAACA
54011280 GTGCTGATTTTGTTAATCGATCAACGACAACTCAAATAGCATCTTTCTTTTTCAGAGACAAAGGC
1 GTGCTGATTTTGTTAATCGATCAACGACAACTCAAATAGCATCTTTCTTTTTCAGAGACAAAGGC
54011345 AATCCTGATACGAAATCCATCGTAACTCTATCCCATTTCCACTTTGGTATCATCACAGGCTGTAG
66 AATCCTGATACGAAATCCATCGTAACTCTATCCCATTTCCACTTTGGTATCATCACAGGCTGTAG
*
54011410 CAAACCCAAAGGTACTTGGTGTTCGACTTTTACTTGCTGATAAGTCAAACACCTCGATACAAATT
131 CAAACCCAAAGGTACTTGGTGTTCGACTTTTACTTGCTGACAAGTCAAACACCTCGATACAAATT
54011475 CAAATGTGTCTCGCTTCATACCCGACCACCAATATAACCGTTTCAAATCATTGTACATTTTATTA
196 CAAATGTGTCTCGCTTCATACCCGACCACCAATATAACCGTTTCAAATCATTGTACATTTTATTA
54011540 CTTCCAAGATGAACGGATAAACGGATAAACAACCACTATGTGCCTCGTGCAAATTTTTTTGAATG
261 CTTCCAAGATGAACGGATAAACGGATAAACAACCACTATGTGCCTCGTGCAAATTTTTTTGAATG
*
54011605 AACTCAGAATTATTTGGTACATAGATTCTGTTTCAGAACA
326 AACTCAGAATTATTTGGTACACAGATTCTGTTTCAGAACA
54011645 TTAAACAAGC
Statistics
Matches: 717, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
365 717 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (365 bp):
GTGCTGATTTTGTTAATCGATCAACGACAACTCAAATAGCATCTTTCTTTTTCAGAGACAAAGGC
AATCCTGATACGAAATCCATCGTAACTCTATCCCATTTCCACTTTGGTATCATCACAGGCTGTAG
CAAACCCAAAGGTACTTGGTGTTCGACTTTTACTTGCTGACAAGTCAAACACCTCGATACAAATT
CAAATGTGTCTCGCTTCATACCCGACCACCAATATAACCGTTTCAAATCATTGTACATTTTATTA
CTTCCAAGATGAACGGATAAACGGATAAACAACCACTATGTGCCTCGTGCAAATTTTTTTGAATG
AACTCAGAATTATTTGGTACACAGATTCTGTTTCAGAACA
Found at i:54015842 original size:50 final size:49
Alignment explanation
Indices: 54015721--54015909 Score: 211
Period size: 50 Copynumber: 3.8 Consensus size: 49
54015711 TGAGGTCGCA
* * * *
54015721 TGTGTAGTACTAAGTGCAGGCTACTATG-CGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTC-TACCAGATAA-T-TGGTCACG
* * **
54015772 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATT-GGTCACG
* *
54015822 TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATTGGTCACG
* *
54015871 TGTGTAGTACTATGTGCAGGCTACTATG-CGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTC-TACCAGATA
54015910 GCTTTGGCTA
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 41 0.34
50 45 0.38
51 32 0.27
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATTGGTCACG
Found at i:54018938 original size:15 final size:15
Alignment explanation
Indices: 54018918--54018969 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
54018908 CTTGGGTTTC
54018918 TTTATTCTGGATTTT
1 TTTATTCTGGATTTT
* *
54018933 TTTATTCCGGGTTTT
1 TTTATTCTGGATTTT
* *
54018948 TCTA-TCTTGGATTTC
1 TTTATTC-TGGATTTT
54018963 TTTATTC
1 TTTATTC
54018970 GGTTTTCTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.12, C:0.13, G:0.13, T:0.62
Consensus pattern (15 bp):
TTTATTCTGGATTTT
Found at i:54021228 original size:49 final size:49
Alignment explanation
Indices: 54021112--54021299 Score: 193
Period size: 49 Copynumber: 3.8 Consensus size: 49
54021102 TGAGGTCGCA
* * * *
54021112 TGTGTAGTACTAAGTGCAGGCTACTATG-CGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTC-TACCAGATAA-T-TGGTCACG
* * **
54021163 TGTGTAGTACTAAGTGCAGGCT-CTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATT-GGTCACG
* * *
54021212 TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATTGGTCACG
* *
54021261 TGTGTAGTACTATGTGCAGGCTACTATG-CGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTC-TACCAGATA
54021300 GCTTTGGCTA
Statistics
Matches: 115, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.02
49 68 0.59
50 23 0.20
51 22 0.19
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATAATTGGTCACG
Found at i:54023684 original size:47 final size:47
Alignment explanation
Indices: 54023605--54023701 Score: 160
Period size: 47 Copynumber: 2.1 Consensus size: 47
54023595 CCTAGCCTCT
*
54023605 TTTAGTAACTGGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
*
54023652 TTTAATAACTGGGGCATAAGCCC-TTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
54023699 TTT
1 TTT
54023702 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
Found at i:54023703 original size:24 final size:24
Alignment explanation
Indices: 54023598--54023702 Score: 160
Period size: 24 Copynumber: 4.4 Consensus size: 24
54023588 ATGGAGGCCT
*
54023598 AGCCTCTTTTAGTAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
54023622 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
54023647 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
54023670 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
54023694 AGCCCTTTT
1 AGCCCTTTT
54023703 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
23 24 0.32
24 46 0.61
25 6 0.08
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:54023774 original size:9 final size:9
Alignment explanation
Indices: 54023760--54023816 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
54023750 ATCTCATGTG
54023760 CATATCATA
1 CATATCATA
*
54023769 CATATCATGTG
1 CATATCA--TA
54023780 CATATCATA
1 CATATCATA
* *
54023789 CATGTCATGTG
1 CATATCA--TA
54023800 CATATCATA
1 CATATCATA
54023809 CATATCAT
1 CATATCAT
54023817 GTTTATCAAA
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:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:54023776 original size:20 final size:20
Alignment explanation
Indices: 54023748--54023818 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
54023738 GCATTTATGA
*
54023748 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
54023768 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
54023788 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
54023808 ACATATCATGT
1 ACATATCATGT
54023819 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:54023783 original size:11 final size:11
Alignment explanation
Indices: 54023753--54023807 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
54023743 TATGAACATC
54023753 TCATGTGCATA
1 TCATGTGCATA
*
54023764 TCA--TACATA
1 TCATGTGCATA
54023773 TCATGTGCATA
1 TCATGTGCATA
* *
54023784 TCA--TACATG
1 TCATGTGCATA
54023793 TCATGTGCATA
1 TCATGTGCATA
54023804 TCAT
1 TCAT
54023808 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:54027703 original size:38 final size:42
Alignment explanation
Indices: 54027651--54027980 Score: 264
Period size: 49 Copynumber: 7.0 Consensus size: 42
54027641 ATATACACTT
54027651 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
*
54027695 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
54027742 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCAC--ATATATA-A
* *
54027791 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCAC--ATATATA-A
* *
54027840 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA-A
54027887 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCAC--ATATATA-A
* *
54027936 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
1 ---TCACATT-ATCACATCGGCCATTAGGCCTTATCACATATATA
54027981 TACACTTTCA
Statistics
Matches: 271, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
47 132 0.49
49 139 0.51
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (42 bp):
TCACATTATCACATCGGCCATTAGGCCTTATCACATATATAA
Found at i:54027805 original size:49 final size:49
Alignment explanation
Indices: 54027584--54027994 Score: 626
Period size: 47 Copynumber: 8.6 Consensus size: 49
54027574 CCCTTCGGGA
* * * * *
54027584 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54027631 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54027678 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54027725 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54027772 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54027821 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54027870 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54027917 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54027966 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
54027995 TATTCAAATA
Statistics
Matches: 341, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 180 0.53
49 160 0.47
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54027891 original size:145 final size:145
Alignment explanation
Indices: 54027584--54027994 Score: 677
Period size: 145 Copynumber: 2.9 Consensus size: 145
54027574 CCCTTCGGGA
* * * * * * * *
54027584 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
54027647 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
*
54027710 CATCGGCTATTAGGC
131 CATCGGCCATTAGGC
54027725 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
54027790 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
* *
54027855 CATTGGCCATTCGGC
131 CATCGGCCATTAGGC
54027870 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
54027935 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATT
54027995 TATTCAAATA
Statistics
Matches: 253, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
141 47 0.19
143 45 0.18
145 161 0.64
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:54027944 original size:40 final size:42
Alignment explanation
Indices: 54027899--54027993 Score: 104
Period size: 49 Copynumber: 2.1 Consensus size: 42
54027889 TTCACATTCA
54027899 TCACAT-C-GGCCATTAGGCCTTATCACATATATATACACTT
1 TCACATACTGGCCATTAGGCCTTATCACATATATATACACTT
*
54027939 TCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTT
1 T--CA--CAT-AC--TGGCCATTAGGCCTTATCACATATATATACACTT
54027988 TCACAT
1 TCACAT
54027994 TTATTCAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
40 1 0.02
42 2 0.04
44 3 0.07
45 3 0.07
46 1 0.02
47 2 0.04
49 33 0.73
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (42 bp):
TCACATACTGGCCATTAGGCCTTATCACATATATATACACTT
Found at i:54036040 original size:47 final size:47
Alignment explanation
Indices: 54035961--54036057 Score: 160
Period size: 47 Copynumber: 2.1 Consensus size: 47
54035951 CCTAGCCTCT
*
54035961 TTTAGTAACTGGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
*
54036008 TTTAATAACTGGGGCATAAGCCC-TTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
54036055 TTT
1 TTT
54036058 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAGCCCTTTTTAATAACTGGGGCATAAGCCC
Found at i:54036059 original size:24 final size:24
Alignment explanation
Indices: 54035954--54036058 Score: 160
Period size: 24 Copynumber: 4.4 Consensus size: 24
54035944 ATGGAGGCCT
*
54035954 AGCCTCTTTTAGTAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
54035978 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
54036003 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
54036026 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
54036050 AGCCCTTTT
1 AGCCCTTTT
54036059 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
23 24 0.32
24 46 0.61
25 6 0.08
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:54036130 original size:9 final size:9
Alignment explanation
Indices: 54036116--54036172 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
54036106 ATCTCATGTG
54036116 CATATCATA
1 CATATCATA
*
54036125 CATATCATGTG
1 CATATCA--TA
54036136 CATATCATA
1 CATATCATA
* *
54036145 CATGTCATGTG
1 CATATCA--TA
54036156 CATATCATA
1 CATATCATA
54036165 CATATCAT
1 CATATCAT
54036173 GTTTATCAAA
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:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:54036132 original size:20 final size:20
Alignment explanation
Indices: 54036104--54036174 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
54036094 GCATTTATGA
*
54036104 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
54036124 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
54036144 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
54036164 ACATATCATGT
1 ACATATCATGT
54036175 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Done.