Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 376 of 770
Found at i:115871021 original size:27 final size:26
Alignment explanation
Indices: 115870972--115871067 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 26
115870962 AAAAGTCGAG
*
115870972 GGTATTTCT-GTAATTTTGTAAATCAGT
1 GGTATTT-TGGTAATTTT-CAAATCAGT
*
115870999 GGTATTTTGGTAATTTTACAAATTGAG-
1 GGTATTTTGGTAATTTT-CAAA-TCAGT
*
115871026 GGTATTTCGGTAATTTCTCAAA-CTAGT
1 GGTATTTTGGTAATTT-TCAAATC-AGT
115871053 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
115871068 CTATCCTACA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
26 3 0.05
27 51 0.88
28 4 0.07
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.46
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTCAAATCAGT
Found at i:115871136 original size:27 final size:27
Alignment explanation
Indices: 115871099--115871190 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
115871089 GTAATTTCAC
115871099 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
115871126 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
115871153 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
115871180 AATCGAGGGTA
1 AATCGAGGGTA
115871191 CTTTTGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:115872847 original size:68 final size:67
Alignment explanation
Indices: 115872775--115872924 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
115872765 CATCATGTGT
* * * *
115872775 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
115872837 ATGTAG
62 ATGTAG
** * *
115872843 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
115872908 AG
66 AG
115872910 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
115872925 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:115872880 original size:64 final size:64
Alignment explanation
Indices: 115872799--115872982 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
115872789 AGACATTATG
* *
115872799 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
115872863 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
115872928 AA
63 AA
* * * *
115872930 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
115872983 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:115873159 original size:35 final size:35
Alignment explanation
Indices: 115873120--115873190 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
115873110 GTTATGTGAA
115873120 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
115873155 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
115873190 T
1 T
115873191 TATAAACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.34, T:0.32
Consensus pattern (35 bp):
TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
Found at i:115877633 original size:35 final size:35
Alignment explanation
Indices: 115877594--115877664 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
115877584 GTTATGTGAA
115877594 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
115877629 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
115877664 T
1 T
115877665 TATAAACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.34, T:0.32
Consensus pattern (35 bp):
TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
Found at i:115878583 original size:2 final size:2
Alignment explanation
Indices: 115878576--115878604 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
115878566 TCATGACATG
115878576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
115878605 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115882566 original size:16 final size:16
Alignment explanation
Indices: 115882542--115882587 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
115882532 TCGGCAGATC
*
115882542 CCAAAAAGCCGAAATA
1 CCAAAAAGCAGAAATA
* *
115882558 CCGAAAAGCAGAAATG
1 CCAAAAAGCAGAAATA
*
115882574 CCAAAAAGCTGAAA
1 CCAAAAAGCAGAAA
115882588 AACTGAAAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.54, C:0.22, G:0.17, T:0.07
Consensus pattern (16 bp):
CCAAAAAGCAGAAATA
Found at i:115882881 original size:28 final size:28
Alignment explanation
Indices: 115882810--115882916 Score: 128
Period size: 28 Copynumber: 3.8 Consensus size: 28
115882800 AGCATAACTG
***
115882810 TAAATGTGATTGGGCCTAAT-GGTTGTA
1 TAAATGTGATTGGGCCTAATGGGCCATA
* *
115882837 TAAATGTGATTTAGGCCTAATGGGCCACA
1 TAAATGTGA-TTGGGCCTAATGGGCCATA
115882866 TAAATGTGATTGGGCCTAATGGGCCATA
1 TAAATGTGATTGGGCCTAATGGGCCATA
*
115882894 TGAAAT-AGATTGGGCCTAATGGG
1 T-AAATGTGATTGGGCCTAATGGG
115882917 TTTGGATTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 9 0.13
28 44 0.64
29 16 0.23
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAATGGGCCATA
Found at i:115887344 original size:29 final size:27
Alignment explanation
Indices: 115887310--115887412 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
115887300 TACTCAATCA
*
115887310 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
115887339 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
115887368 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
115887397 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
115887413 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:115895386 original size:29 final size:28
Alignment explanation
Indices: 115895354--115895427 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
115895344 GATTCAAGCC
* *
115895354 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACAC-TAGTGCCATACAGTACAAACT
* *
115895383 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACAC-TAGTGCCATACAGTACAAACT
115895412 CGCACACTCAGTGCCA
1 CGCACACT-AGTGCCA
115895428 ATCTCGTCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (28 bp):
CGCACACTAGTGCCATACAGTACAAACT
Found at i:115896596 original size:19 final size:19
Alignment explanation
Indices: 115896564--115896609 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
115896554 ACAACATATA
* * *
115896564 ATAATGTCACATTATTTAC
1 ATAATATCAAATTATTCAC
115896583 ATAATATCAAATTATTCAC
1 ATAATATCAAATTATTCAC
115896602 ATATATAT
1 ATA-ATAT
115896610 ACTTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATATCAAATTATTCAC
Found at i:115898428 original size:27 final size:27
Alignment explanation
Indices: 115898396--115898759 Score: 407
Period size: 27 Copynumber: 13.6 Consensus size: 27
115898386 CTTTAATCGA
*
115898396 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
*
115898423 TGAAATGACTGTTTTGCCCTTATGA-GG
1 TAAAATGACTGTTTTGCCCTTAT-ATGG
* **
115898450 TAAAATGACTGTTTTACCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATATGG
*
115898477 TAAAATGACTGTTTTGCCATTATGA-GG
1 TAAAATGACTGTTTTGCCCTTAT-ATGG
*
115898504 TAAAATGA--GTATTTCCCCTTATATGG
1 TAAAATGACTGT-TTTGCCCTTATATGG
* **
115898530 TAAAATGACTGTTTTGCCTTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATATGG
**
115898557 TAAAATGACTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
115898584 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* * *
115898611 TAAAATGATTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* ***
115898638 TAAAATGACTTTTTTGCCCTTACGGGG
1 TAAAATGACTGTTTTGCCCTTATATGG
**
115898665 TAAAATGACTGTTTTGCCCTTATCA-AA
1 TAAAATGACTGTTTTGCCCTTAT-ATGG
*
115898692 TAAAATGACTGTTTTACCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
*
115898719 TAAAATGATTGTTTTGCCCTT-TATGG
1 TAAAATGACTGTTTTGCCCTTATATGG
* *
115898745 TAAGATGATTGTTTT
1 TAAAATGACTGTTTT
115898760 ACCCCTATGT
Statistics
Matches: 295, Mismatches: 33, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
25 3 0.01
26 39 0.13
27 250 0.85
28 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATGG
Found at i:115902455 original size:27 final size:27
Alignment explanation
Indices: 115902150--115902451 Score: 412
Period size: 27 Copynumber: 11.2 Consensus size: 27
115902140 GACCCTTGAT
*
115902150 TGTTTTGCCCTTATGAGGTAAAATGAC
1 TGTTTTGCCCTTATGGGGTAAAATGAC
* *
115902177 TGTTTTGCCCTTAT-GAGAAAAATGAC
1 TGTTTTGCCCTTATGGGGTAAAATGAC
* *
115902203 TGTTTTTCCCTTATGTGGTAAAATGAC
1 TGTTTTGCCCTTATGGGGTAAAATGAC
*
115902230 TGTTTTTCCCTTATGGGGTAAAATGAC
1 TGTTTTGCCCTTATGGGGTAAAATGAC
* * *
115902257 TATTTTGCCCTTATGGGGTAAACTGAT
1 TGTTTTGCCCTTATGGGGTAAAATGAC
* * *
115902284 TGTTTTGCCGTTATGTGGTAAAATGAT
1 TGTTTTGCCCTTATGGGGTAAAATGAC
115902311 TGTTTTGCCCTTATGGGGTAAAATGAC
1 TGTTTTGCCCTTATGGGGTAAAATGAC
*
115902338 TGTTTTGCCCTTATGGGGTAAAATGAT
1 TGTTTTGCCCTTATGGGGTAAAATGAC
*
115902365 TGTTTTGCCCTTA-GAGGGTAAAATGAT
1 TGTTTTGCCCTTATG-GGGTAAAATGAC
115902392 TGTTTTGCCCTTA-GAGGGTAAAATGAC
1 TGTTTTGCCCTTATG-GGGTAAAATGAC
* * *
115902419 TGTTTTACCCTTATGCGGTAATATGAC
1 TGTTTTGCCCTTATGGGGTAAAATGAC
115902446 TGTTTT
1 TGTTTT
115902452 ACCCATGTGT
Statistics
Matches: 248, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
26 23 0.09
27 224 0.90
28 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.40
Consensus pattern (27 bp):
TGTTTTGCCCTTATGGGGTAAAATGAC
Found at i:115907275 original size:22 final size:22
Alignment explanation
Indices: 115907244--115907287 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
115907234 ATAGGAAAGA
*
115907244 AAACTACATAAGCATATAATGC
1 AAACTACATAAGCACATAATGC
*
115907266 AAACTTCATAAGCACATAATGC
1 AAACTACATAAGCACATAATGC
115907288 TTAGTAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (22 bp):
AAACTACATAAGCACATAATGC
Found at i:115908888 original size:70 final size:71
Alignment explanation
Indices: 115908742--115908904 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
115908732 GAGATGTATC
115908742 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
115908807 AGGACA
66 AGGACA
115908813 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAG-TAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
115908877 AGGACA
66 AGGACA
115908883 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
115908905 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 54 0.59
71 38 0.41
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:115916348 original size:41 final size:41
Alignment explanation
Indices: 115916303--115916420 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
115916293 TGAAAGATAA
115916303 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
115916344 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
115916374 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
115916415 ATGTAG
1 ATGTAG
115916421 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:115916359 original size:71 final size:71
Alignment explanation
Indices: 115916271--115916434 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
115916261 GAGATGTATC
115916271 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
115916336 AGGACA
66 AGGACA
115916342 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
115916407 AGGACA
66 AGGACA
115916413 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
115916435 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:115920596 original size:52 final size:51
Alignment explanation
Indices: 115920477--115920653 Score: 243
Period size: 52 Copynumber: 3.5 Consensus size: 51
115920467 GGATACCCAA
* * * *
115920477 TGGCCTGCACATAGTACCACTCTTGT-AGTCAAAGCTACCTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTACTTTCTTCACAAAG
115920528 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTAACTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCT-ACTTTCTTCACAAAG
* * * *
115920580 TGGCCTTCACACAGTACCACACTTGTGACC-AAGCGA-TATCTTCTCAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACTTTCTTCACAAAG
115920629 TGGCCTTCACATAGTACCACACTTG
1 TGGCCTTCACATAGTACCACACTTG
115920654 AGTCACTAGT
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
49 35 0.30
50 1 0.01
51 35 0.30
52 44 0.38
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACTTTCTTCACAAAG
Found at i:115923350 original size:42 final size:43
Alignment explanation
Indices: 115923293--115923396 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
115923283 GCTTCTATCT
* * * *
115923293 CAGACAGGGTCTTACAC-TAAA-TCAGATACGATGTCTATGTCC
1 CAGACATGGTCTTACACGTAAACTCAAAT-CGAGGCCTATGTCC
* *
115923335 CAGGCATGGTCTTACACGTAAATCTCAAATCGAGGCCTGTGTCC
1 CAGACATGGTCTTACACGTAAA-CTCAAATCGAGGCCTATGTCC
115923379 CAGACATGGTCTTACACG
1 CAGACATGGTCTTACACG
115923397 ATATCTCAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 15 0.29
43 4 0.08
44 28 0.54
45 5 0.10
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (43 bp):
CAGACATGGTCTTACACGTAAACTCAAATCGAGGCCTATGTCC
Found at i:115928447 original size:61 final size:62
Alignment explanation
Indices: 115928346--115928474 Score: 215
Period size: 61 Copynumber: 2.1 Consensus size: 62
115928336 CATAGATATC
*
115928346 ACATGATATTAATGCATAAGAAAAACAAAAATTTATCTCTTATAGAGGTCTCCAAGACCTAAG
1 ACAT-ATATTAATGCATAAGAAAAACAAAAATTTATCTCTTATAGAAGTCTCCAAGACCTAAG
* *
115928409 ACATATATTAATGCATAA-CAAAACAACAATTTATCTCTTATAGAAGTCTCCAAGACCTAAG
1 ACATATATTAATGCATAAGAAAAACAAAAATTTATCTCTTATAGAAGTCTCCAAGACCTAAG
115928470 ACATA
1 ACATA
115928475 CTTTTAGAAG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
61 45 0.71
62 14 0.22
63 4 0.06
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (62 bp):
ACATATATTAATGCATAAGAAAAACAAAAATTTATCTCTTATAGAAGTCTCCAAGACCTAAG
Found at i:115929789 original size:42 final size:43
Alignment explanation
Indices: 115929707--115929808 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
115929697 TCCCGAATGT
* * * *
115929707 GGTCTTACATGTAATTCAGTATCGATGCTTCTGTCTCAGACAG
1 GGTCTTACATGTAAATCAGTATCGATGCCTATGTCCCAGACAG
*
115929750 GGTCTTACATG-AAATCAG-ATACGATGCCTATGTCCCAGACAT
1 GGTCTTACATGTAAATCAGTAT-CGATGCCTATGTCCCAGACAG
* *
115929792 AGTCTTACACGTAAATC
1 GGTCTTACATGTAAATC
115929809 TCAAATCGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.04
42 32 0.64
43 16 0.32
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGTATCGATGCCTATGTCCCAGACAG
Found at i:115933432 original size:12 final size:12
Alignment explanation
Indices: 115933415--115933444 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
115933405 AGCCACACGC
115933415 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
115933427 CCGTGTGCTAGG
1 CCGTGTGCCAGG
115933439 CCGTGT
1 CCGTGT
115933445 AATTGCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:115934432 original size:41 final size:41
Alignment explanation
Indices: 115934363--115934518 Score: 159
Period size: 41 Copynumber: 3.8 Consensus size: 41
115934353 TTGAACCGAG
* * * *
115934363 GTACAAACAGGAGCACGTATGTGTAATTTAGGGGTACCAAA
1 GTACAAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAA
* * * *
115934404 GTATAAATAAGGGCACGTATGTGCAATTTAGGGGTACCAAT
1 GTACAAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAA
* * * ** * *
115934445 GCACAAACAGGGGCATGTATGTGCAATTCAAAGGTATCGAA
1 GTACAAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAA
* *
115934486 GTACAAATTGGGGCACGTATGTGTAATTCAGGG
1 GTACAAATAGGGGCACGTATGTGCAATTCAGGG
115934519 AATTATTAAC
Statistics
Matches: 91, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (41 bp):
GTACAAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAA
Found at i:115934467 original size:82 final size:82
Alignment explanation
Indices: 115934365--115934518 Score: 191
Period size: 82 Copynumber: 1.9 Consensus size: 82
115934355 GAACCGAGGT
* * ** *
115934365 ACAAACAGGAGCACGTATGTGTAATTTAGGGGTACCAAAGTATAAATAAGGGCACGTATGTGCAA
1 ACAAACAGGAGCACGTATGTGCAATTCAAAGGTACCAAAGTACAAATAAGGGCACGTATGTGCAA
*
115934430 TTTAGGGGTACCAATGC
66 TTCAGGGGTACCAATGC
* * * * ** *
115934447 ACAAACAGGGGCATGTATGTGCAATTCAAAGGTATCGAAGTACAAATTGGGGCACGTATGTGTAA
1 ACAAACAGGAGCACGTATGTGCAATTCAAAGGTACCAAAGTACAAATAAGGGCACGTATGTGCAA
115934512 TTCAGGG
66 TTCAGGG
115934519 AATTATTAAC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
82 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.23
Consensus pattern (82 bp):
ACAAACAGGAGCACGTATGTGCAATTCAAAGGTACCAAAGTACAAATAAGGGCACGTATGTGCAA
TTCAGGGGTACCAATGC
Found at i:115938169 original size:28 final size:29
Alignment explanation
Indices: 115938138--115938197 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
115938128 TTTAATAGAT
* *
115938138 TTAATATTAACTT-AATTTACTACTTATC
1 TTAATATTAAATTAAATTTAATACTTATC
*
115938166 TTAATATTAAATTAAATTTAATATTTATC
1 TTAATATTAAATTAAATTTAATACTTATC
115938195 TTA
1 TTA
115938198 TAGATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAATATTAAATTAAATTTAATACTTATC
Found at i:115938205 original size:29 final size:29
Alignment explanation
Indices: 115938138--115938206 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
115938128 TTTAATAGAT
* * *
115938138 TTAATATTAACTT-AATTTACTACTTATC
1 TTAATAATAAATTAAATTTAATACTTATC
* *
115938166 TTAATATTAAATTAAATTTAATATTTATC
1 TTAATAATAAATTAAATTTAATACTTATC
115938195 TT-ATAGATAAAT
1 TTAATA-ATAAAT
115938207 ATTCTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.43
29 20 0.57
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (29 bp):
TTAATAATAAATTAAATTTAATACTTATC
Found at i:115942325 original size:30 final size:29
Alignment explanation
Indices: 115942231--115942332 Score: 111
Period size: 28 Copynumber: 3.5 Consensus size: 29
115942221 TATAGTGAAT
* *
115942231 CCGCACACTTAGTGCTATATATTTT-CAC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
*
115942259 CTCGCACACTTAGTGCTATAGAA--TCAAAC
1 C-CGCACACTTAGTGCTATA-AATTTTAAAC
* *
115942288 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
115942318 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
115942333 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
28 21 0.34
29 20 0.33
30 20 0.33
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:115944238 original size:19 final size:19
Alignment explanation
Indices: 115944211--115944252 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
115944201 TGCCCATATT
*
115944211 TTTTATTTCATATTCTCTC
1 TTTTATTTCACATTCTCTC
*
115944230 TTTTGTTTCACATTCTCTC
1 TTTTATTTCACATTCTCTC
115944249 TTTT
1 TTTT
115944253 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.21, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATTTCACATTCTCTC
Found at i:115944996 original size:12 final size:12
Alignment explanation
Indices: 115944979--115945004 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
115944969 AAGTTTTGAC
115944979 TTGAGGAATCAA
1 TTGAGGAATCAA
115944991 TTGAGGAATCAA
1 TTGAGGAATCAA
115945003 TT
1 TT
115945005 TTTGATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (12 bp):
TTGAGGAATCAA
Found at i:115945114 original size:21 final size:20
Alignment explanation
Indices: 115945077--115945115 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
115945067 TGTTACTCAA
*
115945077 CTCATATTATTTGGTACTGT
1 CTCATATTATTTAGTACTGT
*
115945097 CTCATATTTTTTTAGTACT
1 CTCATA-TTATTTAGTACT
115945116 TCAAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (20 bp):
CTCATATTATTTAGTACTGT
Found at i:115945521 original size:2 final size:2
Alignment explanation
Indices: 115945514--115945542 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
115945504 AGAAAATCAA
115945514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115945543 AAAGAGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115945716 original size:20 final size:21
Alignment explanation
Indices: 115945689--115945860 Score: 109
Period size: 20 Copynumber: 8.6 Consensus size: 21
115945679 AACATCTAGG
115945689 GAAGTACCAAAAATTATGATA
1 GAAGTACCAAAAATTATGATA
* *
115945710 GAA-TACCAATAATTATGAGA
1 GAAGTACCAAAAATTATGATA
* ** *
115945730 -AAGTGCCAAAAAAAATGA-G
1 GAAGTACCAAAAATTATGATA
115945749 GAAGTACCAAAAATT-T-ATAA
1 GAAGTACCAAAAATTATGAT-A
115945769 GAAAGTACCAAAAATTATG--A
1 G-AAGTACCAAAAATTATGATA
**
115945789 GAATGTGTCAAAAATTAT--TA
1 GAA-GTACCAAAAATTATGATA
115945809 GGAAGTACCAAAAA-TATG--A
1 -GAAGTACCAAAAATTATGATA
* * *
115945828 GGAGTTACAAAAAATTATGA-G
1 GAAG-TACCAAAAATTATGATA
115945849 GAAGTACCAAAA
1 GAAGTACCAAAA
115945861 CTTAGATGTA
Statistics
Matches: 117, Mismatches: 20, Indels: 29
0.70 0.12 0.17
Matches are distributed among these distances:
18 4 0.03
19 17 0.15
20 72 0.62
21 23 0.20
22 1 0.01
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (21 bp):
GAAGTACCAAAAATTATGATA
Found at i:115945739 original size:40 final size:41
Alignment explanation
Indices: 115945690--115945860 Score: 140
Period size: 40 Copynumber: 4.3 Consensus size: 41
115945680 ACATCTAGGG
* *
115945690 AAGTACCAAAAATTATGATAGAA-TACCAATAA-TTATGAGA
1 AAGTACCAAAAATTATGA-AGAAGTACCAAAAATTTATAAGA
* ** *
115945730 AAGTGCCAAAAAAAATGAGGAAGTACCAAAAATTTATAAGA
1 AAGTACCAAAAATTATGAAGAAGTACCAAAAATTTATAAGA
** * *
115945771 AAGTACCAAAAATTATG-AGAATGTGTCAAAAA-TTATTAGG
1 AAGTACCAAAAATTATGAAGAA-GTACCAAAAATTTATAAGA
* * * *
115945811 AAGTACCAAAAA-TATG-AGGAGTTA-CAAAAAATTATGAGG
1 AAGTACCAAAAATTATGAAGAAG-TACCAAAAATTTATAAGA
115945850 AAGTACCAAAA
1 AAGTACCAAAA
115945861 CTTAGATGTA
Statistics
Matches: 109, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
38 7 0.06
39 29 0.27
40 44 0.40
41 29 0.27
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (41 bp):
AAGTACCAAAAATTATGAAGAAGTACCAAAAATTTATAAGA
Found at i:115945801 original size:61 final size:61
Alignment explanation
Indices: 115945688--115945823 Score: 179
Period size: 61 Copynumber: 2.2 Consensus size: 61
115945678 AAACATCTAG
*
115945688 GGAAGTACCAAAAA-TTATGATAGAATACCAATAATTATGAGAAAGTGCCAAAAAAAATGA
1 GGAAGTACCAAAAATTTATGATAGAATACCAAAAATTATGAGAAAGTGCCAAAAAAAATGA
* * ** *
115945748 GGAAGTACCAAAAATTTAT-A-AGAAAGTACCAAAAATTATGAGAATGTGTCAAAAATTATTA
1 GGAAGTACCAAAAATTTATGATAG-AA-TACCAAAAATTATGAGAAAGTGCCAAAAAAAATGA
115945809 GGAAGTACCAAAAAT
1 GGAAGTACCAAAAAT
115945824 ATGAGGAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
59 2 0.03
60 17 0.25
61 48 0.72
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (61 bp):
GGAAGTACCAAAAATTTATGATAGAATACCAAAAATTATGAGAAAGTGCCAAAAAAAATGA
Found at i:115945936 original size:19 final size:19
Alignment explanation
Indices: 115945887--115945937 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
115945877 ATTATGCGAG
115945887 AATACTAAAAAAACACAAGA
1 AATAC-AAAAAAACACAAGA
* *
115945907 AAGTACCAAAAAA-ATAAGTA
1 AA-TACAAAAAAACACAAG-A
115945927 AATACAAAAAA
1 AATACAAAAAA
115945938 TTATGAGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 12 0.46
20 11 0.42
21 3 0.12
ACGTcount: A:0.71, C:0.12, G:0.06, T:0.12
Consensus pattern (19 bp):
AATACAAAAAAACACAAGA
Found at i:115945955 original size:20 final size:18
Alignment explanation
Indices: 115945928--115945995 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 18
115945918 AAATAAGTAA
115945928 ATACAAAAAATTATGAGGG
1 ATACAAAAAATTATGA-GG
*
115945947 ATACGAAAAAAGTATGAGG
1 ATAC-AAAAAATTATGAGG
*
115945966 ATGCACAAAAAATTATGAAG
1 AT--ACAAAAAATTATGAGG
*
115945986 ATATAAAAAA
1 ATACAAAAAA
115945996 AATTTATGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 7 0.17
19 8 0.19
20 25 0.60
21 2 0.05
ACGTcount: A:0.57, C:0.06, G:0.18, T:0.19
Consensus pattern (18 bp):
ATACAAAAAATTATGAGG
Found at i:115945996 original size:40 final size:41
Alignment explanation
Indices: 115945930--115946006 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
115945920 ATAAGTAAAT
* **
115945930 ACAAAAAATTATGAGGGATACGAAAAAA-GTATGAGGATGC
1 ACAAAAAATTATGAGAGATAAAAAAAAATGTATGAGGATGC
*
115945970 ACAAAAAATTATGA-AGATATAAAAAAAATTTATGAGG
1 ACAAAAAATTATGAGAGATA-AAAAAAAATGTATGAGG
115946007 GATGGAAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
39 4 0.13
40 20 0.65
41 7 0.23
ACGTcount: A:0.55, C:0.05, G:0.19, T:0.21
Consensus pattern (41 bp):
ACAAAAAATTATGAGAGATAAAAAAAAATGTATGAGGATGC
Found at i:115948974 original size:18 final size:18
Alignment explanation
Indices: 115948951--115948985 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
115948941 TACAAAAATT
*
115948951 AAAAAATGAAATTAAACG
1 AAAAAATAAAATTAAACG
115948969 AAAAAATAAAATTAAAC
1 AAAAAATAAAATTAAAC
115948986 AGTCCATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAAATAAAATTAAACG
Found at i:115950440 original size:32 final size:32
Alignment explanation
Indices: 115950350--115950466 Score: 100
Period size: 32 Copynumber: 3.7 Consensus size: 32
115950340 TTATCATATA
*
115950350 TTAT-TTTATTATATATTTATATT-TTATGTTAT
1 TTATCTTTATCATATA-TTAT-TTATTATGTTAT
* *
115950382 GTTGTCTATTAT-ATATATTATCTATTAT-TTAT
1 -TTATCT-TTATCATATATTATTTATTATGTTAT
* *
115950414 TTATATTTTATCATATATTATTTATTATGTTGT
1 TTAT-CTTTATCATATATTATTTATTATGTTAT
*
115950447 TTATCTTTATC-TTTATTATT
1 TTATCTTTATCATATATTATT
115950467 ATAATTTTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
31 15 0.21
32 27 0.39
33 18 0.26
34 6 0.09
35 4 0.06
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (32 bp):
TTATCTTTATCATATATTATTTATTATGTTAT
Found at i:115950440 original size:48 final size:47
Alignment explanation
Indices: 115950335--115950441 Score: 126
Period size: 48 Copynumber: 2.3 Consensus size: 47
115950325 ATATATAAAA
* **
115950335 ATTATTTATCATATATTATTTTATTATATATTTATATTTTATGTTAT
1 ATTATTTATTATATATTATTTTATTATATATTTATATTTTATCATAT
* * * *
115950382 GTTGTCTATTATATA-TATTATCTATTATTTATTTATATTTTATCATAT
1 ATTATTTATTATATATTATT-T-TATTATATATTTATATTTTATCATAT
115950430 ATTATTTATTAT
1 ATTATTTATTAT
115950442 GTTGTTTATC
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
46 4 0.08
47 12 0.25
48 32 0.67
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.63
Consensus pattern (47 bp):
ATTATTTATTATATATTATTTTATTATATATTTATATTTTATCATAT
Found at i:115951467 original size:37 final size:37
Alignment explanation
Indices: 115951414--115951516 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
115951404 CGAATAGTCC
*
115951414 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
115951451 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
115951488 GCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
115951517 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:115958258 original size:28 final size:28
Alignment explanation
Indices: 115958170--115958271 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
115958160 TACTCAATCA
** *
115958170 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-ACATTCAAGCT
* * * *
115958199 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACA-TTCAAGCT
115958228 CGCACACTTAGTG-CATACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
*
115958256 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
115958272 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.02
28 23 0.39
29 35 0.59
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:115963150 original size:28 final size:28
Alignment explanation
Indices: 115963110--115963179 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
115963100 ATAGTAAGTC
* *
115963110 CGCACAGTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
115963138 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
115963166 CGCACACTTAGTGC
1 CGCACACTTAGTGC
115963180 CAATCTCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:115963459 original size:60 final size:60
Alignment explanation
Indices: 115963366--115963485 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
115963356 TAATAACTTA
*
115963366 CCTTGTGTTGGGTAAAACGGTTCCAACTCGGCTACTCGTTGTTCTTTCCTTTGCCTTTGC
1 CCTTGTGTTGGGTAAAACGGTTCCAACTCGGCTACTCGATGTTCTTTCCTTTGCCTTTGC
115963426 CCTTGTGTTGGGTAAAACGGTTCCAACTCGGCTACTCGATGTTCTTTCCTTTGCCTTTGC
1 CCTTGTGTTGGGTAAAACGGTTCCAACTCGGCTACTCGATGTTCTTTCCTTTGCCTTTGC
115963486 TTGATTCTCC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.12, C:0.27, G:0.22, T:0.39
Consensus pattern (60 bp):
CCTTGTGTTGGGTAAAACGGTTCCAACTCGGCTACTCGATGTTCTTTCCTTTGCCTTTGC
Found at i:115965186 original size:30 final size:30
Alignment explanation
Indices: 115965150--115965250 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
115965140 GACAAGATTG
* * *
115965150 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
115965180 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
115965208 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
115965237 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
115965251 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:115965262 original size:29 final size:28
Alignment explanation
Indices: 115965179--115965254 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
115965169 AAAATTGTAC
* *
115965179 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
115965207 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
115965236 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
115965255 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:115966889 original size:2 final size:2
Alignment explanation
Indices: 115966882--115966919 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
115966872 GGCATACATT
115966882 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115966920 GCCGAATGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:115974748 original size:40 final size:40
Alignment explanation
Indices: 115974655--115974831 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
115974645 AAGCCAAGTA
* * *
115974655 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
115974693 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
115974733 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
115974773 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
115974813 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
115974832 TTATCATCCA
Statistics
Matches: 129, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 12 0.09
39 17 0.13
40 100 0.78
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:115982804 original size:38 final size:40
Alignment explanation
Indices: 115982759--115982916 Score: 240
Period size: 38 Copynumber: 4.1 Consensus size: 40
115982749 TCGGATTTAA
* *
115982759 CCGGATATAGCT-ACTCGCTC-AATGCCTTC-GGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
115982797 CCGGATATAGTAACTCGCAC-AATGCCTTC-GGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
115982835 CCGGATATA-TAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
115982874 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
115982913 CCGG
1 CCGG
115982917 TTATCATCCA
Statistics
Matches: 114, Mismatches: 2, Indels: 7
0.93 0.02 0.06
Matches are distributed among these distances:
37 11 0.10
38 52 0.46
39 50 0.44
40 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:115985721 original size:30 final size:30
Alignment explanation
Indices: 115985677--115985765 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
115985667 CAAAGATAAC
115985677 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
115985706 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
115985736 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
115985766 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:115985725 original size:15 final size:15
Alignment explanation
Indices: 115985677--115985756 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
115985667 CAAAGATAAC
*
115985677 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
115985691 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
115985706 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
115985721 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
115985736 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
115985751 AAGAAA
1 AAGAAA
115985757 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:115985765 original size:15 final size:15
Alignment explanation
Indices: 115985688--115985765 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
115985678 AGAAAACCGA
115985688 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
115985703 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
115985717 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
115985732 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
115985748 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
115985763 ATA
1 ATA
115985766 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:115988817 original size:46 final size:48
Alignment explanation
Indices: 115988695--115988820 Score: 163
Period size: 47 Copynumber: 2.7 Consensus size: 48
115988685 TGTAACCCGC
*
115988695 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-T-CAT
* * *
115988745 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
115988788 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
115988821 GGATGCCCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 28 0.42
47 30 0.45
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGTCAT
Found at i:115994519 original size:22 final size:20
Alignment explanation
Indices: 115994479--115994527 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
115994469 CAATTTAAAA
115994479 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
* *
115994499 TATATAAATTTATTAATATA
1 TATAAAAATTTATTAATATG
*
115994519 TGTAAAAAT
1 TATAAAAAT
115994528 AACTTTTACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:115994639 original size:20 final size:20
Alignment explanation
Indices: 115994614--115994653 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
115994604 AAATATTTTC
115994614 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
115994634 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
115994654 TCATTTTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:115994655 original size:34 final size:32
Alignment explanation
Indices: 115994604--115994667 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 32
115994594 CAAACACCAA
115994604 AAATATTTTCAGTAAATCATTTTCCAGAAAAGT
1 AAATATTTTCAGTAAATCATTTTCC-GAAAAGT
115994637 AAATCATTTTCCAG-AAATCATTTTCCGAAAA
1 AAAT-ATTTT-CAGTAAATCATTTTCCGAAAA
115994668 ACATTTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 9 0.31
34 17 0.59
35 3 0.10
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (32 bp):
AAATATTTTCAGTAAATCATTTTCCGAAAAGT
Found at i:115994656 original size:14 final size:13
Alignment explanation
Indices: 115994637--115994666 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
115994627 CCAGAAAAGT
115994637 AAATCATTTTCCAG
1 AAATCATTTTCC-G
115994651 AAATCATTTTCCG
1 AAATCATTTTCCG
115994664 AAA
1 AAA
115994667 AACATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:116001742 original size:3 final size:3
Alignment explanation
Indices: 116001728--116001765 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
116001718 TTATGATTAC
116001728 ATT ATAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
116001766 AATCATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:116002207 original size:16 final size:17
Alignment explanation
Indices: 116002186--116002219 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
116002176 CATTTTTTTG
*
116002186 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
116002202 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
116002219 C
1 C
116002220 ATTTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:116006292 original size:128 final size:128
Alignment explanation
Indices: 116006014--116006313 Score: 372
Period size: 128 Copynumber: 2.3 Consensus size: 128
116006004 CATGAAAAAC
* * * * * *
116006014 CGAAACCCAGCAC-AGTAGCGCACAATTCCTCGAATTTCTAAACATTGAACTTGCCTTGTTTTAG
1 CGAAACCCAGCACGA-TAGGGCACAATTCCTCGAATTTCCAAACATCGAACTTACCTTGTTGTAA
* *
116006078 AATTTAAAAAAAACACGAGTGAAGTTCTAAAGGAATATTTGATTATTTTGAACAAAAGGACAAT
65 AATTTAAAAAAAACACGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAAAGGACAAT
* * * * *
116006142 CGAAACCCAGCGCGGTAAGGCACGATTCCTCGAATCTCCAAACATCGAACATTACCTTGTTGTAA
1 CGAAACCCAGCACGATAGGGCACAATTCCTCGAATTTCCAAACATCGAAC-TTACCTTGTTGTAA
* * *
116006207 AATTT-AGAAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACGGGA-AAT
65 AATTTAAAAAAAACACGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAA-AGGACAAT
* * * *
116006270 CGAAACCCAGTACGATAGGGCACTATTCCCCTAATTTCCAAACA
1 CGAAACCCAGCACGATAGGGCACAATTCCTCGAATTTCCAAACA
116006314 CCAAATATTG
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
128 126 0.87
129 19 0.13
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (128 bp):
CGAAACCCAGCACGATAGGGCACAATTCCTCGAATTTCCAAACATCGAACTTACCTTGTTGTAAA
ATTTAAAAAAAACACGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAAAGGACAAT
Found at i:116007107 original size:2 final size:2
Alignment explanation
Indices: 116007100--116007126 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
116007090 TATTATAAAT
116007100 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
116007127 TAGATTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116011224 original size:26 final size:26
Alignment explanation
Indices: 116011188--116011241 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
116011178 ACAGTTTTCG
116011188 TAAAATCAACCTATTCCCATAATTCT
1 TAAAATCAACCTATTCCCATAATTCT
116011214 TAAAATCAACCTATTCCCATAATTCT
1 TAAAATCAACCTATTCCCATAATTCT
116011240 TA
1 TA
116011242 CAAAAAAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAAATCAACCTATTCCCATAATTCT
Found at i:116011678 original size:13 final size:15
Alignment explanation
Indices: 116011649--116011683 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
116011639 CGTAAGAACA
116011649 ATTTTCAAGCTATAT
1 ATTTTCAAGCTATAT
116011664 ATTTTC-AGCATATAT
1 ATTTTCAAGC-TATAT
116011679 ATTTT
1 ATTTT
116011684 TTTTGCTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (15 bp):
ATTTTCAAGCTATAT
Found at i:116012410 original size:2 final size:2
Alignment explanation
Indices: 116012403--116012429 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
116012393 AATACTCATG
116012403 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
116012430 GTATGTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116012647 original size:2 final size:2
Alignment explanation
Indices: 116012642--116012668 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
116012632 AAAAAAAATC
116012642 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
116012669 TGTTATGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116012807 original size:25 final size:23
Alignment explanation
Indices: 116012776--116012823 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
116012766 GGGGTTTGCA
116012776 GAAAGGAAAAAGGAAAAAAAATTTT
1 GAAAGG-AAAA-GAAAAAAAATTTT
* *
116012801 GAAAGGAGAAGAAAATAAATTTT
1 GAAAGGAAAAGAAAAAAAATTTT
116012824 TTATTAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 3 0.14
25 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (23 bp):
GAAAGGAAAAGAAAAAAAATTTT
Found at i:116014617 original size:19 final size:19
Alignment explanation
Indices: 116014593--116014630 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
116014583 AAAATTACGT
116014593 ATTTAAAATATAA-ATATAA
1 ATTTAAAA-ATAATATATAA
116014612 ATTTAAAAATAATATATAA
1 ATTTAAAAATAATATATAA
116014631 TAAATAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTTAAAAATAATATATAA
Found at i:116016455 original size:18 final size:18
Alignment explanation
Indices: 116016432--116016506 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
116016422 ACCGTTTACG
*
116016432 GTACTATTCATGTATACA
1 GTACTATTCACGTATACA
*
116016450 GTACTATTCACGTATACG
1 GTACTATTCACGTATACA
* * * *
116016468 GCACTATTTACGAATACG
1 GTACTATTCACGTATACA
*
116016486 GTACTGTTCACGTATACA
1 GTACTATTCACGTATACA
116016504 GTA
1 GTA
116016507 GTTGGGATTG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (18 bp):
GTACTATTCACGTATACA
Found at i:116016475 original size:36 final size:36
Alignment explanation
Indices: 116016428--116016502 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
116016418 TACGACCGTT
* * *
116016428 TACGGTACTATTCATGTATACAGTACTATTCACGTA
1 TACGGCACTATTCACGAATACAGTACTATTCACGTA
* * *
116016464 TACGGCACTATTTACGAATACGGTACTGTTCACGTA
1 TACGGCACTATTCACGAATACAGTACTATTCACGTA
116016500 TAC
1 TAC
116016503 AGTAGTTGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (36 bp):
TACGGCACTATTCACGAATACAGTACTATTCACGTA
Found at i:116024385 original size:37 final size:37
Alignment explanation
Indices: 116024326--116024434 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
116024316 AGCTCAGATG
* *
116024326 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
116024363 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
116024400 TAATCTCTACATGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
116024435 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:116024633 original size:48 final size:48
Alignment explanation
Indices: 116024575--116024967 Score: 642
Period size: 48 Copynumber: 8.0 Consensus size: 48
116024565 ATATACACAC
* *
116024575 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
116024623 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
116024671 ATCTCATAAATATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCAT--ACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
116024721 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
116024771 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
116024819 ATCTCATACATATTTTTACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATACATA-TTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
116024868 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
116024918 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
116024966 AT
1 AT
116024968 ATTTATCTTG
Statistics
Matches: 326, Mismatches: 12, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
48 152 0.47
49 39 0.12
50 127 0.39
51 6 0.02
52 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:116024920 original size:147 final size:148
Alignment explanation
Indices: 116024584--116024967 Score: 707
Period size: 147 Copynumber: 2.6 Consensus size: 148
116024574 CATCTCCTAC
* *
116024584 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
116024649 TTCGGCTTTACCACATATACATATCTCATAAATATATTTCACATTAGCCATTTGGCTTTACCACA
66 TTCGGCTTTACCACATATACATATCTCATAAATATATTTCACATTAACCATTCGGCTTTACCACA
116024714 TATACATATCTCATATAT
131 TATACATATCTCATATAT
116024732 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
116024797 TTCGGCTTTACCACATATACATATCTCATACATAT-TTTTACATTAACCATTCGGCTTTACCACA
66 TTCGGCTTTACCACATATACATATCTCATAAATATATTTCACATTAACCATTCGGCTTTACCACA
116024861 TATACATATCTCATATAT
131 TATACATATCTCATATAT
116024879 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
116024944 TTCGGCTTTACCACATATACATAT
66 TTCGGCTTTACCACATATACATAT
116024968 ATTTATCTTG
Statistics
Matches: 230, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
147 133 0.58
148 97 0.42
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (148 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATAAATATATTTCACATTAACCATTCGGCTTTACCACA
TATACATATCTCATATAT
Found at i:116027900 original size:254 final size:254
Alignment explanation
Indices: 116027451--116027967 Score: 989
Period size: 254 Copynumber: 2.0 Consensus size: 254
116027441 AAATAATTAA
116027451 AAATCAATAGCGATTAATTTTTACCAATTTTATAATTTAGTCATTGTACCTAAATTAACTATCCA
1 AAATCAATAGCGATTAATTTTTACCAATTTTATAATTTAGTCATTGTACCTAAATTAACTATCCA
116027516 ATTAACAAAATTAAGGGATCGAACTTTAATTAACTTTTATTATAATATCGTAAATATTAAAATAA
66 ATTAACAAAATTAAGGGATCGAACTTTAATTAACTTTTATTATAATATCGTAAATATTAAAATAA
116027581 TAATATTTACGAACTCAAACATTAAAAATGGGGTTCCGAAATAGCCGTTTTCAACACCACTGAAA
131 TAATATTTACGAACTCAAACATTAAAAATGGGGTTCCGAAATAGCCGTTTTCAACACCACTGAAA
*
116027646 ACGGGTTGTTATACTTCTTGGTACTTTCATGATTTAAATCAATAATCAATAGAACCAAG
196 ACGGATTGTTATACTTCTTGGTACTTTCATGATTTAAATCAATAATCAATAGAACCAAG
*
116027705 AAATCAATAGCGATTAATTTTTACCAATTTTATAATTTAGTCATTGTACCTTAATTAACTATCCA
1 AAATCAATAGCGATTAATTTTTACCAATTTTATAATTTAGTCATTGTACCTAAATTAACTATCCA
*
116027770 ATTAACAAAATTAAGGGATTGAACTTTAATTAACTTTTATTATAATATCGTAAATATTAAAATAA
66 ATTAACAAAATTAAGGGATCGAACTTTAATTAACTTTTATTATAATATCGTAAATATTAAAATAA
*
116027835 TAATATTTACGAACTCAAACATTAAAAATGGGGTTCCGTAATAGCCGTTTTCAACACCACTGAAA
131 TAATATTTACGAACTCAAACATTAAAAATGGGGTTCCGAAATAGCCGTTTTCAACACCACTGAAA
*
116027900 ATGGATTGTTATACTTCTTGGTACTTTCATGATTTAAATCAATAATCAATAGAACCAAG
196 ACGGATTGTTATACTTCTTGGTACTTTCATGATTTAAATCAATAATCAATAGAACCAAG
116027959 AAATCAATA
1 AAATCAATA
116027968 CAGTCAATAT
Statistics
Matches: 258, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
254 258 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (254 bp):
AAATCAATAGCGATTAATTTTTACCAATTTTATAATTTAGTCATTGTACCTAAATTAACTATCCA
ATTAACAAAATTAAGGGATCGAACTTTAATTAACTTTTATTATAATATCGTAAATATTAAAATAA
TAATATTTACGAACTCAAACATTAAAAATGGGGTTCCGAAATAGCCGTTTTCAACACCACTGAAA
ACGGATTGTTATACTTCTTGGTACTTTCATGATTTAAATCAATAATCAATAGAACCAAG
Found at i:116028764 original size:2 final size:2
Alignment explanation
Indices: 116028757--116028787 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
116028747 TATGTATGTG
116028757 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116028788 TGAATTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116029738 original size:142 final size:143
Alignment explanation
Indices: 116029569--116029846 Score: 459
Period size: 142 Copynumber: 2.0 Consensus size: 143
116029559 TAAATGACTG
* * *
116029569 TCATCATTATCATCCATTATCTCATAAGAAACAATGAGTCAATAACCATTTAGGTCCCTTGGTTA
1 TCATCATTATCATCCACTATCTCATAAGAAACAATAAGTCAATAACCATTTAGGTCCCTTGATTA
*
116029634 ATTACCAATTAGGTCATCAAACATTTTCCAATATAAAATTCAATAGCAATTGGAC-TTTACAATT
66 ATTACCAATTAGGTCATCAAACATTTTCCAATATAAAATTCAATAACAATTGGACTTTTACAATT
116029698 TAGTCTCTAACTA
131 TAGTCTCTAACTA
* * *
116029711 TCATCATTATCATCCACTATCTTATAAGGAACAATAAGTTAATAACCATTTAGGTCCCTTGATTA
1 TCATCATTATCATCCACTATCTCATAAGAAACAATAAGTCAATAACCATTTAGGTCCCTTGATTA
* * *
116029776 ATTACCAATTAGGTCATCAAGCATTTTCCACTATAAAATTTAATAACAATTGGACTTTTACAATT
66 ATTACCAATTAGGTCATCAAACATTTTCCAATATAAAATTCAATAACAATTGGACTTTTACAATT
116029841 TAGTCT
131 TAGTCT
116029847 TTAAACTTTA
Statistics
Matches: 125, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
142 110 0.88
143 15 0.12
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (143 bp):
TCATCATTATCATCCACTATCTCATAAGAAACAATAAGTCAATAACCATTTAGGTCCCTTGATTA
ATTACCAATTAGGTCATCAAACATTTTCCAATATAAAATTCAATAACAATTGGACTTTTACAATT
TAGTCTCTAACTA
Found at i:116032276 original size:14 final size:14
Alignment explanation
Indices: 116032257--116032285 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
116032247 TTTAGTGTAA
116032257 GAAAATAAATCCTT
1 GAAAATAAATCCTT
116032271 GAAAATAAATCCTT
1 GAAAATAAATCCTT
116032285 G
1 G
116032286 TTGTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (14 bp):
GAAAATAAATCCTT
Found at i:116034814 original size:21 final size:21
Alignment explanation
Indices: 116034788--116034832 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
116034778 AACATTGGCG
*
116034788 TGTCCCATAGCCACACGGGCA
1 TGTCCCATAGCCACACAGGCA
* *
116034809 TGTCCCTTGGCCACACAGGCA
1 TGTCCCATAGCCACACAGGCA
116034830 TGT
1 TGT
116034833 GACCCCTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.36, G:0.24, T:0.20
Consensus pattern (21 bp):
TGTCCCATAGCCACACAGGCA
Found at i:116040174 original size:25 final size:26
Alignment explanation
Indices: 116040137--116040188 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
116040127 TCAAACATGC
116040137 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
116040163 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
116040188 A
1 A
116040189 AAATGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:116041705 original size:26 final size:26
Alignment explanation
Indices: 116041669--116041828 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
116041659 ACATGAATTC
116041669 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
116041695 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
116041721 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
116041747 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
116041773 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
116041798 TTATCATGGAACATTTACCTAA-CTA
1 TTATCATGAAACATTTACCTAACCCA
116041823 TTATCA
1 TTATCA
116041829 ATTTGTATCA
Statistics
Matches: 128, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 31 0.24
26 97 0.76
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:116041776 original size:78 final size:76
Alignment explanation
Indices: 116041669--116041828 Score: 293
Period size: 78 Copynumber: 2.1 Consensus size: 76
116041659 ACATGAATTC
116041669 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAA-CCATTATCATGGAACA
116041734 TTTACCTAACCTA
65 TTTACCTAA-CTA
*
116041747 TTATCATGAAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCATTATCATGGAACAT
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCATTATCATGGAACAT
116041812 TTACCTAACTA
66 TTACCTAACTA
116041823 TTATCA
1 TTATCA
116041829 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
76 9 0.11
77 25 0.31
78 47 0.58
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (76 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCATTATCATGGAACAT
TTACCTAACTA
Found at i:116047199 original size:25 final size:26
Alignment explanation
Indices: 116047162--116047213 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
116047152 TCAAACATGC
116047162 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
116047188 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
116047213 A
1 A
116047214 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:116048751 original size:51 final size:51
Alignment explanation
Indices: 116048696--116048831 Score: 211
Period size: 51 Copynumber: 2.6 Consensus size: 51
116048686 GACATGAATT
*
116048696 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCTA
*
116048747 TTATCATGGAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
*
116048798 TTATCATCATGAACATTTACCTAACCTATTATCA
1 TTATCATGA--AACATTTACCTAACCTATTATCA
116048832 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
50 15 0.19
51 40 0.51
53 23 0.29
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCTATTATCATGAACATTTACCTAACCTA
Found at i:116048753 original size:25 final size:26
Alignment explanation
Indices: 116048696--116048831 Score: 213
Period size: 25 Copynumber: 5.2 Consensus size: 26
116048686 GACATGAATT
*
116048696 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
116048722 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
*
116048747 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
116048773 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
116048798 TTATCATCATGAACATTTACCTAACCTA
1 TTATCATGA--AACATTTACCTAACCTA
116048826 TTATCA
1 TTATCA
116048832 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
25 48 0.46
26 33 0.32
28 23 0.22
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:116050877 original size:21 final size:20
Alignment explanation
Indices: 116050853--116050892 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
116050843 AATTATGTTT
* *
116050853 ATTTTTACAATTTCAATTTCA
1 ATTTATACAATGTC-ATTTCA
116050874 ATTTATACAATGTCATTTC
1 ATTTATACAATGTCATTTC
116050893 GTCCATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTTATACAATGTCATTTCA
Found at i:116051366 original size:26 final size:26
Alignment explanation
Indices: 116051337--116051446 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
116051327 TGATACAAAT
116051337 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
116051363 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
116051389 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
116051415 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
116051441 TGATAA
1 TGATAA
116051447 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:116052964 original size:25 final size:26
Alignment explanation
Indices: 116052924--116052975 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
116052914 TTTACAGTTT
116052924 TACCCCTAGGAATAAATT-ACCGAAA
1 TACCCCTAGGAATAAATTGACCGAAA
** *
116052949 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGAATAAATTGACCGAAA
116052975 T
1 T
116052976 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGAATAAATTGACCGAAA
Found at i:116053505 original size:136 final size:136
Alignment explanation
Indices: 116053223--116053507 Score: 536
Period size: 137 Copynumber: 2.1 Consensus size: 136
116053213 GAGTAGTCTC
116053223 CCCAAATGGGCTTGCATATGTTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
116053288 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
116053353 CTGTTA
131 CTGTTA
116053359 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTA-TGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
116053424 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAA-GGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
116053488 ACTGTTA
130 ACTGTTA
**
116053495 CCTGAATGGGCTT
1 CCCAAATGGGCTT
116053508 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
136 59 0.40
137 87 0.60
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:116054764 original size:12 final size:12
Alignment explanation
Indices: 116054747--116054777 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
116054737 ACTCGGGGAA
116054747 GAGGCCGTGGTC
1 GAGGCCGTGGTC
116054759 GAGGCCGTGGTC
1 GAGGCCGTGGTC
116054771 GAGGCCG
1 GAGGCCG
116054778 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:116062018 original size:39 final size:40
Alignment explanation
Indices: 116061913--116062079 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
116061903 CAATTGAATG
* *
116061913 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGT-GACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG--TT
*
116061954 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * * *
116061993 AAATCCGGGCTAATA-CCGAAGGCATTTGTGCAAGACGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* *
116062032 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
116062072 ATATCCGG
1 ATATCCGG
116062080 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
39 39 0.36
40 69 0.63
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:116062060 original size:79 final size:80
Alignment explanation
Indices: 116061915--116062079 Score: 228
Period size: 79 Copynumber: 2.1 Consensus size: 80
116061905 ATTGAATGAT
* *
116061915 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCGAAGGCATT
*
116061980 CGTGCAAGTTGTTAA
66 CGTGCAAGTGGTTAA
* *
116061995 ATCCGGGCTAATA-CCGAAGGCATTTGTGC-A-AGACGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGAC-TT-TATCCGGGCTAAGACCCGAAGGCA
* *
116062057 TTCGTGCATGTGGTTAT
64 TTCGTGCAAGTGGTTAA
116062074 ATCCGG
1 ATCCGG
116062080 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
77 3 0.04
78 3 0.04
79 59 0.78
80 11 0.14
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTAA
Found at i:116070035 original size:80 final size:80
Alignment explanation
Indices: 116069902--116070052 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 80
116069892 ATTGAATGAT
* *
116069902 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCGAAGGCATT
116069967 CGTGCAAGTTGTTAA
66 CGTGCAAGTTGTTAA
* * *
116069982 ATCCGGGCTAATACCCGAAGGCATTTGTGC-A-AGACGTTATATCCGGGCTAAGACCCGAAGGTA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGAC-TT-TATCCGGGCTAAGACCCGAAGGCA
116070045 TTCGTGCA
64 TTCGTGCA
116070053 TGTGGTTATA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
78 3 0.05
79 3 0.05
80 58 0.91
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAGACTTTATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTGTTAA
Found at i:116070061 original size:40 final size:40
Alignment explanation
Indices: 116069900--116070065 Score: 201
Period size: 40 Copynumber: 4.2 Consensus size: 40
116069890 CAATTGAATG
* * *
116069900 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-GTT
*
116069941 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
* * * **
116069980 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGACGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
* *
116070020 ATATCCGGGCTAAGACCCGAAGGTATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
116070060 ATATCC
1 ATATCC
116070066 AGTTGTATTC
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 5 0.05
40 102 0.95
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
Found at i:116071790 original size:40 final size:40
Alignment explanation
Indices: 116071571--116071768 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
116071561 TCGAATGATG
* * * *
116071571 TCCGGGCTAAG-TCCCGAAGGC-TCTGTGCTAAGTTACTGAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
116071611 TCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
116071651 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
116071691 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
116071731 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
116071769 TAACCGGGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 137 0.93
41 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:116071796 original size:40 final size:40
Alignment explanation
Indices: 116071571--116071796 Score: 243
Period size: 40 Copynumber: 5.7 Consensus size: 40
116071561 TCGAATGATG
* * * *
116071571 TCCGGGCTAAGTCCCGAAGGC-TCTGTGCTAAGTTACTGAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
116071611 TCC-GGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
116071651 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
116071691 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
116071731 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
116071772 -CCGGGTTATGTCCCGAAGGTATTTG
1 TCCGGGATAAGTCCCGAAGGCATTTG
116071797 AACGAGTAGC
Statistics
Matches: 170, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
39 3 0.02
40 156 0.92
41 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:116071810 original size:40 final size:40
Alignment explanation
Indices: 116071664--116071815 Score: 116
Period size: 40 Copynumber: 3.8 Consensus size: 40
116071654 GGACTAAGAT
** *
116071664 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
116071704 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
116071744 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGTTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
116071784 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
116071816 TTAAACTCCG
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.03
40 93 0.92
41 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:116073650 original size:51 final size:52
Alignment explanation
Indices: 116073548--116073650 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
116073538 TCATGGTACT
* * * *
116073548 TGTAACATCCCGATTTTGAGCCTAGTCAGAACAGTGGTTTCTGGACCACAAA
1 TGTAACAGCCCGATTTTAACCCTAGTCAGAACAGTGGTTTCGGGACCACAAA
* *
116073600 TGTAACAGCCCTATTTTAACCCTAGTCGGAA-AGTGGTTTCGGGACCACAAA
1 TGTAACAGCCCGATTTTAACCCTAGTCAGAACAGTGGTTTCGGGACCACAAA
116073651 ACCGAGTCGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
51 19 0.42
52 26 0.58
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (52 bp):
TGTAACAGCCCGATTTTAACCCTAGTCAGAACAGTGGTTTCGGGACCACAAA
Found at i:116078307 original size:47 final size:47
Alignment explanation
Indices: 116078253--116078347 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
116078243 TGTTATCGAG
116078253 TTACAGTTACTAAATCATTAATATCTGAAGCTATAAAACTCCAAATT
1 TTACAGTTACTAAATCATTAATATCTGAAGCTATAAAACTCCAAATT
116078300 TTACAGTTACTAAATCATTAATATCTGAAGCTATAAAACTCCAAATT
1 TTACAGTTACTAAATCATTAATATCTGAAGCTATAAAACTCCAAATT
116078347 T
1 T
116078348 AGTTTCGTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (47 bp):
TTACAGTTACTAAATCATTAATATCTGAAGCTATAAAACTCCAAATT
Found at i:116078336 original size:23 final size:23
Alignment explanation
Indices: 116078263--116078336 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
116078253 TTACAGTTAC
116078263 TAAATCATTAATATCTGAAGCTA
1 TAAATCATTAATATCTGAAGCTA
* * * * *
116078286 TAAAAC-TCCAA-ATTTTACAGTTA
1 TAAATCAT-TAATATCTGA-AGCTA
116078309 CTAAATCATTAATATCTGAAGCTA
1 -TAAATCATTAATATCTGAAGCTA
116078333 TAAA
1 TAAA
116078337 ACTCCAAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
22 5 0.14
23 15 0.42
24 11 0.31
25 5 0.14
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.34
Consensus pattern (23 bp):
TAAATCATTAATATCTGAAGCTA
Found at i:116078947 original size:49 final size:49
Alignment explanation
Indices: 116078889--116079076 Score: 225
Period size: 49 Copynumber: 3.8 Consensus size: 49
116078879 TATCCGAAGC
*
116078889 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGGGACCAAT
1 TATCTGGTACACATAGTAACCTGCACTTAGTACTACACATGGGACCAAT
* ** * *
116078938 AATCTGGTACATGTAGTAACCTACACTTAGTACTACACA-GGTGATCACAGT
1 TATCTGGTACACATAGTAACCTGCACTTAGTACTACACATGG-GA-C-CAAT
* * * *
116078989 TTTCAGGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAACCTGCACTTAGTACTACACATGGGACCAAT
* * *
116079038 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAACCTGCACTTAGTACTACACA
116079077 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
48 2 0.02
49 73 0.63
50 2 0.02
51 37 0.32
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAACCTGCACTTAGTACTACACATGGGACCAAT
Found at i:116079067 original size:100 final size:100
Alignment explanation
Indices: 116078894--116079081 Score: 295
Period size: 100 Copynumber: 1.9 Consensus size: 100
116078884 GAAGCTATCT
* * * *
116078894 GGTACACATAGTAGCCTGCACTTAGTACTACACATGGGACCAATAATCTGGTACATGTAGTAACC
1 GGTACACATAGTAACCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAACC
*
116078959 TACACTTAGTACTACACAGGTGATCACAGTTTTCA
66 TACACTTAGTACTACACACGTGATCACAGTTTTCA
* * *
116078994 GGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACACATAGTAACCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAACC
*
116079059 TGCACTTAGTACTACACACGTGA
66 TACACTTAGTACTACACACGTGA
116079082 CCTCACAATA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACACATAGTAACCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAACC
TACACTTAGTACTACACACGTGATCACAGTTTTCA
Found at i:116081593 original size:15 final size:14
Alignment explanation
Indices: 116081537--116081606 Score: 70
Period size: 15 Copynumber: 4.8 Consensus size: 14
116081527 TAAAGATAAC
*
116081537 AAGAAAACCAAATA
1 AAGAAATCCAAATA
116081551 AAGAAATCCAAGATA
1 AAGAAATCCAA-ATA
*
116081566 GAA-AAACCCAGAATA
1 -AAGAAATCCA-AATA
116081581 AAGAAATCCAGAATA
1 AAGAAATCCA-AATA
*
116081596 AAGAAACCCAA
1 AAGAAATCCAA
116081607 GATACGATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
14 13 0.27
15 32 0.67
16 3 0.06
ACGTcount: A:0.63, C:0.17, G:0.11, T:0.09
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:116081603 original size:30 final size:30
Alignment explanation
Indices: 116081537--116081606 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
116081527 TAAAGATAAC
*
116081537 AAGAAAACCAAATAAAGAAATCCAAGATAG
1 AAGAAACCCAAATAAAGAAATCCAAGATAG
116081567 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCA-AATAAAGAAATCCAAG-ATAG
116081596 AAGAAACCCAA
1 AAGAAACCCAA
116081607 GATACGATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 11 0.31
30 25 0.69
ACGTcount: A:0.63, C:0.17, G:0.11, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAAATAAAGAAATCCAAGATAG
Found at i:116084548 original size:100 final size:100
Alignment explanation
Indices: 116084430--116084617 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 100
116084420 GAAGCTATCT
* * *
116084430 GGTACGCTTAGTAGCCTGCACTTAGTACTACACATGGGACCAATAATCTAGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATAATCCAGTACACGTAGTAGCC
*
116084495 TGCACTTATTACTACACACGTGATCACAGTTTACG
66 TGCACTTAGTACTACACACGTGATCACAGTTTACG
* * * *
116084530 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGATACCAATTATCCGGTACACGTAGTAGCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATAATCCAGTACACGTAGTAGCC
116084595 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
116084618 CCTCACAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATAATCCAGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTACG
Found at i:116084551 original size:51 final size:51
Alignment explanation
Indices: 116084438--116084617 Score: 192
Period size: 49 Copynumber: 3.6 Consensus size: 51
116084428 CTGGTACGCT
** * ** *
116084438 TAGTAGCCTGCACTTAGTACTACACA--TGGGACCAATAATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATACCAATTATCCGGTACACA
* * * *
116084487 TAGTAGCCTGCACTTATTACTACACACGTGAT-CACAGTT-TACGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATAC-CAATTAT-CCGGTACACA
*
116084538 TAGTAGCCTGCACTTAGTACTACACA--TGATACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATACCAATTATCCGGTACACA
*
116084587 TAGTAGCTTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
116084618 CCTCACAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
49 65 0.60
50 4 0.04
51 39 0.36
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATACCAATTATCCGGTACACA
Found at i:116089455 original size:68 final size:70
Alignment explanation
Indices: 116089383--116089514 Score: 171
Period size: 71 Copynumber: 1.9 Consensus size: 70
116089373 ACACCCTGTA
* * * *
116089383 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
116089445 ATAAAT
65 ATAAAT
* *
116089451 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAA
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAA
116089515 AATCGGTTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
68 23 0.43
69 3 0.06
70 1 0.02
71 27 0.50
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:116099031 original size:61 final size:58
Alignment explanation
Indices: 116098966--116099081 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
116098956 AGTAATTATC
* * *
116098966 TTAATATTTAATTTAATTTAATATTTATCTGATAGACAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTTAATCTAATATTTATCT--TA-ACAAATATTATATTAATTTAATAGAT
* *
116099027 TTAATATTAAATTTAATCTAATATTTATCTTAATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTAACAAATATTATATTAATTTAATA
116099082 TTAAAGTGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 20 0.40
59 2 0.04
61 28 0.56
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (58 bp):
TTAATATTAAATTTAATCTAATATTTATCTTAACAAATATTATATTAATTTAATAGAT
Found at i:116101178 original size:29 final size:29
Alignment explanation
Indices: 116101139--116101217 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
116101129 CTTAATAATC
*
116101139 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
116101169 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
116101198 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
116101218 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:116101877 original size:2 final size:2
Alignment explanation
Indices: 116101859--116101898 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
116101849 TGATGGCCGA
* * *
116101859 AT AT GT AT AT CT AT AT AT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116101899 CAACTATACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116101879 original size:10 final size:10
Alignment explanation
Indices: 116101864--116101899 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
116101854 GCCGAATATG
116101864 TATATCTATA
1 TATATCTATA
116101874 TATATCTATA
1 TATATCTATA
*
116101884 TATATATATA
1 TATATCTATA
116101894 TATATC
1 TATATC
116101900 AACTATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (10 bp):
TATATCTATA
Found at i:116104335 original size:40 final size:40
Alignment explanation
Indices: 116104281--116104474 Score: 327
Period size: 40 Copynumber: 4.9 Consensus size: 40
116104271 GATATAGCTT
*
116104281 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
116104321 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
116104361 CTCGCAGAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
116104401 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
116104441 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
116104475 CAATCCGAAT
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.09
40 132 0.91
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:116104390 original size:80 final size:80
Alignment explanation
Indices: 116104254--116104474 Score: 331
Period size: 80 Copynumber: 2.8 Consensus size: 80
116104244 GAACCAAGTA
** * *
116104254 CCTTCGGGGTTTAG-CCGGATATAGCT-TCTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
116104317 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * * *
116104333 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAGAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
116104398 TAACTCGCACAAATG
66 TAACTCGCACAAATG
116104413 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
116104475 CAATCCGAAT
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 26 0.20
80 101 0.80
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:116107497 original size:42 final size:42
Alignment explanation
Indices: 116107405--116107559 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 42
116107395 AATAACATGC
* * * ** *
116107405 CAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCACAT
1 CAACGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
* * * * * *
116107447 CAATGCCATATCCCAAATATGGTCTTATACGAATTCTTATTT
1 CAACGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
* * * * *
116107489 CGACGCCATGTCCTAGATATAGTCTTACACGAAATCTCGTAT
1 CAACGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
*
116107531 CAACACCATATCCCAGATATGGTCTTACA
1 CAACGCCATATCCCAGATATGGTCTTACA
116107560 TGATAACTCA
Statistics
Matches: 85, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
CAACGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:116113656 original size:5 final size:5
Alignment explanation
Indices: 116113641--116113679 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
116113631 TTATCATCCT
116113641 TTTAA -TTAA TTTAA TTTAA TTTAA TTTAA TTTCAA TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT-AA TTTA
116113680 GTCCCTACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 23 0.72
6 5 0.16
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (5 bp):
TTTAA
Found at i:116115770 original size:22 final size:22
Alignment explanation
Indices: 116115744--116115788 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
116115734 ATTATGTGCA
116115744 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
116115766 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
116115788 T
1 T
116115789 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:116120092 original size:29 final size:29
Alignment explanation
Indices: 116120060--116120123 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
116120050 CTTCGAGCTC
**
116120060 GCACACCCAGTGCTGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
116120089 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
116120118 GCACAC
1 GCACAC
116120124 TTAGTGCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:116120124 original size:29 final size:29
Alignment explanation
Indices: 116120075--116120131 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
116120065 CCCAGTGCTG
116120075 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
116120104 TATATTTCCAGCATGCACACTTAGTGCC
1 TATATTTCCAGCATGCACACTTAGTGCC
116120132 GATCTCGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (29 bp):
TATATTTCCAGCATGCACACTTAGTGCCA
Found at i:116125455 original size:40 final size:40
Alignment explanation
Indices: 116125328--116125457 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
116125318 ATGCTGGAAA
* *
116125328 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
116125368 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
116125408 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
116125448 TTATATCCGG
1 TTATATCCGG
116125458 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:116129600 original size:40 final size:39
Alignment explanation
Indices: 116129555--116129684 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
116129545 CGGAACATAA
116129555 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
116129595 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
116129635 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
116129675 CCGGATATAA
1 CCGGATATAA
116129685 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:116129699 original size:40 final size:40
Alignment explanation
Indices: 116129571--116129722 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
116129561 ATAACCATGT
* * *
116129571 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
116129611 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
116129651 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
116129691 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
116129723 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Done.