Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 35 of 218
Found at i:11008525 original size:25 final size:25
Alignment explanation
Indices: 11008370--11008529 Score: 128
Period size: 25 Copynumber: 6.5 Consensus size: 25
11008360 GCTCAATCGA
* *
11008370 AACGGGAAGCTCTTCCGAGCCATAT
1 AACGGGAAGCTCATACGAGCCATAT
** *
11008395 AACGGGAAGCTCATGTGAGCCATGT
1 AACGGGAAGCTCATACGAGCCATAT
* *
11008420 AACGGGAAGCTCATAAGAGCCCTAT
1 AACGGGAAGCTCATACGAGCCATAT
* *
11008445 -ACGGGAAGCTCATGCGAGCTA-AT
1 AACGGGAAGCTCATACGAGCCATAT
* ** *
11008468 ATCGGGAAGCTCCGAAGAGCCAT-T
1 AACGGGAAGCTCATACGAGCCATAT
** *
11008492 AATTAGGAAGCTCGTACGAGCCATAT
1 AA-CGGGAAGCTCATACGAGCCATAT
**
11008518 GTCGGGAAGCTC
1 AACGGGAAGCTC
11008530 CGGAGGGCCA
Statistics
Matches: 103, Mismatches: 28, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
23 2 0.02
24 34 0.33
25 66 0.64
26 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (25 bp):
AACGGGAAGCTCATACGAGCCATAT
Found at i:11008549 original size:25 final size:25
Alignment explanation
Indices: 11008386--11008554 Score: 89
Period size: 25 Copynumber: 6.8 Consensus size: 25
11008376 AAGCTCTTCC
* * *
11008386 GAGCCATATAACGGGAAGCTCATG-T
1 GAGCCATATATCGGGAAGCTC-CGAA
* * **
11008411 GAGCCATGTAACGGGAAGCTCATAA
1 GAGCCATATATCGGGAAGCTCCGAA
* * *
11008436 GAGCCCTATA-CGGGAAGCTCATG-C
1 GAGCCATATATCGGGAAGCTC-CGAA
*
11008460 GAGCTA-ATATCGGGAAGCTCCGAA
1 GAGCCATATATCGGGAAGCTCCGAA
** *
11008484 GAGCCAT-TAATTAGGAAGCT-CGTAC
1 GAGCCATAT-ATCGGGAAGCTCCG-AA
* *
11008509 GAGCCATATGTCGGGAAGCTCCGGA
1 GAGCCATATATCGGGAAGCTCCGAA
* * *
11008534 GGGCCATATATTGGGACGCTC
1 GAGCCATATATCGGGAAGCTC
11008555 ATAAGAGTTG
Statistics
Matches: 109, Mismatches: 26, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
23 4 0.04
24 32 0.29
25 70 0.64
26 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (25 bp):
GAGCCATATATCGGGAAGCTCCGAA
Found at i:11008666 original size:25 final size:24
Alignment explanation
Indices: 11008629--11008697 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
11008619 TATGTATCGG
**
11008629 GAAGCTCCGGAGAGCCAAATATCAA
1 GAAGCTCAAGAGAGCC-AATATCAA
* *
11008654 GAAGCTCAAGAGAGTCAATATCGA
1 GAAGCTCAAGAGAGCCAATATCAA
* * *
11008678 CAGGCTCAAGAGAGCTAATA
1 GAAGCTCAAGAGAGCCAATA
11008698 ACGGGATTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (24 bp):
GAAGCTCAAGAGAGCCAATATCAA
Found at i:11014859 original size:25 final size:26
Alignment explanation
Indices: 11014814--11014888 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 26
11014804 GAATGCTCAA
* * *
11014814 TCGAGCACATA-AACAGAAAGCTC-TT
1 TCGAGC-CATATAACGGGAAGCTCATG
11014839 TCGAGCCATATAACGGGAAGCTCATG
1 TCGAGCCATATAACGGGAAGCTCATG
*
11014865 T-GAGCCATGTAACGGGAAGCTCAT
1 TCGAGCCATATAACGGGAAGCTCAT
11014889 AAGAGCCCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.09
25 38 0.86
26 2 0.05
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
TCGAGCCATATAACGGGAAGCTCATG
Found at i:11014894 original size:25 final size:25
Alignment explanation
Indices: 11014841--11014992 Score: 87
Period size: 25 Copynumber: 6.1 Consensus size: 25
11014831 AAGCTCTTTC
**
11014841 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATAA
*
11014866 GAGCCATGTAACGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
* * *
11014891 GAGCCCTAT-TCGAGAAGCTC-TAAA
1 GAGCCATATAACGGGAAGCTCAT-AA
* * ** * **
11014915 GAGTCGT-TAATCAAGAAGCTCGTGC
1 GAGCCATATAA-CGGGAAGCTCATAA
* * *
11014940 GAGCCGTATATCGGGAAGCTC-TGGA
1 GAGCCATATAACGGGAAGCTCAT-AA
* *
11014965 GAGCCATATATCGGGATGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
11014990 GAG
1 GAG
11014993 TTGTAGTGTA
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
23 2 0.02
24 17 0.17
25 76 0.77
26 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:11015122 original size:24 final size:23
Alignment explanation
Indices: 11015072--11015127 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
11015062 AGCTCCGGAT
*
11015072 AGCCAAATATCAGGAAGCTCAAGG
1 AGCC-AATATCAGGAAGCTCAAAG
* *
11015096 AGCCAATATCGGGATGCTCATAAG
1 AGCCAATATCAGGAAGCTCA-AAG
*
11015120 AGCTAATA
1 AGCCAATA
11015128 ATGGGACTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (23 bp):
AGCCAATATCAGGAAGCTCAAAG
Found at i:11015387 original size:21 final size:21
Alignment explanation
Indices: 11015363--11015402 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11015353 AATTTAAGAC
* *
11015363 CAATTTAATACAATTCATACT
1 CAATTCAATACAATACATACT
*
11015384 CAATTCAATCCAATACATA
1 CAATTCAATACAATACATA
11015403 TCTTTTTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (21 bp):
CAATTCAATACAATACATACT
Found at i:11029422 original size:23 final size:21
Alignment explanation
Indices: 11029375--11029424 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
11029365 GAAGGAAAAG
*
11029375 AAGAAAAAAAGAGGGGAGAGG
1 AAGAAAAAAAGAGGGGAGAGA
11029396 AAGAAAAAAA-AGGAAGGAGGAGA
1 AAGAAAAAAAGAGG--GGA-GAGA
11029419 AAGAAA
1 AAGAAA
11029425 TAATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 10 0.40
22 3 0.12
23 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAGAGGGGAGAGA
Found at i:11029429 original size:3 final size:3
Alignment explanation
Indices: 11029423--11029453 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
11029413 AGGAGAAAGA
11029423 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11029454 GGAGAGCGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11035257 original size:19 final size:20
Alignment explanation
Indices: 11035233--11035274 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
11035223 TATTTTAAAG
11035233 TTATTTAGGTAGATAAA-TC
1 TTATTTAGGTAGATAAATTC
11035252 TTATTTAGGTAGATAAATTC
1 TTATTTAGGTAGATAAATTC
11035272 TTA
1 TTA
11035275 GAAGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (20 bp):
TTATTTAGGTAGATAAATTC
Found at i:11035361 original size:41 final size:41
Alignment explanation
Indices: 11035316--11035393 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
11035306 TTTATTTTAT
11035316 CTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCCTTAC
1 CTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCCTTAC
11035357 CTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 CTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
11035394 CAATTAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.46
Consensus pattern (41 bp):
CTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCCTTAC
Found at i:11035871 original size:32 final size:32
Alignment explanation
Indices: 11035830--11035899 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
11035820 AGAGCTAGTG
11035830 ATCACATAACTAGTAGTTATTTTTTTCAACTT
1 ATCACATAACTAGTAGTTATTTTTTTCAACTT
11035862 ATCACATAACTAGTAGTTATTTTTTTCAACTT
1 ATCACATAACTAGTAGTTATTTTTTTCAACTT
11035894 ACTCAC
1 A-TCAC
11035900 CTTGTGCAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (32 bp):
ATCACATAACTAGTAGTTATTTTTTTCAACTT
Found at i:11036568 original size:170 final size:169
Alignment explanation
Indices: 11036286--11036624 Score: 597
Period size: 170 Copynumber: 2.0 Consensus size: 169
11036276 TTAAGATATT
11036286 TGTTACCCGATCTATTTAAAAATAAAAGTCATTCTTCATATCACTGTGAATTTTGTGAATTGGCT
1 TGTTACCCGATCTATTTAAAAATAAAAGTCATTCTTCATATCACTGTGAATTTTGTGAATTGGCT
11036351 AAACATCATCGGTCATTCTTCTCACCTCAAAAATATAAAGCTTCTAAACTTTTTTTCATTAATTC
66 AAACATCATCGGTCATTCTTCTCACCTCAAAAATATAAAGCTTCTAAAC-TTTTTTCATTAATTC
11036416 ATAGTGATGTTTGGGGACCTTCGAGAGTCTCAACTTTTTC
130 ATAGTGATGTTTGGGGACCTTCGAGAGTCTCAACTTTTTC
* * * * *
11036456 TGTTACCTGATTTGTTTAAAAATAAAAGTCCTTCTTCATATCACTGTGAATTTTGTGACTTGGCT
1 TGTTACCCGATCTATTTAAAAATAAAAGTCATTCTTCATATCACTGTGAATTTTGTGAATTGGCT
* * *
11036521 AAACATTATCGGTCATTTTTCTCACCTCAAAAATATAGAGCTTCTAAACTTTTTTCATTAATTCA
66 AAACATCATCGGTCATTCTTCTCACCTCAAAAATATAAAGCTTCTAAACTTTTTTCATTAATTCA
11036586 TAGTGATGTTTGGGGACCTTCGAGAGTCTCAACTTTTTC
131 TAGTGATGTTTGGGGACCTTCGAGAGTCTCAACTTTTTC
11036625 AGAAAAACGT
Statistics
Matches: 161, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
169 55 0.34
170 106 0.66
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (169 bp):
TGTTACCCGATCTATTTAAAAATAAAAGTCATTCTTCATATCACTGTGAATTTTGTGAATTGGCT
AAACATCATCGGTCATTCTTCTCACCTCAAAAATATAAAGCTTCTAAACTTTTTTCATTAATTCA
TAGTGATGTTTGGGGACCTTCGAGAGTCTCAACTTTTTC
Found at i:11039309 original size:19 final size:19
Alignment explanation
Indices: 11039285--11039325 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
11039275 TATTTTAAAG
11039285 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
*
11039304 TTATTTAGGTATATAAATC
1 TTATTTAGGTAGATAAATC
11039323 TTA
1 TTA
11039326 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:11039410 original size:41 final size:41
Alignment explanation
Indices: 11039363--11039441 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
11039353 ATATTTTATT
* *
11039363 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTTCC
11039404 TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTT
1 TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTT
11039442 CTCAATTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTTCC
Found at i:11044023 original size:14 final size:14
Alignment explanation
Indices: 11044004--11044036 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11043994 TCAAAAAATA
11044004 TTATATTTTTTAAT
1 TTATATTTTTTAAT
11044018 TTATA-TTTTTAAT
1 TTATATTTTTTAAT
*
11044031 TAATAT
1 TTATAT
11044037 ATATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATATTTTTTAAT
Found at i:11046271 original size:85 final size:85
Alignment explanation
Indices: 11046128--11046296 Score: 338
Period size: 85 Copynumber: 2.0 Consensus size: 85
11046118 ACGTGAATTA
11046128 AATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAACA
1 AATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAACA
11046193 ATGTAATTGAAATTCAATAT
66 ATGTAATTGAAATTCAATAT
11046213 AATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAACA
1 AATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAACA
11046278 ATGTAATTGAAATTCAATA
66 ATGTAATTGAAATTCAATA
11046297 AGGCTATTTC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (85 bp):
AATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAACA
ATGTAATTGAAATTCAATAT
Found at i:11053633 original size:39 final size:39
Alignment explanation
Indices: 11053559--11053635 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
11053549 AAAATGTATC
* **
11053559 ATTATTTTAAAATATTTAAAAAATAATTATCATTTTTAT
1 ATTATATTAAAATATTTAAAAAATAATTAGAATTTTTAT
* *
11053598 ATTATATT-AAATATTTAATTAAATTATTAGAATTTTTA
1 ATTATATTAAAATATTTAA-AAAATAATTAGAATTTTTA
11053636 AAATTTGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 10 0.31
39 22 0.69
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (39 bp):
ATTATATTAAAATATTTAAAAAATAATTAGAATTTTTAT
Found at i:11053864 original size:30 final size:30
Alignment explanation
Indices: 11053799--11053861 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
11053789 AATTACTTAA
11053799 TTTAT-ATTTTATGATTAATTTAAAATAAT
1 TTTATAATTTTATGATTAATTTAAAATAAT
11053828 TTTATAATTTTAT-ATT-ATCTT-AAATAAT
1 TTTATAATTTTATGATTAAT-TTAAAATAAT
*
11053856 ATTATA
1 TTTATA
11053862 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 14 0.45
29 10 0.32
30 7 0.23
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTATAATTTTATGATTAATTTAAAATAAT
Found at i:11054385 original size:30 final size:31
Alignment explanation
Indices: 11054333--11054391 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
11054323 ATTAAATTAC
* *
11054333 GTTTTGTAATTAAAATTTATTAAATTTTAGG
1 GTTTTGTAATTAAAATTAATTAAAATTTAGG
11054364 GTTTTGTAATT-AAATTAATTAAAATTTA
1 GTTTTGTAATTAAAATTAATTAAAATTTA
11054392 TTCAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (31 bp):
GTTTTGTAATTAAAATTAATTAAAATTTAGG
Found at i:11054740 original size:125 final size:125
Alignment explanation
Indices: 11054444--11054881 Score: 628
Period size: 125 Copynumber: 3.5 Consensus size: 125
11054434 AAAATCAAAG
* * * * * * * *
11054444 CAGGATGATTTATCAGAAGGATTTTTGCAGTCGCGCCCAT-GTGTACGCGCTTTTGCTACAGTAG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCC-TCGTGGACGCGCTTTTGCTACAGTTG
* * * *
11054508 GTCTTGAAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCAAG
65 GTCCTGAAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT--AAAATCGCTTCTAC
* * * *
11054570 CAGGATGCTATATGCGAAGAATTTGTGAAATTGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
*
11054635 TCCTGAAAGAAATAATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
66 TCCTGAAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
11054695 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
* * * *
11054760 TCCTGGAAGAAATTATTTCAAGTTAACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
66 TCCTGAAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
* *
11054820 CAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
11054882 AGCATGTTTG
Statistics
Matches: 282, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
125 188 0.67
126 58 0.21
127 36 0.13
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (125 bp):
CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
TCCTGAAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
Found at i:11058098 original size:21 final size:21
Alignment explanation
Indices: 11058081--11058300 Score: 64
Period size: 21 Copynumber: 10.3 Consensus size: 21
11058071 GGTTTTAAAT
11058081 TTAAGGTTTTAGGGTTTAGAAG
1 TTAAGG-TTTAGGGTTTAGAAG
* *
11058103 TTAAGGATTAGGGTCTATGATTTTTAAG
1 TTAAGGTTTAGGGT-T-T-A----GAAG
* *
11058131 TTAAGGGTTAGGGTTT-TAAG
1 TTAAGGTTTAGGGTTTAGAAG
* * **
11058151 TTTAGGGTTATGGGTTTTTAAG
1 TTAAGGTTTA-GGGTTTAGAAG
*
11058173 TTTAAGGTTTAAGGTTTTAG--G
1 -TTAAGGTTT-AGGGTTTAGAAG
* *
11058194 TTTAGGGTTTATGGTTTTA-AAG
1 -TTAAGGTTTA-GGGTTTAGAAG
11058216 TTCAAGGTTTAGGGTTT-----
1 TT-AAGGTTTAGGGTTTAGAAG
**
11058233 TT-AGGTTTAGGGTTTTTAAG
1 TTAAGGTTTAGGGTTTAGAAG
* ** *
11058253 TTAAGGGTTAGGGTTTTTAAT
1 TTAAGGTTTAGGGTTTAGAAG
* **
11058274 TTAAGGGTTAGGGTTTCTAAG
1 TTAAGGTTTAGGGTTTAGAAG
11058295 TTAAGG
1 TTAAGG
11058301 GTTAAGATTA
Statistics
Matches: 161, Mismatches: 16, Indels: 43
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.08
17 2 0.01
20 16 0.10
21 78 0.48
22 19 0.12
23 13 0.08
24 2 0.01
26 1 0.01
27 1 0.01
28 16 0.10
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (21 bp):
TTAAGGTTTAGGGTTTAGAAG
Found at i:11058150 original size:43 final size:42
Alignment explanation
Indices: 11058103--11058300 Score: 182
Period size: 43 Copynumber: 4.8 Consensus size: 42
11058093 GGTTTAGAAG
* * *
11058103 TTAAGGATTAGGGTCTATGATTTTTAAGTTAAGGGTTAGGGTT
1 TTAAGGTTTAGGGT-TATGGTTTTTAAGTTAAGGTTTAGGGTT
*
11058146 TTAA-GTTTAGGGTTATGGGTTTTTAAGTTTAAGGTTTAAGGTT
1 TTAAGGTTTAGGGTTAT-GGTTTTTAAG-TTAAGGTTTAGGGTT
*
11058189 TT-AGGTTTAGGGTTTATGGTTTTAAAGTTCAAGGTTTAGGGTT
1 TTAAGGTTTAGGG-TTATGGTTTTTAAGTT-AAGGTTTAGGGTT
* *
11058232 TTTAGGTTTA--G----GGTTTTTAAGTTAAGGGTTAGGGTTT
1 TTAAGGTTTAGGGTTATGGTTTTTAAGTTAAGGTTTAGGG-TT
* *
11058269 TTAA--TTTAAGGGTTAGGGTTTCTAAGTTAAGG
1 TTAAGGTTT-AGGGTTATGGTTTTTAAGTTAAGG
11058301 GTTAAGATTA
Statistics
Matches: 131, Mismatches: 10, Indels: 29
0.77 0.06 0.17
Matches are distributed among these distances:
35 3 0.02
36 11 0.08
37 16 0.12
38 1 0.01
41 3 0.02
42 36 0.27
43 50 0.38
44 11 0.08
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (42 bp):
TTAAGGTTTAGGGTTATGGTTTTTAAGTTAAGGTTTAGGGTT
Found at i:11058182 original size:7 final size:7
Alignment explanation
Indices: 11058167--11058247 Score: 65
Period size: 7 Copynumber: 11.4 Consensus size: 7
11058157 GTTATGGGTT
11058167 TTTAA-G
1 TTTAAGG
11058173 TTTAAGG
1 TTTAAGG
11058180 TTTAAGG
1 TTTAAGG
*
11058187 TTTTAGG
1 TTTAAGG
*
11058194 TTTAGGG
1 TTTAAGG
*
11058201 TTTATGG
1 TTTAAGG
*
11058208 TTTTAAAG
1 -TTTAAGG
*
11058216 TTCAAGG
1 TTTAAGG
*
11058223 TTTAGGG
1 TTTAAGG
*
11058230 TTTTTAGG
1 -TTTAAGG
*
11058238 TTTAGGG
1 TTTAAGG
11058245 TTT
1 TTT
11058248 TTAAGTTAAG
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
6 5 0.09
7 43 0.74
8 10 0.17
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.49
Consensus pattern (7 bp):
TTTAAGG
Found at i:11058212 original size:29 final size:28
Alignment explanation
Indices: 11058172--11058241 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
11058162 GGGTTTTTAA
* **
11058172 GTTTAAGGTTTAAGGTTTTAGGTTTAGG
1 GTTTAAGGTTTAAAGTTCAAGGTTTAGG
*
11058200 GTTTATGGTTTTAAAGTTCAAGGTTTAGG
1 GTTTAAGG-TTTAAAGTTCAAGGTTTAGG
*
11058229 GTTTTTAGGTTTA
1 G-TTTAAGGTTTA
11058242 GGGTTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 7 0.21
29 22 0.65
30 5 0.15
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (28 bp):
GTTTAAGGTTTAAAGTTCAAGGTTTAGG
Found at i:11058249 original size:15 final size:15
Alignment explanation
Indices: 11058177--11058261 Score: 68
Period size: 15 Copynumber: 5.8 Consensus size: 15
11058167 TTTAAGTTTA
*
11058177 AGGTTTAAGG-TTTT
1 AGGTTTAGGGTTTTT
*
11058191 AGGTTTAGGGTTTAT
1 AGGTTTAGGGTTTTT
** **
11058206 -GGTTTTAAAG-TTCA
1 AGG-TTTAGGGTTTTT
11058220 AGGTTTAGGGTTTTT
1 AGGTTTAGGGTTTTT
11058235 AGGTTTAGGGTTTTT
1 AGGTTTAGGGTTTTT
* *
11058250 AAGTTAAGGGTT
1 AGGTTTAGGGTT
11058262 AGGGTTTTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
14 18 0.33
15 37 0.67
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (15 bp):
AGGTTTAGGGTTTTT
Found at i:11058281 original size:36 final size:37
Alignment explanation
Indices: 11058201--11058282 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 37
11058191 AGGTTTAGGG
* * *
11058201 TTTATGGTTTTAAAGTTCAAGGTTTAGGGTTTTTAGG
1 TTTAGGGTTTTAAAGTTCAAGGGTTAGGGTTTTTAGA
*
11058238 TTTAGGGTTTTTAAGTT-AAGGGTTAGGGTTTTTA-A
1 TTTAGGGTTTTAAAGTTCAAGGGTTAGGGTTTTTAGA
11058273 TTTAAGGGTT
1 TTT-AGGGTT
11058283 AGGGTTTCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 3 0.08
36 22 0.55
37 15 0.38
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (37 bp):
TTTAGGGTTTTAAAGTTCAAGGGTTAGGGTTTTTAGA
Found at i:11058301 original size:21 final size:20
Alignment explanation
Indices: 11058124--11058304 Score: 165
Period size: 21 Copynumber: 8.8 Consensus size: 20
11058114 GGTCTATGAT
11058124 TTTTAAGTTAAGGGTTAGGG
1 TTTTAAGTTAAGGGTTAGGG
*
11058144 TTTTAAGTTTAGGGTTATGGG
1 TTTTAAGTTAAGGGTTA-GGG
* *
11058165 TTTTTAAGTTTAAGGTTTAAGG
1 -TTTTAAG-TTAAGGGTTAGGG
* * *
11058187 TTTTAGGTTTAGGGTTTATGG
1 TTTTAAGTTAAGGG-TTAGGG
*
11058208 TTTTAAAGTTCAAGGTTTAGGG
1 TTTT-AAGTT-AAGGGTTAGGG
*
11058230 -TTT---TT-AGGTTTAGGG
1 TTTTAAGTTAAGGGTTAGGG
11058245 TTTTTAAGTTAAGGGTTAGGG
1 -TTTTAAGTTAAGGGTTAGGG
*
11058266 TTTTTAATTTAAGGGTTAGGG
1 -TTTTAAGTTAAGGGTTAGGG
11058287 TTTCTAAGTTAAGGGTTA
1 TTT-TAAGTTAAGGGTTA
11058305 AGATTAAGGT
Statistics
Matches: 133, Mismatches: 15, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
15 10 0.08
17 5 0.04
20 26 0.20
21 63 0.47
22 18 0.14
23 11 0.08
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (20 bp):
TTTTAAGTTAAGGGTTAGGG
Found at i:11058415 original size:21 final size:20
Alignment explanation
Indices: 11058389--11058485 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 20
11058379 TTTAGGGTTT
11058389 GGGGTTTTAAGTTAAGTATTA
1 GGGGTTTTAAGTTAAG-ATTA
*
11058410 GGGGTTTTAAGTTTAAGGTTTA
1 GGGGTTTTAAG-TTAA-GATTA
* * *
11058432 AGGTTTTTAGGTTAAGAGTTA
1 GGGGTTTTAAGTTAAGA-TTA
* *
11058453 -GGG-TTTAGGTTTAAGGTTA
1 GGGGTTTTAAG-TTAAGATTA
11058472 GGGGTTTTTAAGTT
1 GGGG-TTTTAAGTT
11058486 TAGGGTTAGG
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
19 9 0.15
20 11 0.18
21 20 0.33
22 20 0.33
23 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (20 bp):
GGGGTTTTAAGTTAAGATTA
Found at i:11058461 original size:19 final size:19
Alignment explanation
Indices: 11058437--11058511 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 19
11058427 GTTTAAGGTT
11058437 TTTAGG-TTAAGAGTTAGGG
1 TTTAGGTTTAAG-GTTAGGG
11058456 TTTAGGTTTAAGGTTAGGG
1 TTTAGGTTTAAGGTTAGGG
* *
11058475 GTT---TTTAAGTTTAGGG
1 TTTAGGTTTAAGGTTAGGG
* *
11058491 -TTAGGATTAGGGTTAGGG
1 TTTAGGTTTAAGGTTAGGG
11058509 TTT
1 TTT
11058512 TAAAGTTAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
15 2 0.04
16 12 0.26
18 10 0.22
19 17 0.37
20 5 0.11
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (19 bp):
TTTAGGTTTAAGGTTAGGG
Found at i:11058495 original size:34 final size:34
Alignment explanation
Indices: 11058450--11058529 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
11058440 AGGTTAAGAG
* *
11058450 TTAGGGTTTAGGTTTAAGGTTAGGGGTTTTTAAGT
1 TTAGGGTTTAGGATTAAGGTTA-GGGTTTTAAAGT
*
11058485 TTAGGG-TTAGGATTAGGGTTAGGGTTTTAAAGT
1 TTAGGGTTTAGGATTAAGGTTAGGGTTTTAAAGT
* *
11058518 TAAGGTTTTAGG
1 TTAGGGTTTAGG
11058530 GTTTAGGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 15 0.38
34 18 0.46
35 6 0.15
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (34 bp):
TTAGGGTTTAGGATTAAGGTTAGGGTTTTAAAGT
Found at i:11058524 original size:14 final size:15
Alignment explanation
Indices: 11058507--11058555 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
11058497 TTAGGGTTAG
11058507 GGTTTTAAAG-TTAA
1 GGTTTTAAAGTTTAA
** *
11058521 GGTTTTAGGGTTTAG
1 GGTTTTAAAGTTTAA
*
11058536 GGTTTTTAAGTTTAA
1 GGTTTTAAAGTTTAA
11058551 GGTTT
1 GGTTT
11058556 ATGGTTTTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (15 bp):
GGTTTTAAAGTTTAA
Found at i:11058556 original size:29 final size:29
Alignment explanation
Indices: 11058497--11058555 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
11058487 AGGGTTAGGA
11058497 TTAGGG-TTAGGGTTTTAAAGTTAAGGTT
1 TTAGGGTTTAGGGTTTTAAAGTTAAGGTT
*
11058525 TTAGGGTTTAGGGTTTTTAAGTTTAAGGTT
1 TTAGGGTTTAGGGTTTTAAAG-TTAAGGTT
11058555 T
1 T
11058556 ATGGTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 6 0.21
29 13 0.46
30 9 0.32
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (29 bp):
TTAGGGTTTAGGGTTTTAAAGTTAAGGTT
Found at i:11059789 original size:7 final size:7
Alignment explanation
Indices: 11059777--11059802 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11059767 TTATATATAT
11059777 AATACTA
1 AATACTA
11059784 AATACTA
1 AATACTA
11059791 AATACTA
1 AATACTA
11059798 AATAC
1 AATAC
11059803 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:11061054 original size:23 final size:24
Alignment explanation
Indices: 11061028--11061084 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
11061018 GATTAAATAT
11061028 AAATTTGAGAGAAAT-TTG-GAAGG
1 AAATTTGAGAGAAATATTGAG-AGG
*
11061051 AAA-TTGAGAG-GATATTGAGAGG
1 AAATTTGAGAGAAATATTGAGAGG
11061073 AAATTTGAGAGA
1 AAATTTGAGAGA
11061085 GGATTTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.07
22 16 0.55
23 11 0.38
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.25
Consensus pattern (24 bp):
AAATTTGAGAGAAATATTGAGAGG
Found at i:11061957 original size:30 final size:31
Alignment explanation
Indices: 11061922--11061981 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
11061912 AAACTTTTTA
*
11061922 TTTTCCTCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTCC-CCTAAAACTTTTACTCCCTTCCCAC
*
11061952 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
11061982 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 19 0.73
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:11080272 original size:14 final size:16
Alignment explanation
Indices: 11080246--11080283 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
11080236 CTAAATAGCG
*
11080246 TAATAATTAAAT-ATT
1 TAATAAATAAATAATT
11080261 TAA-AAATAAATAATT
1 TAATAAATAAATAATT
11080276 TAATAAAT
1 TAATAAAT
11080284 TTTCTTACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 9 0.45
16 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAAATAAATAATT
Found at i:11080465 original size:15 final size:15
Alignment explanation
Indices: 11080432--11080469 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
11080422 GAGGATTAAG
*
11080432 GATTAAAAATTTGAA
1 GATTGAAAATTTGAA
11080447 -ATTGAAAATTTGAA
1 GATTGAAAATTTGAA
11080461 GATTGAAAA
1 GATTGAAAA
11080470 GATAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (15 bp):
GATTGAAAATTTGAA
Found at i:11094485 original size:19 final size:19
Alignment explanation
Indices: 11094434--11094485 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
11094424 CTGCCTTCAA
*
11094434 TGTCGTGACACAGCCATGG
1 TGTCGTGACACAACCATGG
*
11094453 -GATGGTACGACACAACCATGG
1 TG-TCGT--GACACAACCATGG
11094474 TGTCGTGACACA
1 TGTCGTGACACA
11094486 CCCTTGAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
18 1 0.04
19 9 0.35
21 15 0.58
22 1 0.04
ACGTcount: A:0.27, C:0.25, G:0.29, T:0.19
Consensus pattern (19 bp):
TGTCGTGACACAACCATGG
Found at i:11095881 original size:20 final size:21
Alignment explanation
Indices: 11095852--11095891 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11095842 TTTCTTAACA
11095852 AAAAAAGTAA-AATAAAAAAT
1 AAAAAAGTAACAATAAAAAAT
*
11095872 AAAAATGTAACAATAAAAAA
1 AAAAAAGTAACAATAAAAAA
11095892 ATCATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAAAAGTAACAATAAAAAAT
Found at i:11114743 original size:31 final size:30
Alignment explanation
Indices: 11114676--11114742 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
11114666 GTTAATTTTA
*
11114676 ATTTTTTAATATTATTTAATATTTTTATTT
1 ATTTTTTAATATTAATTAATATTTTTATTT
*
11114706 CATTTTTGTAAT-TTAATTAATATTTTT-TAT
1 -ATTTTT-TAATATTAATTAATATTTTTATTT
11114736 ATTTTTT
1 ATTTTTT
11114743 TATAACAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 6 0.18
30 2 0.06
31 20 0.61
32 4 0.12
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (30 bp):
ATTTTTTAATATTAATTAATATTTTTATTT
Found at i:11115244 original size:34 final size:34
Alignment explanation
Indices: 11115201--11115265 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
11115191 GCATATGTAC
11115201 AAATTAAACATCAAACGAATCATAATTCATTACT
1 AAATTAAACATCAAACGAATCATAATTCATTACT
11115235 AAATTAAACATCAAACGAATCATAATTCATT
1 AAATTAAACATCAAACGAATCATAATTCATT
11115266 TATACAGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (34 bp):
AAATTAAACATCAAACGAATCATAATTCATTACT
Found at i:11119829 original size:58 final size:59
Alignment explanation
Indices: 11119739--11119864 Score: 191
Period size: 58 Copynumber: 2.2 Consensus size: 59
11119729 GCATTAATTT
* *
11119739 TTTTGAATATATTTATACAAACTGTTTTTATATTGTTTCATTTAAT-AAACAGAAGTTG
1 TTTTGAATATATTTATACAAACTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
* * * *
11119797 TTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATATTTATACAAACTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
11119856 TTTTGAATA
1 TTTTGAATA
11119865 AGACAATACC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 42 0.69
59 19 0.31
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.51
Consensus pattern (59 bp):
TTTTGAATATATTTATACAAACTATTTTTATATTGTTTCATTTAATAAAACAGAAGTTC
Found at i:11119881 original size:59 final size:59
Alignment explanation
Indices: 11119753--11119906 Score: 177
Period size: 59 Copynumber: 2.6 Consensus size: 59
11119743 GAATATATTT
* * * * *****
11119753 ATACAAACTGTTTTTATATTGTTTCATTTAAT-AAACAGAAGTTGTTTTGAATATTTTT
1 ATACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTGAATAAGACA
*
11119811 GTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTGAATAAGACA
1 ATACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTGAATAAGACA
* *
11119870 ATACCAATTATTTTT-TCATTGTTTTATTTAATAAAAT
1 ATACAAATTATTTTTAT-ATTGTTTCATTTAATAAAAT
11119907 TATGAGTTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
58 30 0.37
59 51 0.63
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (59 bp):
ATACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTGAATAAGACA
Found at i:11123321 original size:29 final size:29
Alignment explanation
Indices: 11123275--11123347 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
11123265 TATCAAAATA
11123275 ATTTTTTCAGAACACATCACGTCAAATTT
1 ATTTTTTCAGAACACATCACGTCAAATTT
* * * **
11123304 ATTTTTTCATATCCCATCTTGTCAAATTT
1 ATTTTTTCAGAACACATCACGTCAAATTT
*
11123333 ATTTCTTCTAGAACA
1 ATTTTTTC-AGAACA
11123348 ATACTTACCA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
29 31 0.91
30 3 0.09
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (29 bp):
ATTTTTTCAGAACACATCACGTCAAATTT
Found at i:11126097 original size:332 final size:332
Alignment explanation
Indices: 11125491--11126149 Score: 1309
Period size: 332 Copynumber: 2.0 Consensus size: 332
11125481 TTTCATGTTC
11125491 ATCAAGGAAGGGAAGATTGTGGACAAAGTGACGGGAGCAAAGAAAGAAGAGCTTCAGCAGACTGT
1 ATCAAGGAAGGGAAGATTGTGGACAAAGTGACGGGAGCAAAGAAAGAAGAGCTTCAGCAGACTGT
11125556 GATAAAGCATATGGCTGCCACCAGTACTACTTCTTCAGCTTGATTTTATGATAATTATTAGTTCA
66 GATAAAGCATATGGCTGCCACCAGTACTACTTCTTCAGCTTGATTTTATGATAATTATTAGTTCA
11125621 ACTGTTTTTATCTTTAATGTTTGGAGGAACTTGACCTCATGATTATGTCCTGCTACATCTCTTAT
131 ACTGTTTTTATCTTTAATGTTTGGAGGAACTTGACCTCATGATTATGTCCTGCTACATCTCTTAT
11125686 GTTATTAGACCTTAAGTTTCTTTATCTATGGATCTTTCATTTTATTTAAAGCATGCATATATTAT
196 GTTATTAGACCTTAAGTTTCTTTATCTATGGATCTTTCATTTTATTTAAAGCATGCATATATTAT
*
11125751 CAGCGTTCTTCGTTCTTTACGGTATCTAGTATACGTTTTTTAAACTATCTTATAGCATTTTAGCT
261 CAGCGTTCTTCGTTCTTTACAGTATCTAGTATACGTTTTTTAAACTATCTTATAGCATTTTAGCT
11125816 TTACAGT
326 TTACAGT
11125823 ATCAAGGAAGGGAAGATTGTGGACAAAGTGACGGGAGCAAAGAAAGAAGAGCTTCAGCAGACTGT
1 ATCAAGGAAGGGAAGATTGTGGACAAAGTGACGGGAGCAAAGAAAGAAGAGCTTCAGCAGACTGT
11125888 GATAAAGCATATGGCTGCCACCAGTACTACTTCTTCAGCTTGATTTTATGATAATTATTAGTTCA
66 GATAAAGCATATGGCTGCCACCAGTACTACTTCTTCAGCTTGATTTTATGATAATTATTAGTTCA
11125953 ACTGTTTTTATCTTTAATGTTTGGAGGAACTTGACCTCATGATTATGTCCTGCTACATCTCTTAT
131 ACTGTTTTTATCTTTAATGTTTGGAGGAACTTGACCTCATGATTATGTCCTGCTACATCTCTTAT
11126018 GTTATTAGACCTTAAGTTTCTTTATCTATGGATCTTTCATTTTATTTAAAGCATGCATATATTAT
196 GTTATTAGACCTTAAGTTTCTTTATCTATGGATCTTTCATTTTATTTAAAGCATGCATATATTAT
11126083 CAGCGTTCTTCGTTCTTTACAGTATCTAGTATACGTTTTTTAAACTATCTTATAGCATTTTAGCT
261 CAGCGTTCTTCGTTCTTTACAGTATCTAGTATACGTTTTTTAAACTATCTTATAGCATTTTAGCT
11126148 TT
326 TT
11126150 CAAATCTTGA
Statistics
Matches: 326, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
332 326 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (332 bp):
ATCAAGGAAGGGAAGATTGTGGACAAAGTGACGGGAGCAAAGAAAGAAGAGCTTCAGCAGACTGT
GATAAAGCATATGGCTGCCACCAGTACTACTTCTTCAGCTTGATTTTATGATAATTATTAGTTCA
ACTGTTTTTATCTTTAATGTTTGGAGGAACTTGACCTCATGATTATGTCCTGCTACATCTCTTAT
GTTATTAGACCTTAAGTTTCTTTATCTATGGATCTTTCATTTTATTTAAAGCATGCATATATTAT
CAGCGTTCTTCGTTCTTTACAGTATCTAGTATACGTTTTTTAAACTATCTTATAGCATTTTAGCT
TTACAGT
Found at i:11127266 original size:33 final size:33
Alignment explanation
Indices: 11127229--11127296 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
11127219 ATTAATCTAA
11127229 AACTTAACAGGGTGGTTAACTTTATATTAACTG
1 AACTTAACAGGGTGGTTAACTTTATATTAACTG
*
11127262 AACTTAATAGGGTGGTTAACTTTATATTAACTG
1 AACTTAACAGGGTGGTTAACTTTATATTAACTG
11127295 AA
1 AA
11127297 ATAGCGACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (33 bp):
AACTTAACAGGGTGGTTAACTTTATATTAACTG
Found at i:11129381 original size:6 final size:6
Alignment explanation
Indices: 11129370--11129409 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
11129360 AGCGGACCCA
11129370 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAA
1 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAA
11129410 TTGAAAATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:11140353 original size:129 final size:129
Alignment explanation
Indices: 11140123--11140365 Score: 371
Period size: 129 Copynumber: 1.9 Consensus size: 129
11140113 CCTGAAGAAC
* ** **
11140123 GCCACAGGATTGAAATTGTTAATAGAATTCAAACTGAAAACTATCTCAATTAACATAGATTAAAG
1 GCCACAAGATTGAAATTGTTAATAGAAAACAAACCAAAAACTATCTCAATTAACATAGATTAAAG
*
11140188 GTCAATCCAACCTAGCATCAGCAGTGAGAACACGAGTACATAACTAATTTAACATCAATTGAAG
66 GCCAATCCAACCTAGCATCAGCAGTGAGAACACGAGTACATAACTAATTTAACATCAATTGAAG
*
11140252 GCCACAAGATTGAAATTGTTAATAGAAAACAAACCAAAAACTATCTCAATTAACATCA-ATTAAG
1 GCCACAAGATTGAAATTGTTAATAGAAAACAAACCAAAAACTATCTCAATTAACAT-AGATTAAA
* * * *
11140316 GGCCAATTCAACCTAGCATCAGCAGTGAGAATACGAGTACCTGACTAATT
65 GGCCAATCCAACCTAGCATCAGCAGTGAGAACACGAGTACATAACTAATT
11140366 CAAACCAAGA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
129 101 0.99
130 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (129 bp):
GCCACAAGATTGAAATTGTTAATAGAAAACAAACCAAAAACTATCTCAATTAACATAGATTAAAG
GCCAATCCAACCTAGCATCAGCAGTGAGAACACGAGTACATAACTAATTTAACATCAATTGAAG
Found at i:11149040 original size:62 final size:62
Alignment explanation
Indices: 11148943--11149145 Score: 379
Period size: 62 Copynumber: 3.3 Consensus size: 62
11148933 CACCAAGATA
11148943 AAAGCAGATTCCTATCTGCTGAGTCATGTCCTTTAAGTCATGTCTGTAATTAGTATGTTTGT
1 AAAGCAGATTCCTATCTGCTGAGTCATGTCCTTTAAGTCATGTCTGTAATTAGTATGTTTGT
11149005 AAAGCAGATTCCTATCTGCTGAGTCATGTCCTTTAAGTCATGTCTGTAATTAGTATGTTTGT
1 AAAGCAGATTCCTATCTGCTGAGTCATGTCCTTTAAGTCATGTCTGTAATTAGTATGTTTGT
* * *
11149067 AAAGCCGATTCTTATCTGCTGAGTCATGTCCTTTAAGTCATGTCTGTAATTAGTATATTTGT
1 AAAGCAGATTCCTATCTGCTGAGTCATGTCCTTTAAGTCATGTCTGTAATTAGTATGTTTGT
11149129 AAAGCAGATTCCTATCT
1 AAAGCAGATTCCTATCT
11149146 ATCTGCTCAT
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 136 1.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (62 bp):
AAAGCAGATTCCTATCTGCTGAGTCATGTCCTTTAAGTCATGTCTGTAATTAGTATGTTTGT
Found at i:11149743 original size:17 final size:17
Alignment explanation
Indices: 11149721--11149753 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11149711 ATTTATTTTT
11149721 ATCCAATTATGTTAACC
1 ATCCAATTATGTTAACC
*
11149738 ATCCAATTCTGTTAAC
1 ATCCAATTATGTTAAC
11149754 TATTATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (17 bp):
ATCCAATTATGTTAACC
Found at i:11149829 original size:32 final size:31
Alignment explanation
Indices: 11149766--11149829 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
11149756 TTATTAAATT
* **
11149766 TGTCATAAAAAATGACGTGACAATTTTAAAA
1 TGTCATAAAAAATGACATGACAATTCAAAAA
* *
11149797 TGTCATAGAAAAATGACATTATAATTCAAAAA
1 TGTCATA-AAAAATGACATGACAATTCAAAAA
11149829 T
1 T
11149830 TAACATGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (31 bp):
TGTCATAAAAAATGACATGACAATTCAAAAA
Found at i:11158323 original size:19 final size:19
Alignment explanation
Indices: 11158286--11158323 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11158276 GTAATTGAAC
* *
11158286 TTGAAAATTGGGTCTGAGA
1 TTGAAAATTGGGCCCGAGA
11158305 TTGAAAATTGGGCCCGAGA
1 TTGAAAATTGGGCCCGAGA
11158324 ATCCAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (19 bp):
TTGAAAATTGGGCCCGAGA
Found at i:11159777 original size:5 final size:6
Alignment explanation
Indices: 11159763--11159791 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11159753 GCCGAAACTT
11159763 AAAAGA AAAAGA AAAAG- AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
11159792 GTTCCTAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:11162876 original size:41 final size:41
Alignment explanation
Indices: 11162738--11162889 Score: 182
Period size: 41 Copynumber: 3.7 Consensus size: 41
11162728 GTGAAATTGT
* *
11162738 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
*
11162779 TCGGACTATACGTCC-AGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATACG-CCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * *
11162820 TCAGGCTATAGGCCTAGCAGGCTAAGTTCCGGTGAACGGAA
1 TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
11162861 TTAGACTATAAGCCTATCAGG-TGAAGTGC
1 TCAGACTATACGCCTAGCAGGCT-AAGTGC
11162890 TAGTGAATCT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
40 3 0.03
41 91 0.96
42 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:11163144 original size:27 final size:28
Alignment explanation
Indices: 11163084--11163145 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 28
11163074 TTTAAATGTG
*
11163084 TATATGTATGCATTTGGCATAGGTGGATATA
1 TATATGTATGCATTCGGCATAGGTGG--A-A
11163115 TATATGTATGCATTCGGCATAGGTGG-A
1 TATATGTATGCATTCGGCATAGGTGGAA
11163142 TATA
1 TATA
11163146 AGTGTATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 5 0.17
31 25 0.83
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (28 bp):
TATATGTATGCATTCGGCATAGGTGGAA
Found at i:11163154 original size:37 final size:36
Alignment explanation
Indices: 11163084--11163203 Score: 150
Period size: 37 Copynumber: 3.5 Consensus size: 36
11163074 TTTAAATGTG
*
11163084 TATATGTATGCATTTGGCATAGGTGG-AT-A---TA
1 TATATGTATGCATTCGGCATAGGTGGTATAAGTGTA
11163115 TATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
1 TATATGTATGCATTCGGCATAGGTGG-TATAAGTGTA
11163152 TATATGTATGCATTCGGCATAGGTGGGTATAAGTG-A
1 TATATGTATGCATTCGGCATAGGT-GGTATAAGTGTA
11163188 -ATATG--TGCATTCGGCA
1 TATATGTATGCATTCGGCA
11163204 CTTACAGTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
31 25 0.31
33 13 0.16
34 1 0.01
35 5 0.06
36 1 0.01
37 34 0.42
38 2 0.02
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.35
Consensus pattern (36 bp):
TATATGTATGCATTCGGCATAGGTGGTATAAGTGTA
Found at i:11164578 original size:16 final size:18
Alignment explanation
Indices: 11164552--11164584 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11164542 AAAAATCGGG
11164552 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
11164569 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
11164585 TGATGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:11165610 original size:186 final size:184
Alignment explanation
Indices: 11165287--11165644 Score: 469
Period size: 186 Copynumber: 1.9 Consensus size: 184
11165277 AAATAAAAAG
*
11165287 TTTTGGGGAGTAAAATATTGAGGGAAAGTAAATAGAGGGAGTAAAATTTTGGAGAGAAAATATTA
1 TTTTGGGGAGTAAAATATTGAGGGAAACTAAATAGAGGGAGTAAAATTTTGGAGAGAAAATATTA
** * * * *
11165352 AAAAAATGGGGGGGATGGGTTTAGGGTTGATGGGGGTGGGATGGGAGGGGAGTAAAAGTTTTAGG
66 AAAAAATGGGGGAAATGGATTCAGGGTAGATGGGGGTGGGATGGGAAGGGAGTAAAAGTTTTAGG
11165417 GGGAAAGTCG-G-AGAGAGTAAAAATTTTGCGGGAAAA-TAAAAATTTTTGAGGGT
131 GGGAAAGT-GAGAAG-GAGTAAAAATTTTGCGGGAAAAGTAAAAATTTTTGAGGGT
* * *
11165470 TTTTGGGG-GTAAAATTTTGAGGGAAACTAAAT-GTA-GGTGTAAAATTTTGGAGGGAAAATATT
1 TTTTGGGGAGTAAAATATTGAGGGAAACTAAATAG-AGGGAGTAAAATTTTGGAGAGAAAATATT
*
11165532 AAAAAAATTGGTGGGAAATGGATTCGGGGTAGATGGGGGAATTGGGATGGGAAGGGAGTAAAAGT
65 AAAAAAA-TGG-GGGAAATGGATTCAGGGTAGATGGGGG---TGGGATGGGAAGGGAGTAAAAGT
* *
11165597 TTT-GGGAGGAAAGTGAGAAGGAGTAAAAGTTTTGGGGGAAAAGTAAAA
125 TTTAGGG-GGAAAGTGAGAAGGAGTAAAAATTTTGCGGGAAAAGTAAAA
11165645 GGTTTGAGGA
Statistics
Matches: 152, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
181 33 0.22
182 26 0.17
183 29 0.19
185 4 0.03
186 53 0.35
187 7 0.05
ACGTcount: A:0.37, C:0.01, G:0.37, T:0.25
Consensus pattern (184 bp):
TTTTGGGGAGTAAAATATTGAGGGAAACTAAATAGAGGGAGTAAAATTTTGGAGAGAAAATATTA
AAAAAATGGGGGAAATGGATTCAGGGTAGATGGGGGTGGGATGGGAAGGGAGTAAAAGTTTTAGG
GGGAAAGTGAGAAGGAGTAAAAATTTTGCGGGAAAAGTAAAAATTTTTGAGGGT
Found at i:11168711 original size:45 final size:45
Alignment explanation
Indices: 11168656--11168741 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
11168646 GCTATACGGC
* * * * *
11168656 AAAATTAGTAAGACCATAGCTGAAAGATGTTATGGCATCATGATA
1 AAAATGAGTAAGACCAAAGCTGAAAGACGCTATGACATCATGATA
11168701 AAAATGAGTAAGACCAAAGCTGAAAGACGCTATGACATCAT
1 AAAATGAGTAAGACCAAAGCTGAAAGACGCTATGACATCAT
11168742 ATGAAAGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (45 bp):
AAAATGAGTAAGACCAAAGCTGAAAGACGCTATGACATCATGATA
Found at i:11169017 original size:74 final size:74
Alignment explanation
Indices: 11168782--11169013 Score: 331
Period size: 74 Copynumber: 3.1 Consensus size: 74
11168772 TAAAACCGTG
* * * * *
11168782 GCTGAAAGATACTATGACATCCTTTGATAGTCCGTTGGGATAATAAACATGGGGTTATCTTGTGT
1 GCTGAAAGATACTATGACATCCTTTGATAGTTCGTCGAGATAGTAAACATGGGGTTATATTGTGT
11168847 AAGACCATA
66 AAGACCATA
* * * * *
11168856 GCTGAAAGACACTATGACATCCTTTGATAGTTCATCGAGACAGTAAACACT-AGGTTATATTATG
1 GCTGAAAGATACTATGACATCCTTTGATAGTTCGTCGAGATAGTAAACA-TGGGGTTATATTGTG
11168920 TAAGACCATA
65 TAAGACCATA
** *
11168930 GCTGAAAGATGTTATGACATCCTTTGATAGTTTGTCGAGATAGTAAACATGGGGTTATATTGTGT
1 GCTGAAAGATACTATGACATCCTTTGATAGTTCGTCGAGATAGTAAACATGGGGTTATATTGTGT
11168995 AAGACCATA
66 AAGACCATA
11169004 GCTGAAAGAT
1 GCTGAAAGAT
11169014 GTTACAACAT
Statistics
Matches: 138, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
73 1 0.01
74 136 0.99
75 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (74 bp):
GCTGAAAGATACTATGACATCCTTTGATAGTTCGTCGAGATAGTAAACATGGGGTTATATTGTGT
AAGACCATA
Found at i:11169058 original size:27 final size:26
Alignment explanation
Indices: 11169027--11169131 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
11169017 ACAACATCAT
* *
11169027 AGATAGACTATCGGGACACTAAACATG
1 AGATAGTCTA-CGGGACATTAAACATG
*
11169054 AGATAGTCTGACGAGACATTAAACATG
1 AGATAGTCT-ACGGGACATTAAACATG
* * *
11169081 GGATAGTCCAACGGGACATTAAACACG
1 AGATAGT-CTACGGGACATTAAACATG
* *
11169108 AGATAGTCTGCTGGGACAGTAAAC
1 AGATAGTCTAC-GGGACATTAAAC
11169132 GCGAGAATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.03
27 60 0.94
28 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (26 bp):
AGATAGTCTACGGGACATTAAACATG
Found at i:11183833 original size:17 final size:17
Alignment explanation
Indices: 11183812--11183850 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
11183802 TAATTTAGCC
11183812 ATTTTTATTTCA-TTTT
1 ATTTTTATTTCAGTTTT
*
11183828 ATTTTTATTTTAGTTTT
1 ATTTTTATTTCAGTTTT
11183845 ATTTTT
1 ATTTTT
11183851 GTTTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (17 bp):
ATTTTTATTTCAGTTTT
Found at i:11183837 original size:11 final size:11
Alignment explanation
Indices: 11183814--11183882 Score: 54
Period size: 11 Copynumber: 6.3 Consensus size: 11
11183804 ATTTAGCCAT
*
11183814 TTTTA-TTTCA
1 TTTTATTTTTA
11183824 TTTTATTTTTA
1 TTTTATTTTTA
*
11183835 TTTTAGTTTTA
1 TTTTATTTTTA
11183846 TTTT-TGTTTTA
1 TTTTAT-TTTTA
*
11183857 TTTTTGTTTTCTA
1 -TTTTATTTT-TA
*
11183870 ATTT-TTTTTA
1 TTTTATTTTTA
11183880 TTT
1 TTT
11183883 GCTTTTGGCG
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
10 9 0.18
11 27 0.55
12 10 0.20
13 3 0.06
ACGTcount: A:0.14, C:0.03, G:0.04, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:11183855 original size:17 final size:17
Alignment explanation
Indices: 11183812--11183866 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
11183802 TAATTTAGCC
*
11183812 ATTTTTATTTCA-TTTT
1 ATTTTTATTTTAGTTTT
11183828 ATTTTTATTTTAGTTTT
1 ATTTTTATTTTAGTTTT
* *
11183845 ATTTTTGTTTTATTTTT
1 ATTTTTATTTTAGTTTT
*
11183862 GTTTT
1 ATTTT
11183867 CTAATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 11 0.32
17 23 0.68
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (17 bp):
ATTTTTATTTTAGTTTT
Found at i:11183877 original size:22 final size:22
Alignment explanation
Indices: 11183829--11183882 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
11183819 TTTCATTTTA
11183829 TTTTTATTTTAGTTTTAT-TTT
1 TTTTTATTTTAGTTTTATATTT
* *
11183850 TGTTTTATTTTTGTTTTCTAATTT
1 T-TTTTATTTTAGTTTTAT-ATTT
11183874 TTTTTATTT
1 TTTTTATTT
11183883 GCTTTTGGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.04
22 15 0.54
23 8 0.29
24 4 0.14
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.80
Consensus pattern (22 bp):
TTTTTATTTTAGTTTTATATTT
Found at i:11186709 original size:19 final size:19
Alignment explanation
Indices: 11186685--11186730 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
11186675 AGTCGCCCCT
* *
11186685 TTTATTTTATTTTATTTTA
1 TTTATTTTATGTTATATTA
11186704 TTTATTATT-TGTTATATTA
1 TTTATT-TTATGTTATATTA
11186723 -TTATTTTA
1 TTTATTTTA
11186731 CTAATTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 2 0.09
18 5 0.22
19 14 0.61
20 2 0.09
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTATTTTATGTTATATTA
Found at i:11186744 original size:26 final size:26
Alignment explanation
Indices: 11186692--11186745 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
11186682 CCTTTTATTT
* * *
11186692 TATTTTATTTTATTTATTATTTGTTA
1 TATTTTATTTTACTAATTATTTCTTA
11186718 TATTATTATTTTACTAATT-TTTCTTA
1 TATT-TTATTTTACTAATTATTTCTTA
11186744 TA
1 TA
11186746 CTTAGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.69
Consensus pattern (26 bp):
TATTTTATTTTACTAATTATTTCTTA
Found at i:11187039 original size:32 final size:32
Alignment explanation
Indices: 11186995--11187057 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
11186985 CTTAATCTTC
11186995 TCTATTACTTGTGTTTATTTTCTTATTAGTTA
1 TCTATTACTTGTGTTTATTTTCTTATTAGTTA
*
11187027 TCTATTATTTGTGTTTATTTTCTTATTAGTT
1 TCTATTACTTGTGTTTATTTTCTTATTAGTT
11187058 TGCTCGGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.08, G:0.10, T:0.65
Consensus pattern (32 bp):
TCTATTACTTGTGTTTATTTTCTTATTAGTTA
Found at i:11190242 original size:23 final size:23
Alignment explanation
Indices: 11190215--11190262 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11190205 TGAAAGTGTA
11190215 AACTTTAGTTATTTATTTGGGAT
1 AACTTTAGTTATTTATTTGGGAT
11190238 AACTTTAGTTATTTATTTGGGAT
1 AACTTTAGTTATTTATTTGGGAT
11190261 AA
1 AA
11190263 TATAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (23 bp):
AACTTTAGTTATTTATTTGGGAT
Found at i:11190270 original size:19 final size:21
Alignment explanation
Indices: 11190219--11190270 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 21
11190209 AGTGTAAACT
*
11190219 TTAGTTATTTATTTGGGATAA
1 TTAGTAATTTATTTGGGATAA
*
11190240 CTTTAGTTATTTATTTGGGATAA
1 --TTAGTAATTTATTTGGGATAA
11190263 -TA-TAATTT
1 TTAGTAATTT
11190271 TTAGCTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 5 0.18
20 2 0.07
23 21 0.75
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.54
Consensus pattern (21 bp):
TTAGTAATTTATTTGGGATAA
Found at i:11192702 original size:21 final size:20
Alignment explanation
Indices: 11192668--11192708 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11192658 AAACTGGGGT
11192668 ATACAAACTTTTTTTGATAA
1 ATACAAACTTTTTTTGATAA
11192688 ATACAAACTTTTTTTGATAA
1 ATACAAACTTTTTTTGATAA
11192708 A
1 A
11192709 CCGGGCGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
ATACAAACTTTTTTTGATAA
Found at i:11192770 original size:6 final size:6
Alignment explanation
Indices: 11192759--11192789 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
11192749 TTTGTGGTGG
*
11192759 ATTAAA ATTAAA ATTAAA ATTAAG ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
11192790 AAAAACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:11193553 original size:22 final size:24
Alignment explanation
Indices: 11193501--11193554 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
11193491 TTTTTTATAA
11193501 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATTAAATAT-CT
* *
11193526 TGAAATTATTG-TATTATATAT-T
1 TTAAATTATTGTTATTAAATATCT
11193548 TTAAATT
1 TTAAATT
11193555 GAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 7 0.27
24 9 0.35
25 10 0.38
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAAATATCT
Found at i:11196825 original size:15 final size:15
Alignment explanation
Indices: 11196805--11196835 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11196795 TTAGATGTTT
11196805 TGAATGTATTGAAGA
1 TGAATGTATTGAAGA
11196820 TGAATGTATTGAAGA
1 TGAATGTATTGAAGA
11196835 T
1 T
11196836 TCAATTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
TGAATGTATTGAAGA
Found at i:11197797 original size:13 final size:13
Alignment explanation
Indices: 11197779--11197841 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
11197769 TCTTCATTAT
*
11197779 TTTTGAAAAGTGC
1 TTTTGAAAAGTAC
*
11197792 TTTTGAAAAGTAA
1 TTTTGAAAAGTAC
* *
11197805 TGTGGAAAAGTAC
1 TTTTGAAAAGTAC
* *
11197818 TTTTGAGAAGTGC
1 TTTTGAAAAGTAC
11197831 TTTTGAAAAGT
1 TTTTGAAAAGT
11197842 TTGGTTTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:11206666 original size:22 final size:21
Alignment explanation
Indices: 11206626--11206666 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11206616 TATTCAAAAA
* *
11206626 TAAAATAATAATTATAAAACT
1 TAAAATAATAATAAAAAAACT
11206647 TAAAACTAATAATAAAAAAA
1 TAAAA-TAATAATAAAAAAA
11206667 TTCAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAATAATAATAAAAAAACT
Found at i:11207323 original size:124 final size:122
Alignment explanation
Indices: 11207180--11207476 Score: 371
Period size: 124 Copynumber: 2.4 Consensus size: 122
11207170 TCAATTTTTT
* * *
11207180 CCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATTGTAGTTTTTCAATTTTTTCAAATACT
1 CCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCGTAGTTTTTCAATTTGTTCAAACACT
* * **
11207245 T-CAAAACAAAATTTACACGGTTTACTTTAGCCCTTTACTTACATTTTACCCATTTCCC
66 TCCAAAACAAAATTTACACGATTTACTTTAGCCATTTACTTACATACTACCCATTT--C
* ** * *
11207303 CCCTTTTATTTGTTGAATGATTATACCAAAAGATTCTATCACAGTTTTCCAATTTGTTCAAGCAC
1 CCC-TTTATTTGTTGAATGATTGTACCAAAAGATTCTATCGTAGTTTTTCAATTTGTTCAAACAC
* * * *
11207368 TTCCAAAACAAAATTTACACTATTTACTTTAGTCATTTACTTACATACTACCCCTTTT
65 TTCCAAAACAAAATTTACACGATTTACTTTAGCCATTTACTTACATACTACCCATTTC
** * * *
11207426 TTCTGTATTTTTTGAATGATTGTGCCAAAAGATTCTATCGTAGTTTTTCAA
1 CCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCGTAGTTTTTCAA
11207477 ACACTTCAAA
Statistics
Matches: 147, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
122 41 0.28
123 4 0.03
124 55 0.37
125 47 0.32
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (122 bp):
CCCTTTATTTGTTGAATGATTGTACCAAAAGATTCTATCGTAGTTTTTCAATTTGTTCAAACACT
TCCAAAACAAAATTTACACGATTTACTTTAGCCATTTACTTACATACTACCCATTTC
Found at i:11209447 original size:36 final size:36
Alignment explanation
Indices: 11209399--11209471 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
11209389 TTACACTGAT
**
11209399 TATAGGGAGAAGCCTGGCAATTTTTCTCTATGATTA
1 TATAGGGAGAAGCCTCACAATTTTTCTCTATGATTA
*
11209435 TATATGGAGAAGCCTCACAATTTTTCTCTATGATTA
1 TATAGGGAGAAGCCTCACAATTTTTCTCTATGATTA
11209471 T
1 T
11209472 GCCATCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (36 bp):
TATAGGGAGAAGCCTCACAATTTTTCTCTATGATTA
Found at i:11209736 original size:24 final size:24
Alignment explanation
Indices: 11209709--11209760 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11209699 AATCAAAGTC
* *
11209709 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
11209733 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
11209757 AAAT
1 AAAT
11209761 CTTCTGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11213147 original size:23 final size:23
Alignment explanation
Indices: 11213121--11213196 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
11213111 ATAAGTGCAA
11213121 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
11213144 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11213167 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11213190 CACTGAT
1 CACTGAT
11213197 CAATAGCACT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11216726 original size:24 final size:24
Alignment explanation
Indices: 11216684--11216735 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11216674 AATCAAAGTC
** *
11216684 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
11216708 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
11216732 AAAT
1 AAAT
11216736 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11218008 original size:19 final size:19
Alignment explanation
Indices: 11217984--11218021 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
11217974 GGACACGACA
11217984 TTCAA-CCAGTGTGTTTGAT
1 TTCAACCCAGTG-GTTTGAT
11218003 TTCAACTCCAGTGGTTTGA
1 TTCAAC-CCAGTGGTTTGA
11218022 AATTTTGGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (19 bp):
TTCAACCCAGTGGTTTGAT
Found at i:11219967 original size:20 final size:20
Alignment explanation
Indices: 11219942--11219979 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11219932 GCTGACAAAA
11219942 CAGTCACTCAACTTTCAATT
1 CAGTCACTCAACTTTCAATT
*
11219962 CAGTCATTCAACTTTCAA
1 CAGTCACTCAACTTTCAA
11219980 AAAATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (20 bp):
CAGTCACTCAACTTTCAATT
Found at i:11222175 original size:15 final size:17
Alignment explanation
Indices: 11222149--11222183 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
11222139 AAATAGTTGT
11222149 TATTTCAATTGTTTA-A
1 TATTTCAATTGTTTATA
11222165 TATTT-AATTGTTTATA
1 TATTTCAATTGTTTATA
11222181 TAT
1 TAT
11222184 GAATCGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (17 bp):
TATTTCAATTGTTTATA
Found at i:11222362 original size:41 final size:41
Alignment explanation
Indices: 11222305--11222382 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
11222295 TTCTGTCGAG
*
11222305 TAAGACCATAGCTGAAAGACCTTATCG-CATCACGATTGTAT
1 TAAGACCATAACTGAAAGACCTTAT-GTCATCACGATTGTAT
**
11222346 TAAGACCATAACTGAAAGATGTTATGTCATCACGATT
1 TAAGACCATAACTGAAAGACCTTATGTCATCACGATT
11222383 CTATCAAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.03
41 32 0.97
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (41 bp):
TAAGACCATAACTGAAAGACCTTATGTCATCACGATTGTAT
Found at i:11222411 original size:45 final size:44
Alignment explanation
Indices: 11222258--11222409 Score: 159
Period size: 45 Copynumber: 3.5 Consensus size: 44
11222248 ACTAGAAATG
* ** *
11222258 AGTAAGACCTTAGCTGAAAGACGTTATAGCATCAAAATTCTGTC
1 AGTAAGACCATAGCTGAAAGACGTTATAGCATCACGATTCTATC
* * *
11222302 GAGTAAGACCATAGCTGAAAGACCTTATCGCATCACGATTGTAT-
1 -AGTAAGACCATAGCTGAAAGACGTTATAGCATCACGATTCTATC
* *
11222346 --TAAGACCATAACTGAAAGATGTTAT-GTCATCACGATTCTATC
1 AGTAAGACCATAGCTGAAAGACGTTATAG-CATCACGATTCTATC
*
11222388 AAGTAAGGCCATAGCTGAAAGA
1 -AGTAAGACCATAGCTGAAAGA
11222410 TGCTATGACA
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 35 0.39
45 53 0.60
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (44 bp):
AGTAAGACCATAGCTGAAAGACGTTATAGCATCACGATTCTATC
Found at i:11222445 original size:45 final size:45
Alignment explanation
Indices: 11222346--11222454 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 45
11222336 ACGATTGTAT
* * * * * * *
11222346 TAAGACCATAACTGAAAGATGTTATGTCATCACGATTCTATCAAG
1 TAAGACCATAGCTGAAAGATGCTATGACATCACGAATCAAACAAA
* * *
11222391 TAAGGCCATAGCTGAAAGATGCTATGACATTACGAATCAAAGAAA
1 TAAGACCATAGCTGAAAGATGCTATGACATCACGAATCAAACAAA
*
11222436 TAAGACCATAGTTGAAAGA
1 TAAGACCATAGCTGAAAGA
11222455 CACTATGGCA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGATGCTATGACATCACGAATCAAACAAA
Found at i:11222461 original size:45 final size:44
Alignment explanation
Indices: 11222391--11222547 Score: 129
Period size: 45 Copynumber: 3.5 Consensus size: 44
11222381 TTCTATCAAG
* * ** *
11222391 TAAGGCCATAGCTGAAAGATGCTATGACATTACGAATCAAAGAAA
1 TAAGACCATAGTTGAAAGACACTATGACATCACGAAT-AAAGAAA
* *
11222436 TAAGACCATAGTTGAAAGACACTATGGCAACATGACGGAA-AATG-AA
1 TAAGACCATAGTTGAAAGACACTAT-G--ACATCAC-GAATAAAGAAA
* * * * *
11222482 TATGACCATGGTTGAAAGACACTATGGCATCAAGAATAGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGACATCACGAATA-AAGAAA
*
11222527 TAAGACCATGGTTGAAAGACA
1 TAAGACCATAGTTGAAAGACA
11222548 TCATGGCACT
Statistics
Matches: 91, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 44 0.48
46 26 0.29
47 3 0.03
48 6 0.07
49 3 0.03
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.20
Consensus pattern (44 bp):
TAAGACCATAGTTGAAAGACACTATGACATCACGAATAAAGAAA
Found at i:11222554 original size:45 final size:46
Alignment explanation
Indices: 11222433--11222555 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 46
11222423 CGAATCAAAG
* * *
11222433 AAATAAGACCATAGTTGAAAGACACTATGGCAACATGACGGAAAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACAGAAAAT
* * * * *
11222479 GAATATGACCATGGTTGAAAGACACTATGGCATCAAGA-ATAGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACAGAAAAT
11222524 AAATAAGACCATGGTTGAAAGACA-TCATGGCA
1 AAATAAGACCATGGTTGAAAGACACT-ATGGCA
11222556 CTGTCCGATT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
44 1 0.02
45 32 0.48
46 33 0.50
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.20
Consensus pattern (46 bp):
AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACAGAAAAT
Found at i:11224271 original size:42 final size:42
Alignment explanation
Indices: 11224192--11224273 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
11224182 TAGACACAAG
* **
11224192 GGCTGGAACACGACCGTGTGTCTCAATTCAGTGAGTTACACA
1 GGCTGGAACACGACCGTGTGTCCCAATTCAGAAAGTTACACA
* * **
11224234 GGCTGGAACACGGCTGTGTGTCCCAATTTTGAAAGTTACA
1 GGCTGGAACACGACCGTGTGTCCCAATTCAGAAAGTTACA
11224274 AGGTCTAGGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (42 bp):
GGCTGGAACACGACCGTGTGTCCCAATTCAGAAAGTTACACA
Found at i:11225563 original size:17 final size:17
Alignment explanation
Indices: 11225537--11225620 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 17
11225527 ATCGTAGGAT
* *
11225537 TGCGAACTCACCAAATG
1 TGCGAGCTCACCAAATC
*
11225554 TGCGAGCTCACCCAAAAC
1 TGCGAGCTCA-CCAAATC
* *
11225572 TGTGAGCTCATCAAGA-C
1 TGCGAGCTCACCAA-ATC
* *
11225589 TGCGAGCTCTCC-AATAG
1 TGCGAGCTCACCAAAT-C
11225606 TGCGAGCTCACCAAA
1 TGCGAGCTCACCAAA
11225621 GCTTCGTAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
15 1 0.02
16 1 0.02
17 33 0.63
18 17 0.33
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (17 bp):
TGCGAGCTCACCAAATC
Found at i:11229282 original size:4 final size:4
Alignment explanation
Indices: 11229273--11229327 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
11229263 CTACATATAG
11229273 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
11229321 ATAC ATA
1 ATAC ATA
11229328 TGTATGTATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:11238123 original size:41 final size:42
Alignment explanation
Indices: 11238061--11238152 Score: 141
Period size: 41 Copynumber: 2.2 Consensus size: 42
11238051 TTTAGCTTTT
* *
11238061 TGAGCTTCTATTCAGCTCTTACAAGCTTCTATTCAACTCTTA
1 TGAGATTCTATTAAGCTCTTACAAGCTTCTATTCAACTCTTA
* *
11238103 TGAG-TTCTATTAAGCTCTTACGAGCTTCTGTTCAACTCTTA
1 TGAGATTCTATTAAGCTCTTACAAGCTTCTATTCAACTCTTA
11238144 TGAGATTCT
1 TGAGATTCT
11238153 GTTCAGCTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 38 0.83
42 8 0.17
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (42 bp):
TGAGATTCTATTAAGCTCTTACAAGCTTCTATTCAACTCTTA
Found at i:11238179 original size:42 final size:41
Alignment explanation
Indices: 11238074--11238213 Score: 142
Period size: 41 Copynumber: 3.4 Consensus size: 41
11238064 GCTTCTATTC
* * * *
11238074 AGCTCTTACAAGCTTCTATTCAACTCTTATGAGTTCTATTA
1 AGCTCTGACGAGCTTCTGTTCAACTCTTATGAGTTCTGTTA
* *
11238115 AGCTCTTACGAGCTTCTGTTCAACTCTTATGAGATTCTGTTC
1 AGCTCTGACGAGCTTCTGTTCAACTCTTATGAG-TTCTGTTA
* *
11238157 AGCTGTGACGAGCTTTTGTTCAACT-TT-TGAGTTTCTGTTTA
1 AGCTCTGACGAGCTTCTGTTCAACTCTTATGAG-TTCTG-TTA
* *
11238198 A-CTCTTATGAGCTTCT
1 AGCTCTGACGAGCTTCT
11238214 ATTTAGCTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
40 20 0.24
41 36 0.43
42 28 0.33
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.43
Consensus pattern (41 bp):
AGCTCTGACGAGCTTCTGTTCAACTCTTATGAGTTCTGTTA
Found at i:11238200 original size:19 final size:20
Alignment explanation
Indices: 11238046--11238223 Score: 74
Period size: 21 Copynumber: 8.7 Consensus size: 20
11238036 GTGTTTTACT
* *
11238046 TTCTGTTTAGCTTTTTGAGC
1 TTCTGTTTAACTTTATGAGC
* * * **
11238066 TTCTATTCAGCTCTTACAAGC
1 TTCTGTTTAACT-TTATGAGC
* *
11238087 TTCTATTCAACTCTTATGAG-
1 TTCTGTTTAACT-TTATGAGC
* *
11238107 TTCT-ATTAAGCTCTTACGAGC
1 TTCTGTTTAA-CT-TTATGAGC
* *
11238128 TTCTGTTCAACTCTTATGAGA
1 TTCTGTTTAACT-TTATGAGC
* * * *
11238149 TTCTGTTCAGCTGTGACGAGC
1 TTCTGTTTAACT-TTATGAGC
* * *
11238170 TTTTGTTCAACTTT-TGAGT
1 TTCTGTTTAACTTTATGAGC
11238189 TTCTGTTTAACTCTTATGAGC
1 TTCTGTTTAACT-TTATGAGC
* *
11238210 TTCTATTTAGCTTT
1 TTCTGTTTAACTTT
11238224 CGAGCTTATG
Statistics
Matches: 122, Mismatches: 30, Indels: 12
0.74 0.18 0.07
Matches are distributed among these distances:
19 16 0.13
20 28 0.23
21 75 0.61
22 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (20 bp):
TTCTGTTTAACTTTATGAGC
Found at i:11238218 original size:21 final size:21
Alignment explanation
Indices: 11238061--11238216 Score: 131
Period size: 21 Copynumber: 7.6 Consensus size: 21
11238051 TTTAGCTTTT
*
11238061 TGAGCTTCTATTCAGCTCTTA
1 TGAGCTTCTATTCAACTCTTA
**
11238082 CAAGCTTCTATTCAACTCTTA
1 TGAGCTTCTATTCAACTCTTA
11238103 TGAG-TTCTATT-AAGCTCTTA
1 TGAGCTTCTATTCAA-CTCTTA
* *
11238123 CGAGCTTCTGTTCAACTCTTA
1 TGAGCTTCTATTCAACTCTTA
* * * * *
11238144 TGAGATTCTGTTCAGCTGTGA
1 TGAGCTTCTATTCAACTCTTA
* * *
11238165 CGAGCTTTTGTTCAACT-TT-
1 TGAGCTTCTATTCAACTCTTA
* * *
11238184 TGAGTTTCTGTTTAACTCTTA
1 TGAGCTTCTATTCAACTCTTA
11238205 TGAGCTTCTATT
1 TGAGCTTCTATT
11238217 TAGCTTTCGA
Statistics
Matches: 107, Mismatches: 23, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
19 15 0.14
20 19 0.18
21 71 0.66
22 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (21 bp):
TGAGCTTCTATTCAACTCTTA
Found at i:11249644 original size:134 final size:134
Alignment explanation
Indices: 11249352--11249961 Score: 659
Period size: 134 Copynumber: 4.6 Consensus size: 134
11249342 TAGAGTTACA
* * *** * *
11249352 ATCGTAAA-TAAGTGAACTCTTAATGAACTGTTCATGATAACAAATCAATAAACTGAAATTGTGA
1 ATCGTAAATTAA-CGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGA
* * ** * * *
11249416 TCATAAATCAGCAAGCTTT-AAAATTACAGTTGTGATCGTAAATCAATGAATTGTTTAAGTGGAG
65 TCATAAATTAGCAAGCTTTAAAAATGACAGTTGTGATCGTAAATCAACAAACTATTTAAGTAGAG
*
11249480 TCGCG
130 TAGCG
* * * **
11249485 ATCGTAAATCAACAAACTCTTAATGAATTGTTCATGATCGTAAATTAATGAACTGAAACTGTGAT
1 ATCGTAAATTAACGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGAT
* * * **
11249550 CATAAATTAGCAAGCTTTAAAAATGACAATTGTGATCGTAAATTAGCAAACTGCTTAAGTAGAGT
66 CATAAATTAGCAAGCTTTAAAAATGACAGTTGTGATCGTAAATCAACAAACTATTTAAGTAGAGT
*
11249615 AGCA
131 AGCG
*** * *
11249619 ATCGTAAATTGGTGAACTCTTAATGAATTGTTCATCATCGTAAATCAATGAACTGAAGTTGTGGT
1 ATCGTAAATTAACGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGAT
* * * * * * ** *
11249684 CTTAAATCATCGAGCTTTAAAAATAACAGTTGTGATCGTGAATCAATGAACTATTTACGTAGAGT
66 CATAAATTAGCAAGCTTTAAAAATGACAGTTGTGATCGTAAATCAACAAACTATTTAAGTAGAGT
*
11249749 CGCG
131 AGCG
* * * * * *
11249753 ATCTTAGATCT-ACAAAATCTTAATGAATTATTCATGATCATAAATCAATGAACTGAAGTTGTGA
1 ATCGTAAAT-TAACGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGA
* ** * *
11249817 TCGTAAATTAGTGAGCTTTGAAAATGACAGTTGTGATCGTAAATCAACAAACTATTTAAGTGGAG
65 TCATAAATTAGCAAGCTTTAAAAATGACAGTTGTGATCGTAAATCAACAAACTATTTAAGTAGAG
*
11249882 TAGTG
130 TAGCG
* * * *
11249887 ATCGTAAATTGACGAAATCTTAATGAATTGCTCATGATCGTAAATCAATGAACTGAAGTTATGAT
1 ATCGTAAATTAACGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGAT
*
11249952 TATAAATTAG
66 CATAAATTAG
11249962 AGAGTTTTAA
Statistics
Matches: 393, Mismatches: 80, Indels: 7
0.82 0.17 0.01
Matches are distributed among these distances:
133 70 0.18
134 322 0.82
135 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (134 bp):
ATCGTAAATTAACGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTGAAGTTGTGAT
CATAAATTAGCAAGCTTTAAAAATGACAGTTGTGATCGTAAATCAACAAACTATTTAAGTAGAGT
AGCG
Found at i:11249818 original size:268 final size:267
Alignment explanation
Indices: 11249342--11249958 Score: 795
Period size: 268 Copynumber: 2.3 Consensus size: 267
11249332 ACCGTGAGAA
** * *** *
11249342 TAGAGTTA-CAATCGTAAATAAGTGAACTCTTAATGAACTGTTCATGATAACAAATCAATAAACT
1 TAGAG-TAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACT
* * * *
11249406 GAAATTGTGATCATAAATCAGCAAGCTTTAAAATTACAGTTGTGATCGTAAATCAATGAATTGTT
65 GAAGTTGTGATCATAAATCAGCAAGCTTTAAAATAACAGTTGTGATCGTAAATCAATGAACTATT
* * * * *
11249471 TAAGTGGAGTCGCGATCGTAAATCAACAAACTCTTAATGAATTGTTCATGATCGTAAATTAATGA
130 TAAGTAGAGTCGCGATCGTAAATCAACAAAATCTTAATGAATTATTCATGATCATAAATCAATGA
* *
11249536 ACTGAAACTGTGATCATAAATTAGCAAGCTTTAAAAATGACAATTGTGATCGTAAATTAGCAAAC
195 ACTGAAACTGTGATCATAAATTAGCAAGCTTTAAAAATGACAATTGTGATCGTAAATCAACAAAC
*
11249601 TGCTTAAG
260 TACTTAAG
*
11249609 TAGAGTAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATCATCGTAAATCAATGAACTG
1 TAGAGTAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTG
* * * * *
11249674 AAGTTGTGGTCTTAAATCATCGAGCTTTAAAAATAACAGTTGTGATCGTGAATCAATGAACTATT
66 AAGTTGTGATCATAAATCAGCAAGCTTT-AAAATAACAGTTGTGATCGTAAATCAATGAACTATT
* * * *
11249739 TACGTAGAGTCGCGATCTTAGATCTACAAAATCTTAATGAATTATTCATGATCATAAATCAATGA
130 TAAGTAGAGTCGCGATCGTAAATCAACAAAATCTTAATGAATTATTCATGATCATAAATCAATGA
** * ** * *
11249804 ACTGAAGTTGTGATCGTAAATTAGTGAGCTTTGAAAATGACAGTTGTGATCGTAAATCAACAAAC
195 ACTGAAACTGTGATCATAAATTAGCAAGCTTTAAAAATGACAATTGTGATCGTAAATCAACAAAC
*
11249869 TATTTAAG
260 TACTTAAG
* ** ** * *
11249877 TGGAGTAGTGATCGTAAATTGACGAAATCTTAATGAATTGCTCATGATCGTAAATCAATGAACTG
1 TAGAGTAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTG
* *
11249942 AAGTTATGATTATAAAT
66 AAGTTGTGATCATAAAT
11249959 TAGAGAGTTT
Statistics
Matches: 299, Mismatches: 49, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
266 2 0.01
267 77 0.26
268 220 0.74
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (267 bp):
TAGAGTAGCAATCGTAAATTGGTGAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACTG
AAGTTGTGATCATAAATCAGCAAGCTTTAAAATAACAGTTGTGATCGTAAATCAATGAACTATTT
AAGTAGAGTCGCGATCGTAAATCAACAAAATCTTAATGAATTATTCATGATCATAAATCAATGAA
CTGAAACTGTGATCATAAATTAGCAAGCTTTAAAAATGACAATTGTGATCGTAAATCAACAAACT
ACTTAAG
Found at i:11253212 original size:84 final size:84
Alignment explanation
Indices: 11253106--11253265 Score: 302
Period size: 84 Copynumber: 1.9 Consensus size: 84
11253096 TTTTATGTAT
11253106 GCGCCGCTATTGGTTAGGGGTGATAGTGGCGTATTTTGGTCAATCGCCACTAATGTTAAGGTATT
1 GCGCCGCTATTGGTTAGGGGTGATAGTGGCGTATTTTGGTCAATCGCCACTAATGTTAAGGTATT
11253171 TAGCGGCGTTTCTATCCTA
66 TAGCGGCGTTTCTATCCTA
* *
11253190 GCGCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATT
1 GCGCCGCTATTGGTTAGGGGTGATAGTGGCGTATTTTGGTCAATCGCCACTAATGTTAAGGTATT
11253255 TAGCGGCGTTT
66 TAGCGGCGTTT
11253266 GGTTTTAAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (84 bp):
GCGCCGCTATTGGTTAGGGGTGATAGTGGCGTATTTTGGTCAATCGCCACTAATGTTAAGGTATT
TAGCGGCGTTTCTATCCTA
Found at i:11254121 original size:28 final size:28
Alignment explanation
Indices: 11254090--11254144 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
11254080 GGTTTGGGAT
*
11254090 TAAGGTTTAGGGGTTGGGGGTT-AGGGTC
1 TAAGG-TTAGGGGTTAGGGGTTAAGGGTC
11254118 TAAGGTTAGGGGTTAGGGGTTAAGGGT
1 TAAGGTTAGGGGTTAGGGGTTAAGGGT
11254145 TTGGGATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.18, C:0.02, G:0.49, T:0.31
Consensus pattern (28 bp):
TAAGGTTAGGGGTTAGGGGTTAAGGGTC
Found at i:11254237 original size:8 final size:7
Alignment explanation
Indices: 11254076--11254238 Score: 68
Period size: 7 Copynumber: 23.1 Consensus size: 7
11254066 CGGGTATGGA
11254076 TTAGGGT
1 TTAGGGT
*
11254083 TT-GGGA
1 TTAGGGT
*
11254089 TTAAGGT
1 TTAGGGT
*
11254096 TTAGGGG
1 TTAGGGT
* *
11254103 TTGGGGG
1 TTAGGGT
11254110 TTAGGGT
1 TTAGGGT
* *
11254117 CTAAGG-
1 TTAGGGT
*
11254123 TTAGGGG
1 TTAGGGT
11254130 TTAGGGGT
1 TTA-GGGT
*
11254138 TAAGGGT
1 TTAGGGT
11254145 TT-GGGAT
1 TTAGGG-T
*
11254152 TT-GGGG
1 TTAGGGT
*
11254158 TTGGTGGT
1 TTAG-GGT
*
11254166 TTGGGGT
1 TTAGGGT
*
11254173 TTGGGGT
1 TTAGGGT
*
11254180 TT-GTGAT
1 TTAG-GGT
11254187 TTAGGGT
1 TTAGGGT
*
11254194 TTAAGGT
1 TTAGGGT
11254201 TTCAGGGTT
1 TT-AGGG-T
11254210 TTAGGGT
1 TTAGGGT
*
11254217 TT-GGGA
1 TTAGGGT
*
11254223 TTAAGGT
1 TTAGGGT
11254230 TTAGAGGT
1 TTAG-GGT
11254238 T
1 T
11254239 AAGGACTTAG
Statistics
Matches: 119, Mismatches: 25, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
6 20 0.17
7 73 0.61
8 23 0.19
9 3 0.03
ACGTcount: A:0.15, C:0.01, G:0.45, T:0.39
Consensus pattern (7 bp):
TTAGGGT
Found at i:11254794 original size:16 final size:16
Alignment explanation
Indices: 11254773--11254808 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11254763 ACTTAGTAAT
* *
11254773 TAAAAGATACAATTAA
1 TAAAAGATAAAATAAA
11254789 TAAAAGATAAAATAAA
1 TAAAAGATAAAATAAA
11254805 TAAA
1 TAAA
11254809 GAAATGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (16 bp):
TAAAAGATAAAATAAA
Found at i:11255125 original size:11 final size:11
Alignment explanation
Indices: 11255104--11255159 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
11255094 CACTTAGCCG
*
11255104 AAATTTCCCCC
1 AAATTTTCCCC
*
11255115 AAATTATCCCC
1 AAATTTTCCCC
* *
11255126 AAAATTCCCCC
1 AAATTTTCCCC
11255137 AAATTTTCCCCC
1 AAATTTT-CCCC
11255149 AAATTTTCCCC
1 AAATTTTCCCC
11255160 CAAAAATCCC
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
11 26 0.70
12 11 0.30
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATTTTCCCC
Found at i:11255136 original size:22 final size:24
Alignment explanation
Indices: 11255104--11255163 Score: 81
Period size: 22 Copynumber: 2.6 Consensus size: 24
11255094 CACTTAGCCG
11255104 AAAT-TTCCCCCAAATTAT-CCCC
1 AAATATTCCCCCAAATTATCCCCC
*
11255126 AAA-ATTCCCCCAAATTTTCCCCC
1 AAATATTCCCCCAAATTATCCCCC
*
11255149 AAATTTTCCCCCAAA
1 AAATATTCCCCCAAA
11255164 AATCCCTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 16 0.48
23 7 0.21
24 10 0.30
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATATTCCCCCAAATTATCCCCC
Found at i:11255169 original size:11 final size:12
Alignment explanation
Indices: 11255107--11255163 Score: 82
Period size: 12 Copynumber: 4.9 Consensus size: 12
11255097 TTAGCCGAAA
11255107 TTTCCCCCAAAT
1 TTTCCCCCAAAT
*
11255119 TAT-CCCCAAA-
1 TTTCCCCCAAAT
*
11255129 ATTCCCCCAAAT
1 TTTCCCCCAAAT
11255141 TTTCCCCCAAAT
1 TTTCCCCCAAAT
11255153 TTTCCCCCAAA
1 TTTCCCCCAAA
11255164 AATCCCTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 1 0.03
11 14 0.36
12 24 0.62
ACGTcount: A:0.30, C:0.42, G:0.00, T:0.28
Consensus pattern (12 bp):
TTTCCCCCAAAT
Found at i:11255650 original size:22 final size:23
Alignment explanation
Indices: 11255625--11255684 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
11255615 TTTTGCAGGC
11255625 TTGTAATACTGTTTGTTCATAA-
1 TTGTAATACTGTTTGTTCATAAG
* *
11255647 TTGTTACTAAT-TTTGTTCATAAG
1 TTG-TAATACTGTTTGTTCATAAG
11255670 TT-TGAA-ACTGTTTGT
1 TTGT-AATACTGTTTGT
11255685 ATTACAGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
21 3 0.10
22 20 0.67
23 7 0.23
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (23 bp):
TTGTAATACTGTTTGTTCATAAG
Found at i:11255881 original size:14 final size:14
Alignment explanation
Indices: 11255849--11255875 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11255839 TTGAAACTTT
11255849 AAATTTAAATTTTA
1 AAATTTAAATTTTA
11255863 AAATTTAAATTTT
1 AAATTTAAATTTT
11255876 GTAATTATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATTTAAATTTTA
Found at i:11257051 original size:27 final size:24
Alignment explanation
Indices: 11257021--11257218 Score: 75
Period size: 22 Copynumber: 8.4 Consensus size: 24
11257011 ATAATAAATT
11257021 TTATATTTTTAAAACTAATTGTACATG
1 TTATATTTTT-AAA-TAATT-TACATG
*
11257048 TTAT-TTTTCTAAAT-ATTAACAT-
1 TTATATTTT-TAAATAATTTACATG
* * * *
11257070 ATATA-TTTTCAATAA--TAAATT
1 TTATATTTTTAAATAATTTACATG
11257091 TTATATTTTTAAAACTAATTGTACATG
1 TTATATTTTT-AAA-TAATT-TACATG
*
11257118 TTAT-TTTTCTAAAT-ATTAACAT-
1 TTATATTTT-TAAATAATTTACATG
* * * *
11257140 ATATA-TTTTCAATAA--TAAATT
1 TTATATTTTTAAATAATTTACATG
11257161 TTATATTTTTAAAACTAATTGTACATG
1 TTATATTTTT-AAA-TAATT-TACATG
*
11257188 TTAT-TTTTCTAAAT-ATTAACAT-
1 TTATATTTT-TAAATAATTTACATG
*
11257210 ATATATTTT
1 TTATATTTT
11257219 CAATAGTAAA
Statistics
Matches: 129, Mismatches: 20, Indels: 48
0.65 0.10 0.24
Matches are distributed among these distances:
20 6 0.05
21 16 0.12
22 25 0.19
23 20 0.16
24 15 0.12
25 3 0.02
26 21 0.16
27 23 0.18
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (24 bp):
TTATATTTTTAAATAATTTACATG
Found at i:11257076 original size:49 final size:46
Alignment explanation
Indices: 11257022--11257218 Score: 115
Period size: 49 Copynumber: 4.2 Consensus size: 46
11257012 TAATAAATTT
*
11257022 TATATTTTTAAAACTAATTGTACATGTTATTTTTCTAAATATTAACATA
1 TATATTTTTAAAA-TAATT-TACAT-ATATTTTTCTAAATATTAACATA
* * * *
11257071 TATATTTTCAATAATAAATTT---TATATTTTT-AAAACTAATTGTACATG
1 TATATTTTTAA-AAT-AATTTACATATATTTTTCTAAA-T-ATT-AACATA
* * * *
11257118 T-TATTTTTCTAAAT-ATTAACATATATATTTTC--AATAATAA-ATTT
1 TATATTTTT-AAAATAATTTACATATAT-TTTTCTAAATATTAACA-TA
*
11257162 TATATTTTTAAAACTAATTGTACATGTTATTTTTCTAAATATTAACATA
1 TATATTTTTAAAA-TAATT-TACAT-ATATTTTTCTAAATATTAACATA
11257211 TATATTTT
1 TATATTTT
11257219 CAATAGTAAA
Statistics
Matches: 112, Mismatches: 16, Indels: 40
0.67 0.10 0.24
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 18 0.16
46 17 0.15
47 22 0.20
48 7 0.06
49 28 0.25
50 7 0.06
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (46 bp):
TATATTTTTAAAATAATTTACATATATTTTTCTAAATATTAACATA
Found at i:11257294 original size:57 final size:59
Alignment explanation
Indices: 11257232--11257371 Score: 172
Period size: 69 Copynumber: 2.2 Consensus size: 59
11257222 TAGTAAATTT
11257232 TATAATTTTAGAAATTATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTCAATAATAA
1 TATAATTTTAGAAATTATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTC-------A
11257297 A
59 A
11257298 TTTTATAATTTTAGAAATTATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTCAA
1 ---TATAATTTTAGAAATTATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTCAA
11257360 TAATAAATTTTA
1 T-AT-AATTTTA
11257372 TAATTTTAGA
Statistics
Matches: 69, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
59 1 0.01
60 2 0.03
61 7 0.10
62 2 0.03
69 57 0.83
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (59 bp):
TATAATTTTAGAAATTATTGTAAATGTTATTTTCTAAATATTAACATCTATATTTTCAA
Found at i:11257298 original size:69 final size:70
Alignment explanation
Indices: 11257002--11257398 Score: 608
Period size: 70 Copynumber: 5.7 Consensus size: 70
11256992 TTATATTTAA
* *
11257002 ATATTGTT-AATAATAAATTTTATATTTTTAAAACTAATTGTACATGTTATTTTTCTAAATATTA
1 ATATT-TTCAATAATAAATTTTATAATTTTAAAACTAATTGTAAATGTTATTTTTCTAAATATTA
11257066 ACATAT
65 ACATAT
* *
11257072 ATATTTTCAATAATAAATTTTATATTTTTAAAACTAATTGTACATGTTATTTTTCTAAATATTAA
1 ATATTTTCAATAATAAATTTTATAATTTTAAAACTAATTGTAAATGTTATTTTTCTAAATATTAA
11257137 CATAT
66 CATAT
* *
11257142 ATATTTTCAATAATAAATTTTATATTTTTAAAACTAATTGTACATGTTATTTTTCTAAATATTAA
1 ATATTTTCAATAATAAATTTTATAATTTTAAAACTAATTGTAAATGTTATTTTTCTAAATATTAA
11257207 CATAT
66 CATAT
* *
11257212 ATATTTTCAATAGTAAATTTTATAATTTTAGAAA-TTATTGTAAATGTTA-TTTTCTAAATATTA
1 ATATTTTCAATAATAAATTTTATAATTTTA-AAACTAATTGTAAATGTTATTTTTCTAAATATTA
*
11257275 ACATCT
65 ACATAT
*
11257281 ATATTTTCAATAATAAATTTTATAATTTTAGAAA-TTATTGTAAATGTTA-TTTTCTAAATATTA
1 ATATTTTCAATAATAAATTTTATAATTTTA-AAACTAATTGTAAATGTTATTTTTCTAAATATTA
*
11257344 ACATCT
65 ACATAT
*
11257350 ATATTTTCAATAATAAATTTTATAATTTTAGAAA-GAATTGTAAATGTTA
1 ATATTTTCAATAATAAATTTTATAATTTTA-AAACTAATTGTAAATGTTA
11257399 CATAATTCAA
Statistics
Matches: 317, Mismatches: 8, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
69 136 0.43
70 178 0.56
71 3 0.01
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (70 bp):
ATATTTTCAATAATAAATTTTATAATTTTAAAACTAATTGTAAATGTTATTTTTCTAAATATTAA
CATAT
Found at i:11257649 original size:16 final size:16
Alignment explanation
Indices: 11257626--11258094 Score: 115
Period size: 16 Copynumber: 28.9 Consensus size: 16
11257616 GTCGGACTTC
*
11257626 CATAACTTATATAATA
1 CATAACTTACATAATA
*
11257642 CTTAACTTACATAATA
1 CATAACTTACATAATA
11257658 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
11257675 CATAA--TA-AGT--TA
1 CATAACTTACA-TAATA
*
11257687 CATAA--T--ATTATA
1 CATAACTTACATAATA
*
11257699 CATAACTCACATAACTA
1 CATAACTTACATAA-TA
*
11257716 AATGAA-TT-CATATTATA
1 CAT-AACTTACATA--ATA
* ** * *
11257733 CATTAACTTGTCGGACTTG
1 CA-TAACTT-ACATA-ATA
*
11257752 CATAACTTATATAATA
1 CATAACTTACATAATA
*
11257768 CTTAACTTACATAACTTA
1 CATAACTTACATAA--TA
*
11257786 CTTAACTTACATAATA
1 CATAACTTACATAATA
11257802 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
11257819 CATAA--TA-AGT--TA
1 CATAACTTACA-TAATA
*
11257831 CATAA--T--ATTATA
1 CATAACTTACATAATA
*
11257843 CATAACTCACATAACTA
1 CATAACTTACATAA-TA
*
11257860 AATGAA-TTA-ATATTATA
1 CAT-AACTTACATA--ATA
* ** * *
11257877 CATTAACTTGTCGGACTTG
1 CA-TAACTT-ACATA-ATA
*
11257896 CATAACTTATATAATA
1 CATAACTTACATAATA
*
11257912 CTTAACTTACATAACTTA
1 CATAACTTACATAA--TA
*
11257930 CATAA-TAACATAATA
1 CATAACTTACATAATA
* *
11257945 -AGTTACATA-ATATTATA
1 CA-TAACTTACATA--ATA
*
11257962 CATAACTCACATAACTA
1 CATAACTTACATAA-TA
* * * *
11257979 AATTAATTTATATTATA
1 CA-TAACTTACATAATA
* ** * *
11257996 CATTAACTTGTCGGACTTG
1 CA-TAACTT-ACATA-ATA
*
11258015 CATAACTTATATAATA
1 CATAACTTACATAATA
*
11258031 CTTAACTTACATAACTTA
1 CATAACTTACATAA--TA
11258049 CATAACTTACATAATA
1 CATAACTTACATAATA
*
11258065 CATAACTTACGTAATA
1 CATAACTTACATAATA
*
11258081 CGTAACTTACATAA
1 CATAACTTACATAA
11258095 CTCATATATA
Statistics
Matches: 330, Mismatches: 75, Indels: 96
0.66 0.15 0.19
Matches are distributed among these distances:
10 2 0.01
11 2 0.01
12 28 0.08
13 2 0.01
14 3 0.01
15 13 0.04
16 127 0.38
17 62 0.19
18 79 0.24
19 9 0.03
20 3 0.01
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.35
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:11257650 original size:126 final size:126
Alignment explanation
Indices: 11257555--11258069 Score: 408
Period size: 126 Copynumber: 4.0 Consensus size: 126
11257545 CTTATATAGA
* * *
11257555 AACTTATATAACAACT-TGCATAACTCACATAACTAAATCAATTTATATTATACATTAACTTGTC
1 AACTTACATAA-AACTATACATAACTCACATAACTAAATCAATTCATATTATACATTAACTTGTC
11257619 GGACTTCCATAACTTATATAATACTTAACTTACATAATACATAACTTACATAATAACATAAT
65 GGACTTCCATAACTTATATAATACTTAACTTACATAATACATAACTTACATAATAACATAAT
* * * *
11257681 AAGTTACATAATATTATACATAACTCACATAACTAAATGAATTCATATTATACATTAACTTGTCG
1 AACTTACATAAAACTATACATAACTCACATAACTAAATCAATTCATATTATACATTAACTTGTCG
* *
11257746 GACTTGCATAACTTATATAATACTTAACTTACATAACTTACTTAACTTACATAAT-AC---AT
66 GACTTCCATAACTTATATAATACTTAACTTACATAA--TACATAACTTACATAATAACATAAT
* * * * * * * *
11257805 AACTTACATAATAAC-ATA-ATAAGTTACATAA-TATTATACATAACTCACATAACTAAATGAA-
1 AACTTACATAA-AACTATACATAACTCACATAACTA-AAT-C--AATTCATATTA-TACATTAAC
* * * * ** * * * * *
11257866 TTAAT---ATTATACATTAACTTGTCGGACTTGCATAACTTATATAATACTTAACTTACATAACT
60 TT-GTCGGACT-TCCA-TAACTTAT-ATA-ATACTTAACTTACATAATACATAAC---------T
11257928 TACATAATAACATAAT
111 TACATAATAACATAAT
* * * * *
11257944 AAGTTACATAATATTATACATAACTCACATAACTAAATTAATTTATATTATACATTAACTTGTCG
1 AACTTACATAAAACTATACATAACTCACATAACTAAATCAATTCATATTATACATTAACTTGTCG
*
11258009 GACTTGCATAACTTATATAATACTTAACTTACATAACTTACATAACTTACATAAT-ACATAA
66 GACTTCCATAACTTATATAATACTTAACTTACATAA--TACATAACTTACATAATAACATAA
11258070 CTTACGTAAT
Statistics
Matches: 298, Mismatches: 55, Indels: 71
0.70 0.13 0.17
Matches are distributed among these distances:
122 2 0.01
123 13 0.04
124 17 0.06
125 6 0.02
126 115 0.39
127 16 0.05
128 38 0.13
135 22 0.07
136 10 0.03
137 23 0.08
138 4 0.01
139 17 0.06
140 13 0.04
141 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.36
Consensus pattern (126 bp):
AACTTACATAAAACTATACATAACTCACATAACTAAATCAATTCATATTATACATTAACTTGTCG
GACTTCCATAACTTATATAATACTTAACTTACATAATACATAACTTACATAATAACATAAT
Found at i:11257812 original size:9 final size:9
Alignment explanation
Indices: 11257747--11257815 Score: 74
Period size: 9 Copynumber: 8.1 Consensus size: 9
11257737 AACTTGTCGG
*
11257747 ACTTGCATA
1 ACTTACATA
*
11257756 ACTTATATA
1 ACTTACATA
*
11257765 A--TACTTA
1 ACTTACATA
11257772 ACTTACATA
1 ACTTACATA
*
11257781 ACTTACTTA
1 ACTTACATA
11257790 ACTTACATA
1 ACTTACATA
11257799 A--TACATA
1 ACTTACATA
11257806 ACTTACATA
1 ACTTACATA
11257815 A
1 A
11257816 TAACATAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
7 12 0.24
9 37 0.76
ACGTcount: A:0.43, C:0.19, G:0.01, T:0.36
Consensus pattern (9 bp):
ACTTACATA
Found at i:11257883 original size:110 final size:111
Alignment explanation
Indices: 11257760--11258053 Score: 330
Period size: 119 Copynumber: 2.6 Consensus size: 111
11257750 TGCATAACTT
*
11257760 ATATAATAC-TTAACTT-ACATAACTTACTTAACTTACATAATACATAACTTACATAATAACATA
1 ATATTATACATTAACTTGACATAACTTACTTAACTTACATAATACATAACTTACATAATAACATA
11257823 ATAAGTTACATAATATTATACATAACTCACATAACTAAATGAATTA
66 ATAAGTTACATAATATTATACATAACTCACATAACTAAATGAATTA
*
11257869 ATATTATACATTAACTTGTCGGACTTGCATAACTTA-TATAA--TACTTAACTTACATAACTTAC
1 ATATTATACATTAAC-T-T--GA----CATAACTTACT-TAACTTACATAA--TACATAACTTAC
* *
11257931 ATAATAACATAATAAGTTACATAATATTATACATAACTCACATAACTAAATTAATTT
55 ATAATAACATAATAAGTTACATAATATTATACATAACTCACATAACTAAATGAATTA
* ** * * * * *
11257988 ATATTATACATTAACTTGTC-GGACTTGCATAACTTATATAATACTTAACTTACATAACTTACAT
1 ATATTATACATTAACTTGACATAACTTACTTAACTTACATAATACATAACTTACATAA-TAACAT
11258052 AA
65 AA
11258054 CTTACATAAT
Statistics
Matches: 155, Mismatches: 13, Indels: 32
0.77 0.06 0.16
Matches are distributed among these distances:
109 8 0.05
110 27 0.17
111 9 0.06
112 6 0.04
115 2 0.01
117 7 0.05
118 2 0.01
119 94 0.61
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.36
Consensus pattern (111 bp):
ATATTATACATTAACTTGACATAACTTACTTAACTTACATAATACATAACTTACATAATAACATA
ATAAGTTACATAATATTATACATAACTCACATAACTAAATGAATTA
Found at i:11257931 original size:119 final size:119
Alignment explanation
Indices: 11257800--11258064 Score: 494
Period size: 119 Copynumber: 2.2 Consensus size: 119
11257790 ACTTACATAA
11257800 TACATAACTTACATAATAACATAATAAGTTACATAATATTATACATAACTCACATAACTAAATGA
1 TACATAACTTACATAATAACATAATAAGTTACATAATATTATACATAACTCACATAACTAAATGA
11257865 ATTAATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATACTTAACT
66 ATTAATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATACTTAACT
*
11257919 TACATAACTTACATAATAACATAATAAGTTACATAATATTATACATAACTCACATAACTAAATTA
1 TACATAACTTACATAATAACATAATAAGTTACATAATATTATACATAACTCACATAACTAAATGA
*
11257984 ATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATACTTAACT
66 ATTAATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATACTTAACT
*
11258038 TACATAACTTACATAACTTACATAATA
1 TACATAACTTACATAA-TAACATAATA
11258065 CATAACTTAC
Statistics
Matches: 142, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
119 133 0.94
120 9 0.06
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (119 bp):
TACATAACTTACATAATAACATAATAAGTTACATAATATTATACATAACTCACATAACTAAATGA
ATTAATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATACTTAACT
Found at i:11258007 original size:263 final size:267
Alignment explanation
Indices: 11257573--11258080 Score: 898
Period size: 263 Copynumber: 1.9 Consensus size: 267
11257563 TAACAACTTG
*
11257573 CATAACTCACATAACTAAATCAATTTATATTATACATTAACTTGTCGGACTTCCATAACTTATAT
1 CATAACTCACATAACTAAATCAATTAATATTATACATTAACTTGTCGGACTTCCATAACTTATAT
11257638 AATACTTAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAATATTATACATA
66 AATACTTAA--TACAT-ATACATAACTTACATAATAACATAATAAGTTACATAATATTATACATA
11257703 ACTCACATAACTAAATGAATTCATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATA
128 ACTCACATAACTAAATGAATTCATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATA
*
11257768 CTTAACTTACATAACTTACTTAACTTACATAATACATAACTTACATAATAACATAATAAGTTACA
193 CTTAACTTACATAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACA
11257833 TAATATTATA
258 TAATATTATA
* *
11257843 CATAACTCACATAACTAAATGAATTAATATTATACATTAACTTGTCGGACTTGCATAACTTATAT
1 CATAACTCACATAACTAAATCAATTAATATTATACATTAACTTGTCGGACTTCCATAACTTATAT
11257908 AATACTT-A-AC-T-TACATAACTTACATAATAACATAATAAGTTACATAATATTATACATAACT
66 AATACTTAATACATATACATAACTTACATAATAACATAATAAGTTACATAATATTATACATAACT
* *
11257969 CACATAACTAAATTAATTTATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATACTT
131 CACATAACTAAATGAATTCATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATACTT
*
11258034 AACTTACATAACTTACATAACTTACATAATACATAACTTACGTAATA
196 AACTTACATAACTTACATAACTTACATAATACATAACTTACATAATA
11258081 CGTAACTTAC
Statistics
Matches: 231, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
263 158 0.68
265 1 0.00
266 2 0.01
269 1 0.00
270 69 0.30
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.36
Consensus pattern (267 bp):
CATAACTCACATAACTAAATCAATTAATATTATACATTAACTTGTCGGACTTCCATAACTTATAT
AATACTTAATACATATACATAACTTACATAATAACATAATAAGTTACATAATATTATACATAACT
CACATAACTAAATGAATTCATATTATACATTAACTTGTCGGACTTGCATAACTTATATAATACTT
AACTTACATAACTTACATAACTTACATAATACATAACTTACATAATAACATAATAAGTTACATAA
TATTATA
Found at i:11258028 original size:9 final size:9
Alignment explanation
Indices: 11258010--11258096 Score: 87
Period size: 9 Copynumber: 10.3 Consensus size: 9
11258000 AACTTGTCGG
*
11258010 ACTTGCATA
1 ACTTACATA
*
11258019 ACTTATATA
1 ACTTACATA
*
11258028 A--TACTTA
1 ACTTACATA
11258035 ACTTACATA
1 ACTTACATA
11258044 ACTTACATA
1 ACTTACATA
11258053 ACTTACATA
1 ACTTACATA
11258062 A--TACATA
1 ACTTACATA
*
11258069 ACTTACGTA
1 ACTTACATA
*
11258078 A--TACGTA
1 ACTTACATA
11258085 ACTTACATA
1 ACTTACATA
11258094 ACT
1 ACT
11258097 CATATATACT
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
7 19 0.29
9 46 0.71
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (9 bp):
ACTTACATA
Found at i:11258044 original size:25 final size:25
Alignment explanation
Indices: 11258010--11258096 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
11258000 AACTTGTCGG
* *
11258010 ACTTGCATAACTTATATAATACTTA
1 ACTTACATAACTTACATAATACTTA
*
11258035 ACTTACATAACTTACATAACTTACATA
1 ACTTACATAACTTACATAA--TACTTA
* *
11258062 A--TACATAACTTACGTAATACGTA
1 ACTTACATAACTTACATAATACTTA
11258085 ACTTACATAACT
1 ACTTACATAACT
11258097 CATATATACT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
23 6 0.11
25 41 0.77
27 6 0.11
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (25 bp):
ACTTACATAACTTACATAATACTTA
Done.