Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 20 of 208
Found at i:5797404 original size:17 final size:17
Alignment explanation
Indices: 5797379--5797466 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 17
5797369 ATGGAATAGA
5797379 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
5797396 ATATGATTTAATAAAAT
1 ATATAATTTAATAAAAT
* * * *
5797413 TTAAAATAATTATTATTAA-
1 ATATAAT--TTAATA-AAAT
5797432 ATATAATTTAATAATAAT
1 ATATAATTTAATAA-AAT
* *
5797450 ATATGATTTCATAAAAT
1 ATATAATTTAATAAAAT
5797467 TCTTGATAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
17 30 0.56
18 12 0.22
19 10 0.19
20 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5797463 original size:26 final size:25
Alignment explanation
Indices: 5797380--5797463 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 25
5797370 TGGAATAGAA
5797380 TATAATTTAATAA-AATATATGATT
1 TATAATTTAATAATAATATATGATT
*
5797404 TAATAAAATTTAA-AATAAT-TATTATT
1 T-AT--AATTTAATAATAATATATGATT
5797430 AAATATAATTTAATAATAATATATGATT
1 ---TATAATTTAATAATAATATATGATT
5797458 TCATAA
1 T-ATAA
5797464 AATTCTTGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
24 1 0.02
25 3 0.06
26 19 0.40
27 16 0.33
28 8 0.17
29 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (25 bp):
TATAATTTAATAATAATATATGATT
Found at i:5799886 original size:29 final size:29
Alignment explanation
Indices: 5799833--5799888 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
5799823 TACATCAAGA
**
5799833 TAGTCCATTTATTATTAAATGAATTAATT
1 TAGTCCATTTATTATTAAAAAAATTAATT
5799862 TAGTCC-TTATATTATTAAAAAAATTAA
1 TAGTCCATT-TATTATTAAAAAAATTAA
5799889 ATGAGTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (29 bp):
TAGTCCATTTATTATTAAAAAAATTAATT
Found at i:5799895 original size:29 final size:29
Alignment explanation
Indices: 5799834--5799895 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
5799824 ACATCAAGAT
** * *
5799834 AGTCCATTTATTATTAAATGAATTAATTT
1 AGTCCATTTATTATTAAAAAAATTAAATG
5799863 AGTCC-TTATATTATTAAAAAAATTAAATG
1 AGTCCATT-TATTATTAAAAAAATTAAATG
5799892 AGTC
1 AGTC
5799896 TAAATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (29 bp):
AGTCCATTTATTATTAAAAAAATTAAATG
Found at i:5801154 original size:21 final size:21
Alignment explanation
Indices: 5801109--5801148 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5801099 TTAGTCCCAA
*
5801109 TTTTTTTTATGTTCTTTTAAC
1 TTTTTTTTATGTTCTATTAAC
*
5801130 TTTTTTTTATTTTCTATTA
1 TTTTTTTTATGTTCTATTA
5801149 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTTTTTTATGTTCTATTAAC
Found at i:5801883 original size:3 final size:3
Alignment explanation
Indices: 5801875--5801903 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
5801865 TATAGTAAAT
5801875 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5801904 ACACTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:5807898 original size:15 final size:16
Alignment explanation
Indices: 5807880--5807915 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
5807870 AAATTTTTTA
*
5807880 TATTAAAATA-ATATT
1 TATTAAAATATATAAT
5807895 TATTAAAATATATAAT
1 TATTAAAATATATAAT
5807911 TATTA
1 TATTA
5807916 TATTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTAAAATATATAAT
Found at i:5811367 original size:41 final size:41
Alignment explanation
Indices: 5811287--5811420 Score: 182
Period size: 41 Copynumber: 3.3 Consensus size: 41
5811277 ATCTCGGTTC
* * *
5811287 CGCA-ACTTAGTGCCCGTTA-TTAACATAATTATTTGGTTT
1 CGCACACTTAGTGCTCGTTATTTAACATCATTATTTAGTTT
*
5811326 CGCACACTTAGTGCTCGTTATTTAACATCATTACTTAGTTT
1 CGCACACTTAGTGCTCGTTATTTAACATCATTATTTAGTTT
* * *
5811367 CGCACACTTAGTGCTTGTTATTCAACATCATTATTTAATTT
1 CGCACACTTAGTGCTCGTTATTTAACATCATTATTTAGTTT
*
5811408 CGCATACTTAGTG
1 CGCACACTTAGTG
5811421 TCAAGCATAT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
39 4 0.05
40 14 0.17
41 66 0.79
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.41
Consensus pattern (41 bp):
CGCACACTTAGTGCTCGTTATTTAACATCATTATTTAGTTT
Found at i:5816489 original size:42 final size:42
Alignment explanation
Indices: 5816441--5816656 Score: 163
Period size: 42 Copynumber: 5.1 Consensus size: 42
5816431 TGGGTTTATA
* * * * *
5816441 CTTCAGTTTAGCTAATGATGCACTTATATGCCAGTATATTTT
1 CTTCAGTTTATCTGATGATGCACTTATGTGCTAGTATATTTC
* * * * *
5816483 GTTCAGTTCATTTGATGATGCATTTATGTGCTAGTACATTTC
1 CTTCAGTTTATCTGATGATGCACTTATGTGCTAGTATATTTC
* *
5816525 CTTCAGTTTATCTGATGATGTC-CTTATGTGCTAGTATAATTG
1 CTTCAGTTTATCTGATGATG-CACTTATGTGCTAGTATATTTC
* * * * *
5816567 ATTCAGCTTGTCT-AGTAATGCACCTTGTGTGTCT-GTATGATTT-
1 CTTCAGTTTATCTGA-TGATGCA-CTTATGTG-CTAGTAT-ATTTC
* *
5816610 CTTCAGTTTATCCGATGATGCAC-TATGTATGCTAGTTTATTTC
1 CTTCAGTTTATCTGATGATGCACTTATG--TGCTAGTATATTTC
5816653 CTTC
1 CTTC
5816657 GAAAACATGC
Statistics
Matches: 133, Mismatches: 30, Indels: 21
0.72 0.16 0.11
Matches are distributed among these distances:
41 5 0.04
42 86 0.65
43 36 0.27
44 6 0.05
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (42 bp):
CTTCAGTTTATCTGATGATGCACTTATGTGCTAGTATATTTC
Found at i:5816828 original size:23 final size:22
Alignment explanation
Indices: 5816800--5816850 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 22
5816790 TTGGCTTGAA
5816800 AAAGTTAGTTACTAATCAAGCTG
1 AAAG-TAGTTACTAATCAAGCTG
5816823 -AA--AGTTACTAATCAAGCTG
1 AAAGTAGTTACTAATCAAGCTG
5816842 AAAGCTAGT
1 AAAG-TAGT
5816851 ACCTTCTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
19 17 0.71
20 2 0.08
22 2 0.08
23 3 0.12
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (22 bp):
AAAGTAGTTACTAATCAAGCTG
Found at i:5816830 original size:19 final size:19
Alignment explanation
Indices: 5816806--5816845 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
5816796 TGAAAAAGTT
5816806 AGTTACTAATCAAGCTGAA
1 AGTTACTAATCAAGCTGAA
5816825 AGTTACTAATCAAGCTGAA
1 AGTTACTAATCAAGCTGAA
5816844 AG
1 AG
5816846 CTAGTACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (19 bp):
AGTTACTAATCAAGCTGAA
Found at i:5833335 original size:2 final size:2
Alignment explanation
Indices: 5833330--5833359 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5833320 AAAAAAAATC
5833330 AT AT AT AT AT AT 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
5833360 GTATTTTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5834979 original size:23 final size:22
Alignment explanation
Indices: 5834941--5834989 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
5834931 GTATTTCATG
5834941 AAAA-TTCAAAAATATTATTAA
1 AAAATTTCAAAAATATTATTAA
* *
5834962 TAAATTTCATAAAATATTTTTAA
1 AAAATTTCA-AAAATATTATTAA
5834985 AAAAT
1 AAAAT
5834990 CCACTCAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 4 0.17
23 16 0.70
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTTCAAAAATATTATTAA
Found at i:5836404 original size:3 final size:3
Alignment explanation
Indices: 5836393--5836422 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
5836383 ATTAAAACAT
*
5836393 TAA TCA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5836423 GGAGCTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5852124 original size:12 final size:13
Alignment explanation
Indices: 5852101--5852130 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
5852091 ATAAAAATAA
5852101 TAAAAAAGTATTT
1 TAAAAAAGTATTT
5852114 TAAAAAA-TATTT
1 TAAAAAAGTATTT
5852126 TAAAA
1 TAAAA
5852131 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
TAAAAAAGTATTT
Found at i:5854868 original size:12 final size:12
Alignment explanation
Indices: 5854853--5854902 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
5854843 TAAATTAATT
5854853 TATATATTTAAA
1 TATATATTTAAA
* **
5854865 TATATATATATT
1 TATATATTTAAA
*
5854877 TATACATTTAAA
1 TATATATTTAAA
5854889 TATATATTTAAA
1 TATATATTTAAA
5854901 TA
1 TA
5854903 ATTAATATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (12 bp):
TATATATTTAAA
Found at i:5854877 original size:24 final size:24
Alignment explanation
Indices: 5854850--5854895 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
5854840 GTATAAATTA
*
5854850 ATTTATATATTTAAATATATATAT
1 ATTTATACATTTAAATATATATAT
5854874 ATTTATACATTTAAATATATAT
1 ATTTATACATTTAAATATATAT
5854896 TTAAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTATACATTTAAATATATATAT
Found at i:5855256 original size:33 final size:34
Alignment explanation
Indices: 5855219--5855283 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
5855209 ATTAAATTAA
5855219 TTAATTAGGTT-GATTACTTTT-TATTTGAATAAC
1 TTAATTAGGTTGGATTA-TTTTATATTTGAATAAC
* *
5855252 TTAATTGGGTTGGATTATTTTATATTTTAATA
1 TTAATTAGGTTGGATTATTTTATATTTGAATA
5855284 TTTTAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (34 bp):
TTAATTAGGTTGGATTATTTTATATTTGAATAAC
Found at i:5861821 original size:17 final size:18
Alignment explanation
Indices: 5861799--5861837 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
5861789 GGCAAAGGAC
5861799 TAAATTGAAAGC-TAAAA
1 TAAATTGAAAGCATAAAA
* *
5861816 TAAATTTAAAGCATAAAT
1 TAAATTGAAAGCATAAAA
5861834 TAAA
1 TAAA
5861838 AAAAAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (18 bp):
TAAATTGAAAGCATAAAA
Found at i:5863741 original size:42 final size:42
Alignment explanation
Indices: 5863652--5863741 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
5863642 TGTTTTAAAT
* * * *
5863652 CGTGTAACTCATTGACTTGATACACACAGCCATATCGCAGAT
1 CGTGTGACTCACTGACTTGATACACACAACCATATCGCAGAC
* * *
5863694 TGTGTGACTCACTGACTTGATGCACACAACTC-TGTCGCAGAC
1 CGTGTGACTCACTGACTTGATACACACAAC-CATATCGCAGAC
5863736 CGTGTG
1 CGTGTG
5863742 TGGCACATGG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (42 bp):
CGTGTGACTCACTGACTTGATACACACAACCATATCGCAGAC
Found at i:5865914 original size:3 final size:3
Alignment explanation
Indices: 5865895--5865948 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
5865885 AATTTATTTC
* * * *
5865895 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATG ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5865941 ATA A-A ATA
1 ATA ATA ATA
5865949 TCATTTGAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5867682 original size:14 final size:13
Alignment explanation
Indices: 5867663--5867693 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
5867653 GAAAAGAAAA
5867663 AGACTGTATTAATT
1 AGACTGTATTAA-T
5867677 AGACTGTATTAAT
1 AGACTGTATTAAT
5867690 AGAC
1 AGAC
5867694 CCTCCCCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
AGACTGTATTAAT
Found at i:5870004 original size:7 final size:7
Alignment explanation
Indices: 5869980--5870023 Score: 67
Period size: 6 Copynumber: 6.7 Consensus size: 7
5869970 AAAGTATTTT
5869980 AAAATT-
1 AAAATTA
5869986 AAAATT-
1 AAAATTA
5869992 AAAATTA
1 AAAATTA
5869999 AAAATTA
1 AAAATTA
5870006 AAAATTA
1 AAAATTA
5870013 AAAA-TA
1 AAAATTA
5870019 AAAAT
1 AAAAT
5870024 ATATATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.50
7 18 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:5870004 original size:13 final size:13
Alignment explanation
Indices: 5869978--5870023 Score: 67
Period size: 14 Copynumber: 3.5 Consensus size: 13
5869968 TAAAAGTATT
5869978 TTAAAATT-AAAA
1 TTAAAATTAAAAA
5869990 TTAAAATTAAAAA
1 TTAAAATTAAAAA
5870003 TTAAAAATTAAAAA
1 TT-AAAATTAAAAA
*
5870017 TAAAAAT
1 TTAAAAT
5870024 ATATATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 8 0.26
13 11 0.35
14 12 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TTAAAATTAAAAA
Found at i:5875572 original size:27 final size:27
Alignment explanation
Indices: 5875542--5875601 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
5875532 TAGTATAAAT
5875542 CCAAGTT-TGTGTGTGCAGATTTTCCGA
1 CCAAGTTCT-TGTGTGCAGATTTTCCGA
5875569 CCAAGTTCTTGTGTGCAGATTTTCCGA
1 CCAAGTTCTTGTGTGCAGATTTTCCGA
*
5875596 ACAAGT
1 CCAAGT
5875602 CAACTTCCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (27 bp):
CCAAGTTCTTGTGTGCAGATTTTCCGA
Found at i:5877560 original size:43 final size:43
Alignment explanation
Indices: 5877482--5877888 Score: 358
Period size: 43 Copynumber: 9.4 Consensus size: 43
5877472 GCGTCGGTAA
*
5877482 CTTTAGCGGCGCTTTTTACAAT-AAACGCCGCTATAGACAATGGT
1 CTTTAGCGGCGC-TTTTAC-ATCAAACGCCGCTATAGACCATGGT
*
5877526 CTTTAGCGGCGCTTCTACATCAAACGCCGCTATAGACCATGGT
1 CTTTAGCGGCGCTTTTACATCAAACGCCGCTATAGACCATGGT
* * **
5877569 CTTTAGCGGCGCTTTTGCAGCAAACGCCGCTATAGACCGA-CAT
1 CTTTAGCGGCGCTTTTACATCAAACGCCGCTATAGACC-ATGGT
* * * * * **
5877612 TTTTCA-CGGCGCTTCTGCATCAAACGCCACTATAGACCGTCAT
1 CTTT-AGCGGCGCTTTTACATCAAACGCCGCTATAGACCATGGT
* * *
5877655 CTTTCGCGGCGCTTTTGCATCAAAACGCCGCTATAGACCGTGGT
1 CTTTAGCGGCGCTTTTACATC-AAACGCCGCTATAGACCATGGT
**** * *
5877699 CTTTAGCGGCGCTCACCCATCAAACGCTGCTATAGACCATGTT
1 CTTTAGCGGCGCTTTTACATCAAACGCCGCTATAGACCATGGT
* * *
5877742 CTTTAGCGGCGC-TTAACCTTAAAACGCCGCTATAGACC-TGGTT
1 CTTTAGCGGCGCTTTTA-CATCAAACGCCGCTATAGACCATGG-T
* * * * **
5877785 CTTTAGCGGTGCTTTTCCATAAAACGCCGCTATAGACCTTATT
1 CTTTAGCGGCGCTTTTACATCAAACGCCGCTATAGACCATGGT
** * * *
5877828 CTTTTAGCGGCGCTTAAAAAACAAACGCCGCTATA-CCTCATGGT
1 C-TTTAGCGGCGCTTTTACATCAAACGCCGCTATAGAC-CATGGT
*
5877872 TTTTAGCGGCGCTTTTA
1 CTTTAGCGGCGCTTTTA
5877889 TAAAAACGCC
Statistics
Matches: 297, Mismatches: 54, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
42 4 0.01
43 212 0.71
44 81 0.27
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTACATCAAACGCCGCTATAGACCATGGT
Found at i:5877812 original size:173 final size:172
Alignment explanation
Indices: 5877504--5877822 Score: 412
Period size: 173 Copynumber: 1.8 Consensus size: 172
5877494 TTTTTACAAT
5877504 AAACGCCGCTATAGACAATGGTCTTTAGCGGCGCTTCTACATCAAACGCCGCTATAGACCATGGT
1 AAACGCCGCTATAGACAATGGTCTTTAGCGGCGCTTCTACATCAAACGCCGCTATAGACCATGGT
*** * * *
5877569 CTTTAGCGGCGCTTTTGCAGCAAACGCCGCTATAGACCGACATTTTTCACGGCGCTTCTGCATCA
66 CTTTAGCGGCGCTTAACCAGAAAACGCCGCTATAGACCGA-ATTTTTCACGGCGCTTCTCCATAA
5877634 AACGCCACTATAGACCGTCATCTTTCGCGGCGCTTTTGCATCA
130 AACGCCACTATAGACCGTCATCTTTCGCGGCGCTTTTGCATCA
** *
5877677 AAACGCCGCTATAGACCGTGGTCTTTAGCGGCGC-TC-ACCCATCAAACGCTGCTATAGACCATG
1 AAACGCCGCTATAGACAATGGTCTTTAGCGGCGCTTCTA--CATCAAACGCCGCTATAGACCATG
* ** * * *
5877740 TTCTTTAGCGGCGCTTAACCTTAAAACGCCGCTATAGACCTG-GTTCTTT-AGCGGTGCTTTTCC
64 GTCTTTAGCGGCGCTTAACCAGAAAACGCCGCTATAGACC-GAATT-TTTCA-CGGCGCTTCTCC
*
5877803 ATAAAACGCCGCTATAGACC
126 ATAAAACGCCACTATAGACC
5877823 TTATTCTTTT
Statistics
Matches: 125, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
171 1 0.01
172 5 0.04
173 118 0.94
174 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (172 bp):
AAACGCCGCTATAGACAATGGTCTTTAGCGGCGCTTCTACATCAAACGCCGCTATAGACCATGGT
CTTTAGCGGCGCTTAACCAGAAAACGCCGCTATAGACCGAATTTTTCACGGCGCTTCTCCATAAA
ACGCCACTATAGACCGTCATCTTTCGCGGCGCTTTTGCATCA
Found at i:5877853 original size:130 final size:128
Alignment explanation
Indices: 5877504--5877885 Score: 369
Period size: 130 Copynumber: 2.9 Consensus size: 128
5877494 TTTTTACAAT
* * *
5877504 AAACGCCGCTATAGACAATGG-TCTTTAGCGGCGCTTCTACATCAAACGCCGCTATAGACCATGG
1 AAACGCCGCTATAGAC-CTGGTTCTTTAGCGGCGCTTTTACATAAAACGCCGCTATAGACCATGG
*** * ** ***
5877568 TCTTTAGCGGCGCTTTTGCAGCAAACGCCGCTATAGACCGACATTTTTCA-CGGCGCTTCTGCAT
65 TCTTTAGCGGCGCTTAAACAACAAACGCCGCTATAGACC-ATGTTTTT-AGCGGCGCTTAACCAT
*
5877632 C
128 A
* * * *
5877633 AAACGCCACTATAGACC--GTCATCTTTCGCGGCGCTTTTGCATCAAAACGCCGCTATAGACCGT
1 AAACGCCGCTATAGACCTGGT--TCTTTAGCGGCGCTTTTACAT-AAAACGCCGCTATAGACCAT
* ** * * *
5877696 GGTCTTTAGCGGCGCTCACCCATCAAACGCTGCTATAGACCATGTTCTTTAGCGGCGCTTAACCT
63 GGTCTTTAGCGGCGCTTAAACAACAAACGCCGCTATAGACCATGTT-TTTAGCGGCGCTTAACCA
5877761 TA
127 TA
* * * **
5877763 AAACGCCGCTATAGACCTGGTTCTTTAGCGGTGCTTTTCCATAAAACGCCGCTATAGACCTTATT
1 AAACGCCGCTATAGACCTGGTTCTTTAGCGGCGCTTTTACATAAAACGCCGCTATAGACCATGGT
* *
5877828 CTTTTAGCGGCGCTTAAAAAACAAACGCCGCTATA-CCTCATGGTTTTTAGCGGCGCTT
66 C-TTTAGCGGCGCTTAAACAACAAACGCCGCTATAGAC-CAT-GTTTTTAGCGGCGCTT
5877886 TTATAAAAAC
Statistics
Matches: 208, Mismatches: 34, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
126 1 0.00
129 59 0.28
130 143 0.69
131 3 0.01
132 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (128 bp):
AAACGCCGCTATAGACCTGGTTCTTTAGCGGCGCTTTTACATAAAACGCCGCTATAGACCATGGT
CTTTAGCGGCGCTTAAACAACAAACGCCGCTATAGACCATGTTTTTAGCGGCGCTTAACCATA
Found at i:5877856 original size:173 final size:171
Alignment explanation
Indices: 5877504--5877884 Score: 405
Period size: 173 Copynumber: 2.2 Consensus size: 171
5877494 TTTTTACAAT
*
5877504 AAACGCCGCTATAGACAATGGTCTTTAGCGGCGCTTCTACATCAAACGCCGCTATAGACCATGGT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGC-TCTACATCAAACGCCGCTATAGACCATGGT
*** * * *
5877569 CTTTAGCGGCGCTTTTGCAGCAAACGCCGCTATAGACCGACATTTTTCACGGCGCTTCTGCATCA
65 CTTTAGCGGCGCTTAACCAGAAAACGCCGCTATAGACCGA-ATTTTTCACGGCGCTTCTCCATAA
* **** *
5877634 AACGCCACTATAGACCGTCATCTTTCGCGGCGCTTTTGCATCA
129 AACGCCACTATAGACCGTCATCTTTAGCGGCGCTTAAAAAACA
* * *
5877677 AAACGCCGCTATAGACCGTGGTCTTTAGCGGCGCTC-ACCCATCAAACGCTGCTATAGACCATGT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTCTA--CATCAAACGCCGCTATAGACCATGG
** * * *
5877741 TCTTTAGCGGCGCTTAACCTTAAAACGCCGCTATAGACCTG-GTTCTTT-AGCGGTGCTTTTCCA
64 TCTTTAGCGGCGCTTAACCAGAAAACGCCGCTATAGACC-GAATT-TTTCA-CGGCGCTTCTCCA
* *
5877804 TAAAACGCCGCTATAGACC-TTATTCTTTTAGCGGCGCTTAAAAAAC-
126 TAAAACGCCACTATAGACCGTCA-TC-TTTAGCGGCGCTTAAAAAACA
* *
5877850 AAACGCCGCTATA-CCTCATGGTTTTTAGCGGCGCT
1 AAACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCT
5877885 TTTATAAAAA
Statistics
Matches: 174, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
171 1 0.01
172 8 0.05
173 150 0.86
174 15 0.09
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (171 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTCTACATCAAACGCCGCTATAGACCATGGTC
TTTAGCGGCGCTTAACCAGAAAACGCCGCTATAGACCGAATTTTTCACGGCGCTTCTCCATAAAA
CGCCACTATAGACCGTCATCTTTAGCGGCGCTTAAAAAACA
Found at i:5877988 original size:14 final size:14
Alignment explanation
Indices: 5877971--5878000 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5877961 AATCAGAAGA
5877971 AACCAAATCTAACC
1 AACCAAATCTAACC
5877985 AACCAAATCTAACC
1 AACCAAATCTAACC
5877999 AA
1 AA
5878001 ATCTGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (14 bp):
AACCAAATCTAACC
Found at i:5878243 original size:21 final size:21
Alignment explanation
Indices: 5878190--5878247 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
5878180 TTAAGCTGTT
*
5878190 CTGCTTCCCTCGCTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCG
**
5878211 CTAATTCCCTCGCTGCAGCCG
1 CTGCTTCCCTCGCTGCAGCCG
*
5878232 CTGCTTCTCTCGCTGC
1 CTGCTTCCCTCGCTGC
5878248 CGCATCTTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.07, C:0.45, G:0.19, T:0.29
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCG
Found at i:5878406 original size:87 final size:87
Alignment explanation
Indices: 5878235--5878395 Score: 236
Period size: 87 Copynumber: 1.9 Consensus size: 87
5878225 GCAGCCGCTG
* * *
5878235 CTTCTCTCGCTGCCGCATCTTCTTTAAGCTGCTGCTGGAGTTGTTCATACTTTCGTTGAACCTCA
1 CTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCA
5878300 GCTTCTCTCACTGCTGCCTCTA
66 GCTTCTCTCACTGCTGCCTCTA
* * *
5878322 CTTCTCTCACTGCTGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-TTTGAACCT
1 CTTCTCTCACTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCT
5878385 CAGCTTCTCTC
64 CAGCTTCTCTC
5878396 GATGTTGCCT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 1 0.02
87 61 0.92
88 4 0.06
ACGTcount: A:0.14, C:0.30, G:0.16, T:0.40
Consensus pattern (87 bp):
CTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCA
GCTTCTCTCACTGCTGCCTCTA
Found at i:5886308 original size:16 final size:16
Alignment explanation
Indices: 5886287--5886317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5886277 GTAAATGGAG
5886287 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
5886303 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
5886318 GAGGAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:5889162 original size:92 final size:92
Alignment explanation
Indices: 5888969--5889303 Score: 541
Period size: 92 Copynumber: 3.7 Consensus size: 92
5888959 TTTCCTAATG
* *
5888969 ACATTTGCTTTGTCACAACAAGGAGA-TCTCCCCATTTCTCTATATAATCCTTCAGCTT--AGTC
1 ACATTTGCTTTGTCACAACAAGGA-ACTCTCCCCATTTCTATATATAATACTTCAGCTTAGAGTC
*
5889031 TTTTTCAGGAGACCATGGCCCTTTCTTC
65 TTCTTCAGGAGACCATGGCCCTTTCTTC
* *
5889059 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTATCTATGATACTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTATATATAATACTTCAGCTTAGAGTCT
5889124 TCTTCAGGAGACCATGGCCCTTTCTTC
66 TCTTCAGGAGACCATGGCCCTTTCTTC
* *
5889151 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTATCTATGATACTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTATATATAATACTTCAGCTTAGAGTCT
5889216 TCTTCAGGAGACCATGGCCCTTTCTTC
66 TCTTCAGGAGACCATGGCCCTTTCTTC
* * * *
5889243 ACATTTGCTTTGTCACAACAAGGAGCTCACCCCATTTCTCTATATAATCCTTCAGCTTAGA
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTATATATAATACTTCAGCTTAGA
5889304 TTTACTCACT
Statistics
Matches: 231, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
89 1 0.00
90 52 0.23
92 178 0.77
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (92 bp):
ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTATATATAATACTTCAGCTTAGAGTCT
TCTTCAGGAGACCATGGCCCTTTCTTC
Found at i:5890031 original size:16 final size:17
Alignment explanation
Indices: 5890010--5890043 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5890000 AAGAAAAATT
5890010 AAAAGTTTAAAGG-TGA
1 AAAAGTTTAAAGGATGA
*
5890026 AAAAGTTTTAAGGATGA
1 AAAAGTTTAAAGGATGA
5890043 A
1 A
5890044 TTTGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (17 bp):
AAAAGTTTAAAGGATGA
Found at i:5890401 original size:15 final size:15
Alignment explanation
Indices: 5890377--5890415 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
5890367 ATATTACATG
5890377 TATTAT-ATTTACCA
1 TATTATAATTTACCA
5890391 TATTATAATTTACCA
1 TATTATAATTTACCA
*
5890406 TAGTATAATT
1 TATTATAATT
5890416 ATTACATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (15 bp):
TATTATAATTTACCA
Found at i:5894165 original size:94 final size:94
Alignment explanation
Indices: 5893982--5895505 Score: 1273
Period size: 94 Copynumber: 16.2 Consensus size: 94
5893972 AAAATGGGGA
* * * *
5893982 TGAAGTTACAGTGGAGCAA-ATTGAAGATACAAAACCTATACCCCTGAAGTTGTAGTGGGTCAGA
1 TGAAGTTACAGTGGAGCAAGA-TAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGA
* *
5894046 TTGAATCTACCATAGCA-AATATTATCTCCT
65 TTGAATCTACCATAG-AGAATCTTATCTCCC
* * * * *
5894076 TGAAATTACAGTGGAGCATA-TTAAAGCTACAAATCCTATACCCCTAAAGTGGCAGTGGGTCGGA
1 TGAAGTTACAGTGGAGCA-AGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGA
* * * *
5894140 TTG-ATGTTTCTATAAAGAATCTTATCTCCC
65 TTGAAT-CTACCATAGAGAATCTTATCTCCC
** * * * *
5894170 TGAAGTTGTAGTAGAG-TAGATAAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTTGGAT
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAT
* *
5894234 TGAATCTA-CATTAGCGAATTTTATCTCCC
66 TGAATCTACCA-TAGAGAATCTTATCTCCC
* * * * * * * *
5894263 TAAAGTTATAGTGGAGTATA-TTGAAGCTTCAAATCCTATACCCCTAAAGTTGT-GTAGGTCGGA
1 TGAAGTTACAGTGGAGCA-AGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGA
* * *
5894326 TTAAAGT-TACCATAGCA-AACCTTATCTTCC
65 TTGAA-TCTACCATAG-AGAATCTTATCTCCC
* ** * * * * * * *
5894356 TGAAATTGTAGCGGAGCAAGATGAAGTTACAAATCTTATGCCCCTGAAGTTATAGTGGGTCAGAT
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAT
5894421 TGAAGT-TACCATAGCA-AATCTTATCTCCC
66 TGAA-TCTACCATAG-AGAATCTTATCTCCC
* * * * *
5894450 TGAAGTTATAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTAAAATTTATAGTGGGTCGAA
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCT-GAAGTTGTAGTGGGTCGGA
* * *
5894515 TTGAATCTACCATAGCGAGTCTTATCTCTC
65 TTGAATCTACCATAGAGAATCTTATCTCCC
** * * * *
5894545 TGAAGTTGTAGTAGAGCAAGATAAAGCTACAAATCCTATACCCTTGAAATT-TACAGTGGGTTGG
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGT--AGTGGGTCGG
* * *
5894609 ATTGAATCTACCATAGCGAGTCTTATCTCTC
64 ATTGAATCTACCATAGAGAATCTTATCTCCC
*
5894640 TGAAGTTACAGTGGAGTAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAT
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAT
* * *
5894705 TGAATCTACCATAGCGAGTCTTATCTTCC
66 TGAATCTACCATAGAGAATCTTATCTCCC
* * * * ***
5894734 TGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAAAT
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAT
* * * * *
5894799 AGAATCTACCATAGTGAGTCTTATCTTCT
66 TGAATCTACCATAGAGAATCTTATCTCCC
* * * * *
5894828 TGAAGTTGCAGTGAAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTAGGTCAGAT
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAT
* * *
5894893 TTAATCTGCCATA-ATAAATCTTATCTCCC
66 TGAATCTACCATAGA-GAATCTTATCTCCC
* * * * * **
5894922 T-AAATATACAGTGGAGCAAGATGAAGCTACAAACCCTATACCTCTGAAGTTGCAGTGGGTCTAA
1 TGAAGT-TACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGA
* *
5894986 TTGAATCTGCCATA-ATGAATCTTATCTTCC
65 TTGAATCTACCATAGA-GAATCTTATCTCCC
** * * * * *
5895016 TGAAGTTGTAGTGGAGCAAGATAAAGCTACAAATCCTGTATCTCTGAAGTTGCAGTGGGTCGAAT
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAT
* * * *
5895081 TAAATCTACCATAGCA-AGTCTTATCTTCA
66 TGAATCTACCATAG-AGAATCTTATCTCCC
* * * * * * **
5895110 TAAAGTTGCAGTGGAGCAATACGAAA-CTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCAAA
1 TGAAGTTACAGTGGAGCAAGA-TAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGA
* * * *
5895174 TTAAATCTACCATA-ATAAACCTT-TCTCTC
65 TTGAATCTACCATAGA-GAATCTTATCTCCC
* * * ** *
5895203 T-AAATATACAGTGGAGCAAGATAAAGCTACAAATTCTATACCCCTAAAGTTACAGTGGGTCAGA
1 TGAAGT-TACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGA
* *
5895267 TTAAATCTACCATA-ACGAATCTTATCTCTC
65 TTGAATCTACCATAGA-GAATCTTATCTCCC
* * * * * *
5895297 TGAAGTTGCATTGGAGTAAGATGAAGCTACAAATCCTATACCCGTGAAGTTGTAGTGGGTCGAAT
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAT
* * *
5895362 TGAATCTACCATA-ACAAATTTTATCTCTC
66 TGAATCTACCATAGA-GAATCTTATCTCCC
* * * * * * * * * * * *
5895391 TAAAGATGCAATGGAGTAATATGAAGCTACAAAT-ATCATATCCCTGAAATTGCAGTGGAAT-GG
1 TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCT-ATACCCCTGAAGTTGTAGTGG-GTCGG
* * * * *
5895454 ATTGAAACTACAACACA-AATCTTATCTCCT
64 ATTGAATCTACCATAGAGAATCTTATCTCCC
* *
5895484 TGAAGTTACAATGGAACAAGAT
1 TGAAGTTACAGTGGAGCAAGAT
5895506 GAAACTGTAA
Statistics
Matches: 1194, Mismatches: 202, Indels: 69
0.82 0.14 0.05
Matches are distributed among these distances:
92 10 0.01
93 242 0.20
94 762 0.64
95 178 0.15
96 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (94 bp):
TGAAGTTACAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGAT
TGAATCTACCATAGAGAATCTTATCTCCC
Found at i:5897428 original size:3 final size:3
Alignment explanation
Indices: 5897420--5897509 Score: 121
Period size: 3 Copynumber: 29.7 Consensus size: 3
5897410 TTTGTTGCCC
5897420 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
5897468 TAT TGT TAT TATT TAT TAT T-T TGAT TAT T-T ATAT TAG TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT -TAT TAT TAT TA
5897510 GAATAGTAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
2 3 0.04
3 69 0.88
4 6 0.08
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:5910791 original size:21 final size:21
Alignment explanation
Indices: 5910750--5910793 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5910740 AATCTCGTCC
*
5910750 TATTTTGTTTAATTAATTTAT
1 TATTTTGTTTAATAAATTTAT
*
5910771 TATTTTTTTTAA-AAATATTAT
1 TATTTTGTTTAATAAAT-TTAT
5910792 TA
1 TA
5910794 ATTAATTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTTGTTTAATAAATTTAT
Found at i:5913911 original size:21 final size:21
Alignment explanation
Indices: 5913886--5913971 Score: 72
Period size: 21 Copynumber: 4.1 Consensus size: 21
5913876 TATGTACACG
*
5913886 AAAATAATAATTACAATATTA
1 AAAATAATAATTACAATAATA
*
5913907 AAAATAATAAATAACAATAATA
1 AAAATAAT-AATTACAATAATA
*
5913929 AACAAGT-ATAA-TATAATAATA
1 AA-AA-TAATAATTACAATAATA
* *
5913950 AATA-AATAATTA-AATAGTA
1 AAAATAATAATTACAATAATA
5913969 AAA
1 AAA
5913972 TAGTTCAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
19 12 0.23
20 3 0.06
21 18 0.34
22 15 0.28
23 4 0.08
24 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAATAATAATTACAATAATA
Found at i:5915426 original size:44 final size:44
Alignment explanation
Indices: 5915376--5916392 Score: 577
Period size: 44 Copynumber: 22.9 Consensus size: 44
5915366 TTGTACCTTG
* * *
5915376 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTC
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
***
5915420 GATCTACTTTGC-CACCAGTATGGGAAGACAAGATCTGCTATCTTT
1 GATCTAC-TT-CACACCAGTACATGAAGACAAGATCTGCTATCTTT
* ** * * *
5915465 GATCTACCTCACGTCAATACATGAAGATAAGATCTACTATCTTT
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
** * *
5915509 GATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCTTT
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGC--T-ATCTTT
* *** *
5915556 CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
1 -GATCTACTTC-ACACCAGTACATGAAGACAAGATCTGCTATCTTT
* * * *
5915602 GATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTC
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
** * *** * * * * *
5915646 GATCTGTTTCGCCACCAGTATGGGAATATAAAATATG-TATATTT
1 GATCTACTTC-ACACCAGTACATGAAGACAAGATCTGCTATCTTT
* * * * * * *
5915690 GATCCACTTCGCTACC-GATATAGGAAGACAGGACCTACTATCTTT
1 GATCTACTTCAC-ACCAG-TACATGAAGACAAGATCTGCTATCTTT
* * * ** * *
5915735 GATCTACTTCACGCAAGTACATGAAGATAAGATCTATTTTCTTC
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
* ** * * * *
5915779 GATCTACTCCACCACCAGT--ATGGGGAGATAGAATATG-TATATTC
1 GATCTACTTCA-CACCAGTACATGAAGACA-AG-ATCTGCTATCTTT
* * * * * * *
5915823 GATCCACTTCGCTACC-GATATAGGAAGACAGGA-CATACTATATTT
1 GATCTACTTCAC-ACCAG-TACATGAAGACAAGATC-TGCTATCTTT
* * ** * *
5915868 GATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTC
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
* ** * * * *
5915912 GATCTACTCCACCACCAGT--ATGGGGAGATAGAATATG-TATATTC
1 GATCTACTTCA-CACCAGTACATGAAGACA-AG-ATCTGCTATCTTT
* * * * * * * *
5915956 GATCCACTTCGCTATC-GATATAGGAAGACAGGATCTACTATATTT
1 GATCTACTTCAC-ACCAG-TACATGAAGACAAGATCTGCTATCTTT
* * ** * *
5916001 GATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTC
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
* * *** *
5916045 GATATACTCCACCACCAGTATGGGAAGACAAGATCTGCTATATTT
1 GATCTACTTCA-CACCAGTACATGAAGACAAGATCTGCTATCTTT
*
5916090 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTT
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
* *** * *
5916134 GATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TTTCTTT
1 GATCTACTTCA-CACCAGTACATGAAGACAAGATCTGCTATCTTT
* * *
5916178 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTT
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
* *** * *
5916222 GATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TTTCTTT
1 GATCTACTTCA-CACCAGTACATGAAGACAAGATCTGCTATCTTT
* * * * *
5916266 GATCTACTTCGCGCCAGTACATGAAGACAAGATCTGTTTTCTTC
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
* *** * * *
5916310 GATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGTTAGCTTT
1 GATCTACTTC-ACACCAGTACATGAAGACAAGATCTGCTATCTTT
*
5916355 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
1 GATCTACTTCACACCAGTACATGAAGACAAGATCTGCT
5916393 GCTTTTCAAC
Statistics
Matches: 728, Mismatches: 206, Indels: 78
0.72 0.20 0.08
Matches are distributed among these distances:
43 59 0.08
44 377 0.52
45 240 0.33
46 17 0.02
47 6 0.01
48 10 0.01
49 19 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTATCTTT
Found at i:5915483 original size:89 final size:89
Alignment explanation
Indices: 5915376--5916392 Score: 718
Period size: 89 Copynumber: 11.4 Consensus size: 89
5915366 TTGTACCTTG
* * *
5915376 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTTGCCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTAT
5915441 GGGAAGACAAGATCTGCTATCTTT
66 GGGAAGACAAGATCTGCTATCTTT
* * * * *
5915465 GATCTACCTCACGTCAATACATGAAGATAAGATCTACTATCTTTGATCTACTTCATGCCA--A-T
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTC--GCCACCAGT
*** *
5915527 ACATGAAGACAAGATCTGCTTTCTTCTTT
64 ATGGGAAGACAAGATCTGC--T-ATCTTT
* * *** * * *
5915556 CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTC-ACGCCAGT
1 -GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGT
*** * * *
5915620 ACATGAAGACAAGATCTACTTTCTTC
64 ATGGGAAGACAAGATCTGCTATCTTT
** * * *** * * * * * * *
5915646 GATCTGTTTCGCCACCAGTATGGGAATATAAAATATG-TATATTTGATCCACTTCGCTACC-GAT
1 GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAG-T
* * * *
5915709 ATAGGAAGACAGGACCTACTATCTTT
64 ATGGGAAGACAAGATCTGCTATCTTT
* * ** * * * *
5915735 GATCTACTTCACGCAAGTACATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTAT
* * * * *
5915800 GGGGAGA-TAGAATATG-TATATTC
66 GGGAAGACAAG-ATCTGCTATCTTT
* * * * * * * * * *
5915823 GATCCACTTCGCTACC-GATATAGGAAGACAGGA-CATACTATATTTGATCTACTTC-ACGCCAG
1 GATCTACTTCAC-GCCAG-TACATGAAGACAAGATC-TGCTATCTTTGATCTACTTCGCCACCAG
*** * ** * *
5915885 TACATGAAGATAAGATCTATTTTCTTC
63 TATGGGAAGACAAGATCTGCTATCTTT
* * ** * * * * * * *
5915912 GATCTACTCCACCACCAGT--ATGGGGAGATAGAATATG-TATATTCGATCCACTTCGCTATC-G
1 GATCTACTTCA-CGCCAGTACATGAAGACA-AG-ATCTGCTATCTTTGATCTACTTCGCCACCAG
* * * *
5915973 ATATAGGAAGACAGGATCTACTATATTT
63 -TATGGGAAGACAAGATCTGCTATCTTT
* ** * * * * *
5916001 GATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTCGATATACTCCACCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTAT
*
5916066 GGGAAGACAAGATCTGCTATATTT
66 GGGAAGACAAGATCTGCTATCTTT
* *
5916090 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTCCACCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTAT
* *
5916155 GGGGAGACAAGATCTG-TTTCTTT
66 GGGAAGACAAGATCTGCTATCTTT
* * * *
5916178 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTAT
* *
5916243 GGGGAGACAAGATCTG-TTTCTTT
66 GGGAAGACAAGATCTGCTATCTTT
* * * *
5916266 GATCTACTTCGCGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTAT
* * *
5916331 GGGAAGATAAGATCTGTTAGCTTT
66 GGGAAGACAAGATCTGCTATCTTT
5916355 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
5916393 GCTTTTCAAC
Statistics
Matches: 739, Mismatches: 157, Indels: 64
0.77 0.16 0.07
Matches are distributed among these distances:
87 5 0.01
88 273 0.37
89 371 0.50
90 17 0.02
91 10 0.01
92 10 0.01
93 53 0.07
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (89 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTTCGCCACCAGTAT
GGGAAGACAAGATCTGCTATCTTT
Found at i:5915533 original size:133 final size:131
Alignment explanation
Indices: 5915376--5916392 Score: 775
Period size: 133 Copynumber: 7.6 Consensus size: 131
5915366 TTGTACCTTG
* * *
5915376 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTTGCCACCAGTAT
1 GATCTACTTCA-GCCAATATATGAAGACAAGATCTG-TATATTCGATCTACTTCGCCACCAGTAT
* * * * * *
5915441 GGGAAGACAAGATCTGCTATCTTTGATCTACCTCACGTCAATACATGAAGATAAGATCTACTATC
64 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTC
*
5915506 TTT
129 TTC
* * *
5915509 GATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCTTTCGATCTACTTCGCCACCA
1 GATCTACTTCA-GCCAATATATGAAGACAAGATCTG---T-AT-ATTCGATCTACTTCGCCACCA
* * * *
5915574 GTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTAC
60 GTATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTAT
5915639 TTTCTTC
125 TTTCTTC
** ** * * * * * * *
5915646 GATCTGTTTC-GCCACCAGTATGGGAATATAAAATATGTATATTTGATCCACTTCGCTACC-GAT
1 GATCTACTTCAGCCA--A-TATATGAAGACAAGATCTGTATATTCGATCTACTTCGCCACCAG-T
* * * *
5915709 ATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCAAGTACATGAAGATAAGATCTATTT
62 ATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTT
5915774 TCTTC
127 TCTTC
* ** ** * * * *
5915779 GATCTACTCCA-CCACCAGTATGGGGAGATAGAATATGTATATTCGATCCACTTCGCTACC-GAT
1 GATCTACTTCAGCCAATA-TATGAAGACA-AG-ATCTGTATATTCGATCTACTTCGCCACCAG-T
* * *
5915842 ATAGGAAGACAGGA-CATACTATATTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATT
62 ATAGGAAGACAAGATC-TGCTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATT
5915906 TTCTTC
126 TTCTTC
* ** ** * * * * *
5915912 GATCTACTCCA-CCACCAGTATGGGGAGATAGAATATGTATATTCGATCCACTTCGCTATC-GAT
1 GATCTACTTCAGCCAATA-TATGAAGACA-AG-ATCTGTATATTCGATCTACTTCGCCACCAG-T
* * *
5915975 ATAGGAAGACAGGATCTACTATATTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTT
62 ATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTT
5916040 TCTTC
127 TCTTC
* * ** * * *
5916045 GATATACTCCA-CCACCAGTATGGGAAGACAAGATCTGCTATATTTGATCTACTTC-ACGCCAGT
1 GATCTACTTCAGCCA--A-TATATGAAGACAAGATCTG-TATATTCGATCTACTTCGCCACCAGT
* * * * *** * * *
5916108 ACATGAAGACAAGATCTGCTATCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCT-GT
62 ATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACATGAAGATAAGATCTATT
*
5916172 TTCTTT
126 TTCTTC
* * * * * * *
5916178 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTAT
1 GATCTACTTCA-GCCAATATATGAAGACAAGATCTG-TATATTCGATCTACTTCGCCACCAGTAT
* * * * * *
5916243 GGGGAGACAAGATCTG-TTTCTTTGATCTACTTCGCGCCAGTACATGAAGACAAGATCTGTTTTC
64 AGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTC
5916307 TTC
129 TTC
** * * * *
5916310 GATCTACTTC-GCCACCAGTATGGGAAGATAAGATCTGT-TAGCTTTGATCTACTTC-ACGCCAG
1 GATCTACTTCAGCCA--A-TATATGAAGACAAGATCTGTATA--TTCGATCTACTTCGCCACCAG
* *
5916372 TACATGAAGACAAGATCTGCT
61 TATAGGAAGACAAGATCTGCT
5916393 GCTTTTCAAC
Statistics
Matches: 736, Mismatches: 118, Indels: 60
0.81 0.13 0.07
Matches are distributed among these distances:
130 5 0.01
131 24 0.03
132 85 0.12
133 463 0.63
134 38 0.05
135 14 0.02
136 2 0.00
137 93 0.13
138 12 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (131 bp):
GATCTACTTCAGCCAATATATGAAGACAAGATCTGTATATTCGATCTACTTCGCCACCAGTATAG
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTT
C
Found at i:5915778 original size:226 final size:222
Alignment explanation
Indices: 5915376--5916337 Score: 547
Period size: 222 Copynumber: 4.3 Consensus size: 222
5915366 TTGTACCTTG
*
5915376 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTTGCCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTTGCCACCAGTAT
* * * * * * *
5915441 GGGAAGACAAGATCTGCTATCTTTGATCTACCTCACGTCAATACATGAAGATAAGATCTACTATC
66 GGGAAGACAAAATATGCTATATTTGATCCACCTCACGTCAATACAGGAAGACAAGACCTACTATC
* * * *
5915506 TTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCTTTCGATCTACTTCGCCA
131 TTTGATCTACTTCACGCCAATACATGAAGACAAGATCT--ATT-TTC-TTCGATCTACTCCACCA
5915571 CCAGTATGGGAAGACAAGATCTGTTATCTTT
192 CCAGTATGGGAAGACAAGATCTGTTATCTTT
* * *
5915602 GATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCT-GTTTCGCCACCAGTA
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTT-GCCACCAGTA
* * * * * * *
5915666 TGGGAATATAAAATATG-TATATTTGATCCACTTCGC-TACCGATATAGGAAGACAGGACCTACT
65 TGGGAAGACAAAATATGCTATATTTGATCCACCTCACGT--CAATACAGGAAGACAAGACCTACT
*
5915729 ATCTTTGATCTACTTCACG-CAAGTACATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCA
128 ATCTTTGATCTACTTCACGCCAA-TACATGAAGACAAGATCTATTTTCTTCGATCTACTCCACCA
* * * * *
5915793 CCAGTATGGGGAGA-TAGAATATG-TATATTC
192 CCAGTATGGGAAGACAAG-ATCTGTTATCTTT
* * * * * * * * * *
5915823 GATCCACTTCGCTACCGATATAGGAAGACAGGA-CATACTATATTTGATCTAC-TT-CACGCCAG
1 GATCTACTTCAC-GCCAATACATGAAGACAAGATC-TACTATCTTCGATCTACTTTGC-CACCAG
*** * * * ** * * * * ** * ** * * *
5915885 TACATGAAGATAAGATCTATTTTCTTCGATCTA-CTCCACCACCAGTATGGGGAGA-TAGA-ATA
63 TATGGGAAGACAAAATATGCTATATTTGATCCACCT-CA-CGTCAATACAGGAAGACAAGACCTA
* * * * * ** * * * * * * * * *
5915947 TGTATATTCGATCCACTTCGCTATCGATATAGGAAGACAGGATCTACTATATTTGATCTACTTCA
126 -CTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTCCA
* *** * * * *
5916012 -CGCCAGTACATGAAGATAAGATCTATTTTCTTC
189 CCACCAGTATGGGAAGACAAGATCTGTTATCTTT
* * * * *** * * * *
5916045 GATATACTCCACCACCAGTATGGGAAGACAAGATCTGCTATATTTGATCTAC-TT-CACGCCAGT
1 GATCTACTTCA-CGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTTGC-CACCAGT
*** * * * * ** * ** * * *
5916108 ACATGAAGACAAGATCTGCTATCTTTGATCTA-CTCCACCACCAGTATGGGGAGACAAGATCT-G
64 ATGGGAAGACAAAATATGCTATATTTGATCCACCT-CA-CGTCAATACAGGAAGACAAGACCTAC
* * * *
5916171 TTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTACTCCACCA
127 TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTCCACCA
*
5916236 CCAGTATGGGGAGACAAGATCTGTT-TCTTT
192 CCAGTATGGGAAGACAAGATCTGTTATCTTT
* * ** * *
5916266 GATCTACTTCGCGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTTGCCACCAGTAT
5916331 GGGAAGA
66 GGGAAGA
5916338 TAAGATCTGT
Statistics
Matches: 566, Mismatches: 145, Indels: 55
0.74 0.19 0.07
Matches are distributed among these distances:
220 35 0.06
221 123 0.22
222 250 0.44
223 11 0.02
224 4 0.01
225 21 0.04
226 122 0.22
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (222 bp):
GATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTTGCCACCAGTAT
GGGAAGACAAAATATGCTATATTTGATCCACCTCACGTCAATACAGGAAGACAAGACCTACTATC
TTTGATCTACTTCACGCCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTCCACCACCAG
TATGGGAAGACAAGATCTGTTATCTTT
Found at i:5916118 original size:266 final size:263
Alignment explanation
Indices: 5915442--5916389 Score: 897
Period size: 266 Copynumber: 3.6 Consensus size: 263
5915432 CACCAGTATG
* * * * * * *
5915442 GGAAGACAAGATCTGCTATCTTTGATCTACCTCACGTCAATACATGAAGATAAGATCTACTATCT
1 GGAAGACAGGATCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCT
* * ** * *** * * * *
5915507 TTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTGCTTTCTTCTTTCGATCTACTTCGCCA
66 TCGATCTACTCCACCACCAGTATGGGAAGA-AAGATCTG---T-ATATTT-GATCTACTTC-ACG
*** ** *
5915571 CCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
124 CCAGTACATGAAGACAAGATCTACTATATTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
** * * * *
5915636 TACTTTCTTCGATCTGTTTCGCCACCAGTATGGGAATATAAAATATGTATATTTGATCCACTTCG
189 TACTTTCTTCGATCTACTTCACCACCAGTATGGGGACATAGAATATGTATATTTGATCCACTTCG
5915701 CTACCGATATA
254 CTA-CGATATA
* *
5915712 GGAAGACAGGACCTACTATCTTTGATCTACTTCACGCAAGTACATGAAGATAAGATCTATTTTCT
1 GGAAGACAGGATCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCT
* * * * * * *
5915777 TCGATCTACTCCACCACCAGTATGGGGAGATAGAATATGTATATTCGATCCACTTCGCTACC-GA
66 TCGATCTACTCCACCACCAGTATGGGAAGAAAG-ATCTGTATATTTGATCTACTTCAC-GCCAG-
* * * * *
5915841 TATAGGAAGACAGGA-CATACTATATTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTAT
128 TACATGAAGACAAGATC-TACTATATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTAC
* * *
5915905 TTTCTTCGATCTACTCCACCACCAGTATGGGGAGATAGAATATGTATATTCGATCCACTTCGCTA
192 TTTCTTCGATCTACTTCACCACCAGTATGGGGACATAGAATATGTATATTTGATCCACTTCGCTA
5915970 TCGATATA
257 -CGATATA
*
5915978 GGAAGACAGGATCTACTATATTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCT
1 GGAAGACAGGATCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCT
*
5916043 TCGATATACTCCACCACCAGTATGGGAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGT
66 TCGATCTACTCCACCACCAGTATGGGAAGA-AAGATCTG-TATATTTGATCTACTTCACGCCAGT
* * * * *** * *
5916108 ACATGAAGACAAGATCTGCTATCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCT-GT
129 ACATGAAGACAAGATCTACTATATTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTACT
* * ** * * * * * *
5916172 TTCTTTGATCTACTTCA-CGCCAGTACATGAAGACA-AG-ATCTGTTTTCTTTGATCTACTCCAC
193 TTCTTCGATCTACTTCACCACCAGT--ATGGGGACATAGAATATG-TATATTTGATCCACTTCGC
* * *
5916234 CACCAGTATG
255 TACGA-TATA
* * * * * * *
5916244 GGGAGACAAGATCT-GTTTCTTTGATCTACTTCGCGCCAGTACATGAAGACAAGATCTGTTTTCT
1 GGAAGACAGGATCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCT
* *
5916308 TCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGT-TAGCTTTGATCTACTTCACGCCAG
66 TCGATCTACTCCACCACCAGTATGGGAAGA-AAGATCTGTATA--TTTGATCTACTTCACGCCAG
5916372 TACATGAAGACAAGATCT
128 TACATGAAGACAAGATCT
5916390 GCTGCTTTTC
Statistics
Matches: 569, Mismatches: 93, Indels: 37
0.81 0.13 0.05
Matches are distributed among these distances:
263 2 0.00
264 1 0.00
265 132 0.23
266 304 0.53
267 47 0.08
268 1 0.00
270 69 0.12
271 13 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (263 bp):
GGAAGACAGGATCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCT
TCGATCTACTCCACCACCAGTATGGGAAGAAAGATCTGTATATTTGATCTACTTCACGCCAGTAC
ATGAAGACAAGATCTACTATATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTC
TTCGATCTACTTCACCACCAGTATGGGGACATAGAATATGTATATTTGATCCACTTCGCTACGAT
ATA
Found at i:5916390 original size:177 final size:177
Alignment explanation
Indices: 5915998--5916390 Score: 626
Period size: 177 Copynumber: 2.2 Consensus size: 177
5915988 ATCTACTATA
* *
5915998 TTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTCGATATACTCCACCACCAG
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATATACTCCACCACCAG
5916063 TATGGGAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
66 TATGGGAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
* * *
5916128 ATCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTC
131 ATCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTTGC
* *
5916175 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAG
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATATACTCCACCACCAG
* * * * *
5916240 TATGGGGAGACAAGATCTG-TTTCTTTGATCTACTTCGCGCCAGTACATGAAGACAAGATCTGTT
66 TATGGGAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
* * * *
5916304 TTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGTTAGC
131 ATCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTT-GC
5916352 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
5916391 CTGCTTTTCA
Statistics
Matches: 199, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
176 80 0.40
177 119 0.60
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (177 bp):
TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATATACTCCACCACCAG
TATGGGAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
ATCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTTGC
Found at i:5917694 original size:16 final size:16
Alignment explanation
Indices: 5917675--5917710 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5917665 TCTTTTTTCA
**
5917675 TTTTCACTTTTTCATT
1 TTTTCACTTCATCATT
5917691 TTTTCACTTCATCATT
1 TTTTCACTTCATCATT
5917707 TTTT
1 TTTT
5917711 AACGACTCAA
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:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCACTTCATCATT
Found at i:5917701 original size:21 final size:21
Alignment explanation
Indices: 5917662--5917701 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5917652 AGCCTCTCCA
*
5917662 TTTTCTTTTTTCATTTTCACT
1 TTTTCTTTTTTCATCTTCACT
5917683 TTTTCATTTTTTCA-CTTCA
1 TTTTC-TTTTTTCATCTTCA
5917702 TCATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTCTTTTTTCATCTTCACT
Found at i:5918602 original size:4 final size:4
Alignment explanation
Indices: 5918578--5918619 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
5918568 ATATACAAAA
* *
5918578 GAAT GTAT GAAT AATAT GAAT GAAT GAAT GAAT GAAT GAAT G
1 GAAT GAAT GAAT GA-AT GAAT GAAT GAAT GAAT GAAT GAAT G
5918620 GTTTGGCAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.29
Consensus pattern (4 bp):
GAAT
Found at i:5935983 original size:92 final size:92
Alignment explanation
Indices: 5935873--5936485 Score: 1066
Period size: 92 Copynumber: 6.7 Consensus size: 92
5935863 TTTCCTAATG
5935873 ACATTTGCTTTGTCACAACAAGGAGA-TCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTC
1 ACATTTGCTTTGTCACAACAAGGA-ACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTC
5935937 TTTTTCAGGAGACCATGGCCCTTTCTTC
65 TTTTTCAGGAGACCATGGCCCTTTCTTC
* *
5935965 ACATTTGCTTTGTCACAACAAGGAACTCTTCCCATTTCTCTATATAAACCTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
*
5936030 TTTTCAGGAGACCATGGCCCTTTCTTT
66 TTTTCAGGAGACCATGGCCCTTTCTTC
* * *
5936057 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTATCTATGATCCTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
*
5936122 TCTTCAGGAGACCATGGCCCTTTCTTC
66 TTTTCAGGAGACCATGGCCCTTTCTTC
* *
5936149 ACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCTTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
*
5936214 TTTTCAGGAGACCATGGCCCTTTCTTT
66 TTTTCAGGAGACCATGGCCCTTTCTTC
*
5936241 ACATTTGCTTTGTCACAACAAGGAACTCTTCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
5936306 TTTTCAGGAGACCATGGCCCTTTCTTC
66 TTTTCAGGAGACCATGGCCCTTTCTTC
* * *
5936333 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTATCTATGATCCTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
*
5936398 TCTTCAGGAGACCATGGCCCTTTCTTC
66 TTTTCAGGAGACCATGGCCCTTTCTTC
*
5936425 ACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGA
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGA
5936486 TTTACTCACT
Statistics
Matches: 490, Mismatches: 30, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
91 1 0.00
92 489 1.00
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.36
Consensus pattern (92 bp):
ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
TTTTCAGGAGACCATGGCCCTTTCTTC
Found at i:5936366 original size:276 final size:276
Alignment explanation
Indices: 5935873--5936485 Score: 1181
Period size: 276 Copynumber: 2.2 Consensus size: 276
5935863 TTTCCTAATG
*
5935873 ACATTTGCTTTGTCACAACAAGGAGATCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
5935938 TTTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTTCCCATTTC
66 TTTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTTCCCATTTC
*
5936003 TCTATATAAACCTTCAGCTTAGAGTCTTTTTCAGGAGACCATGGCCCTTTCTTTACATTTGCTTT
131 TCTATATAAACCTTCAGCTTAGAGTCTTTTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTT
5936068 GTCACAACAAGGAACTCTCCCCATTTCTATCTATGATCCTTCAGCTTAGAGTCTTCTTCAGGAGA
196 GTCACAACAAGGAACTCTCCCCATTTCTATCTATGATCCTTCAGCTTAGAGTCTTCTTCAGGAGA
5936133 CCATGGCCCTTTCTTC
261 CCATGGCCCTTTCTTC
*
5936149 ACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCTTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
*
5936214 TTTTCAGGAGACCATGGCCCTTTCTTTACATTTGCTTTGTCACAACAAGGAACTCTTCCCATTTC
66 TTTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTTCCCATTTC
*
5936279 TCTATATAATCCTTCAGCTTAGAGTCTTTTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTT
131 TCTATATAAACCTTCAGCTTAGAGTCTTTTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTT
5936344 GTCACAACAAGGAACTCTCCCCATTTCTATCTATGATCCTTCAGCTTAGAGTCTTCTTCAGGAGA
196 GTCACAACAAGGAACTCTCCCCATTTCTATCTATGATCCTTCAGCTTAGAGTCTTCTTCAGGAGA
5936409 CCATGGCCCTTTCTTC
261 CCATGGCCCTTTCTTC
5936425 ACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGA
1 ACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGA
5936486 TTTACTCACT
Statistics
Matches: 331, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
276 331 1.00
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.36
Consensus pattern (276 bp):
ACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
TTTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTTCCCATTTC
TCTATATAAACCTTCAGCTTAGAGTCTTTTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTT
GTCACAACAAGGAACTCTCCCCATTTCTATCTATGATCCTTCAGCTTAGAGTCTTCTTCAGGAGA
CCATGGCCCTTTCTTC
Found at i:5940997 original size:265 final size:265
Alignment explanation
Indices: 5940524--5941061 Score: 1067
Period size: 265 Copynumber: 2.0 Consensus size: 265
5940514 ATTTCTTCCG
5940524 TAACTTTTCAACATCTCAGCAACTTTTTTGTTAATGTTATTAATTTGTCAAGTTTTCATTCTCAA
1 TAACTTTTCAACATCTCAGCAACTTTTTTGTTAATGTTATTAATTTGTCAAGTTTTCATTCTCAA
5940589 CGGATTTGATATTTGAGCTGACTTATATGTTTACTCTTATAACCCACGTGATTATAAAATACAAC
66 CGGATTTGATATTTGAGCTGACTTATATGTTTACTCTTATAACCCACGTGATTATAAAATACAAC
5940654 ATAATCCAACGTCTGCTTTGGGACAATAATTTTATAAGATTAAAGAGGGAAATTCAGAGAATATT
131 ATAATCCAACGTCTGCTTTGGGACAATAATTTTATAAGATTAAAGAGGGAAATTCAGAGAATATT
5940719 TGTTCTTTTTTTAAAGATGAGATAAAAAAAATTATCTTGCGTATAATTTAGGGATCATAATCTTA
196 TGTTCTTTTTTTAAAGATGAGATAAAAAAAATTATCTTGCGTATAATTTAGGGATCATAATCTTA
5940784 ATATA
261 ATATA
5940789 TAACTTTTCAACATCTCAGCAACTTTTTTGTTAATGTTATTAATTTGTCAAGTTTTCATTCTCAA
1 TAACTTTTCAACATCTCAGCAACTTTTTTGTTAATGTTATTAATTTGTCAAGTTTTCATTCTCAA
5940854 CGGATTTGATATTTGAGCTGACTTATATGTTTACTCTTATAACCCACGTGATTATAAAATACAAC
66 CGGATTTGATATTTGAGCTGACTTATATGTTTACTCTTATAACCCACGTGATTATAAAATACAAC
*
5940919 ATAATCCAACGTCTGCTTTGGGACAATAATTTTATAAGATTAAAGGGGGAAATTCAGAGAATATT
131 ATAATCCAACGTCTGCTTTGGGACAATAATTTTATAAGATTAAAGAGGGAAATTCAGAGAATATT
5940984 TGTTCTTTTTTTAAAGATGAGATAAAAAAAATTATCTTGCGTATAATTTAGGGATCATAATCTTA
196 TGTTCTTTTTTTAAAGATGAGATAAAAAAAATTATCTTGCGTATAATTTAGGGATCATAATCTTA
5941049 ATATA
261 ATATA
5941054 TAACTTTT
1 TAACTTTT
5941062 GCACATTAAC
Statistics
Matches: 272, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
265 272 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (265 bp):
TAACTTTTCAACATCTCAGCAACTTTTTTGTTAATGTTATTAATTTGTCAAGTTTTCATTCTCAA
CGGATTTGATATTTGAGCTGACTTATATGTTTACTCTTATAACCCACGTGATTATAAAATACAAC
ATAATCCAACGTCTGCTTTGGGACAATAATTTTATAAGATTAAAGAGGGAAATTCAGAGAATATT
TGTTCTTTTTTTAAAGATGAGATAAAAAAAATTATCTTGCGTATAATTTAGGGATCATAATCTTA
ATATA
Found at i:5943708 original size:24 final size:24
Alignment explanation
Indices: 5943681--5943732 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
5943671 TTAGTAAGTC
*
5943681 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
5943705 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
5943729 AAAT
1 AAAT
5943733 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:5947655 original size:42 final size:42
Alignment explanation
Indices: 5947608--5947689 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
5947598 GTGCCCTAGC
** * *
5947608 CCGTGTCTTAAACCATGCAACTCACTGACTTGATGCACACGG
1 CCGTGTCGCAAACCATGCAACTCACTAACTTGATACACACGG
**
5947650 CCGTGTCGCAAACCATGTGACTCACTAACTTGATACACAC
1 CCGTGTCGCAAACCATGCAACTCACTAACTTGATACACAC
5947690 AATCGTGTCG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (42 bp):
CCGTGTCGCAAACCATGCAACTCACTAACTTGATACACACGG
Found at i:5947697 original size:42 final size:42
Alignment explanation
Indices: 5947608--5947701 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
5947598 GTGCCCTAGC
** * * **
5947608 CCGTGTCTTAAACCATGCAACTCACTGACTTGATGCACACGG
1 CCGTGTCGCAAACCATGCAACTCACTAACTTGATACACACAA
**
5947650 CCGTGTCGCAAACCATGTGACTCACTAACTTGATACACACAA
1 CCGTGTCGCAAACCATGCAACTCACTAACTTGATACACACAA
*
5947692 TCGTGTCGCA
1 CCGTGTCGCA
5947702 GACCGTCTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (42 bp):
CCGTGTCGCAAACCATGCAACTCACTAACTTGATACACACAA
Found at i:5948833 original size:14 final size:15
Alignment explanation
Indices: 5948814--5948844 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
5948804 CCCAAAACAA
5948814 AAATAACCT-AGCCC
1 AAATAACCTCAGCCC
5948828 AAATAACCTCAGCCC
1 AAATAACCTCAGCCC
5948843 AA
1 AA
5948845 CCAAACCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.45, C:0.35, G:0.06, T:0.13
Consensus pattern (15 bp):
AAATAACCTCAGCCC
Found at i:5949517 original size:3 final size:3
Alignment explanation
Indices: 5949509--5949590 Score: 155
Period size: 3 Copynumber: 27.3 Consensus size: 3
5949499 CCTAAAGAAA
*
5949509 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5949557 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
5949591 TTACCCTTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:5949663 original size:12 final size:12
Alignment explanation
Indices: 5949646--5949684 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5949636 AATTAATTAA
5949646 ATTTTCATTATT
1 ATTTTCATTATT
*
5949658 ATTTTCTATTTTT
1 ATTTTC-ATTATT
*
5949671 ATTTTTATTATT
1 ATTTTCATTATT
5949683 AT
1 AT
5949685 ATCATTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTTCATTATT
Found at i:5949720 original size:20 final size:21
Alignment explanation
Indices: 5949675--5949720 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
5949665 ATTTTTATTT
5949675 TTATT-ATTATATCATTAAAC
1 TTATTAATTATATCATTAAAC
* * *
5949695 TAATTAATT-TATTATTAATC
1 TTATTAATTATATCATTAAAC
5949715 TTATTA
1 TTATTA
5949721 CTATTACTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATTAATTATATCATTAAAC
Found at i:5952033 original size:18 final size:18
Alignment explanation
Indices: 5951996--5952054 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
5951986 CCAAATATTT
* *
5951996 AAATCCATAAAAAAT-AA
1 AAATTCATAAAAATTCAA
5952013 AAATT-ATATAAATATTCAA
1 AAATTCATA-AAA-ATTCAA
5952032 AAATTCATAAAAATTCAA
1 AAATTCATAAAAATTCAA
5952050 AAATT
1 AAATT
5952055 TAATATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.08
17 7 0.19
18 13 0.36
19 10 0.28
20 3 0.08
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATTCATAAAAATTCAA
Found at i:5962981 original size:4 final size:4
Alignment explanation
Indices: 5962972--5963039 Score: 54
Period size: 4 Copynumber: 17.2 Consensus size: 4
5962962 TAATGCACAC
* * *
5962972 ATAA ATAA ATAA ATAA AT-A TTAA ATGAA A-CA ATAA ATACA ATAA AGGAA
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATA-A ATAA A-TAA
5963021 ATAA ATAA AT-- ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA A
5963040 AGATGCGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
2 2 0.04
3 4 0.08
4 35 0.69
5 10 0.20
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:5963200 original size:89 final size:89
Alignment explanation
Indices: 5963050--5963412 Score: 584
Period size: 89 Copynumber: 4.1 Consensus size: 89
5963040 AGATGCGATA
* * *
5963050 AAGATCTGCTAT-TTCAGTCTGCTCCGCTGTCAGTATAGGGAGGCAAGGCTGGTGTCTTCGATCT
1 AAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCT
* * * *
5963114 ACTTCGCTACCAGTACAGGAAGGC
66 GCTCCGCTGCCAATACAGGAAGGC
5963138 AAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCT
1 AAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCT
*
5963203 GCTCCGCTGCCAATACTGGAAGGC
66 GCTCCGCTGCCAATACAGGAAGGC
*
5963227 AAGATCTGCTCTCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCT
1 AAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCT
5963292 GCTCCGCTGCCAATACAGGAAGGC
66 GCTCCGCTGCCAATACAGGAAGGC
* * *
5963316 ATGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGTAAGACTGGTGTCTTTGATCT
1 AAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCT
* *
5963381 GCTTCGCTGCCAGTACAGGAAGGC
66 GCTCCGCTGCCAATACAGGAAGGC
*
5963405 ATGATCTG
1 AAGATCTG
5963413 TAACTTTATT
Statistics
Matches: 258, Mismatches: 16, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
88 12 0.05
89 246 0.95
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.28
Consensus pattern (89 bp):
AAGATCTGCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCT
GCTCCGCTGCCAATACAGGAAGGC
Found at i:5963207 original size:44 final size:44
Alignment explanation
Indices: 5963067--5963405 Score: 351
Period size: 44 Copynumber: 7.6 Consensus size: 44
5963057 GCTATTTCAG
* * *
5963067 TCTGCTCCGCTGTCAGTATAGGGAGGCAAGGCTGGTGTCTTCGA
1 TCTGCTCCGCTGCCAGTACAGGAAGGCAAGGCTGGTGTCTTCGA
* * * * * *
5963111 TCTACTTCGCTACCAGTACAGGAAGGCAAGATCTGCTATCTTC-A
1 TCTGCTCCGCTGCCAGTACAGGAAGGCAAG-GCTGGTGTCTTCGA
* *
5963155 GTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGA
1 -TCTGCTCCGCTGCCAGTACAGGAAGGCAAGGCTGGTGTCTTCGA
* * * * *
5963200 TCTGCTCCGCTGCCAATACTGGAAGGCAAGATCTGCTCTCTTC-A
1 TCTGCTCCGCTGCCAGTACAGGAAGGCAAG-GCTGGTGTCTTCGA
* *
5963244 GTCTGCTCCGCTGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGA
1 -TCTGCTCCGCTGCCAGTACAGGAAGGCAAGGCTGGTGTCTTCGA
* * * * *
5963289 TCTGCTCCGCTGCCAATACAGGAAGGCATGATCTGCTATCTTC-A
1 TCTGCTCCGCTGCCAGTACAGGAAGGCAAG-GCTGGTGTCTTCGA
* * * *
5963333 GTCTGCTCCGCTGTCAGTACAGGAAGGTAAGACTGGTGTCTTTGA
1 -TCTGCTCCGCTGCCAGTACAGGAAGGCAAGGCTGGTGTCTTCGA
*
5963378 TCTGCTTCGCTGCCAGTACAGGAAGGCA
1 TCTGCTCCGCTGCCAGTACAGGAAGGCA
5963406 TGATCTGTAA
Statistics
Matches: 237, Mismatches: 49, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
44 130 0.55
45 107 0.45
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (44 bp):
TCTGCTCCGCTGCCAGTACAGGAAGGCAAGGCTGGTGTCTTCGA
Found at i:5964707 original size:18 final size:18
Alignment explanation
Indices: 5964686--5964725 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5964676 TGGCCTCTCC
*
5964686 TTTTTCT-TTCCTTTTCT
1 TTTTTCTCTTTCTTTTCT
*
5964703 TTTTTCTCTTTTTTTTCT
1 TTTTTCTCTTTCTTTTCT
5964721 TTTTT
1 TTTTT
5964726 GAAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTCTTTCTTTTCT
Found at i:5970236 original size:16 final size:16
Alignment explanation
Indices: 5970215--5970245 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5970205 TTCCTCTCGA
5970215 TAATCTTTTGCTTCAT
1 TAATCTTTTGCTTCAT
5970231 TAATCTTTTGCTTCA
1 TAATCTTTTGCTTCA
5970246 GACAGCCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (16 bp):
TAATCTTTTGCTTCAT
Found at i:5970622 original size:2 final size:2
Alignment explanation
Indices: 5970615--5970641 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5970605 GAATTTACAA
5970615 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
5970642 ACAATGCCTT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5970837 original size:30 final size:30
Alignment explanation
Indices: 5970786--5970870 Score: 108
Period size: 25 Copynumber: 3.0 Consensus size: 30
5970776 ATTTCTTATG
* *
5970786 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCTATATCTTTGACTTT
5970817 CCAATATTTGATACCTATATCTTTGAC-TT
1 CCAATATTTGATACCTATATCTTTGACTTT
5970846 ----TATTTGATACCTATATCTTTGACTT
1 CCAATATTTGATACCTATATCTTTGACTT
5970871 ACCATAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
25 23 0.45
26 1 0.02
29 2 0.04
30 18 0.35
31 7 0.14
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.45
Consensus pattern (30 bp):
CCAATATTTGATACCTATATCTTTGACTTT
Found at i:5971710 original size:28 final size:26
Alignment explanation
Indices: 5971663--5971717 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
5971653 TAAAGCATCT
* *
5971663 AAAAAAAAATTTCCCCCTTTAATCAA
1 AAAAAAAAATTCCCCCCTTTAAACAA
5971689 AAAAAAAAATTCCCCCAACTTTAAACAA
1 AAAAAAAAATTCCCCC--CTTTAAACAA
5971717 A
1 A
5971718 CCTAAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.60
28 10 0.40
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.22
Consensus pattern (26 bp):
AAAAAAAAATTCCCCCCTTTAAACAA
Found at i:5971728 original size:25 final size:26
Alignment explanation
Indices: 5971700--5971753 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
5971690 AAAAAAAATT
5971700 CCCCCAAC-TTTAAACAAACCTAAAA
1 CCCCCAACTTTTAAACAAACCTAAAA
*
5971725 -CCCCATCTTTTTAAACAAACCTAAAA
1 CCCCCAAC-TTTTAAACAAACCTAAAA
5971751 CCC
1 CCC
5971754 TATTGTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 6 0.24
26 17 0.68
27 2 0.08
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (26 bp):
CCCCCAACTTTTAAACAAACCTAAAA
Found at i:5973080 original size:16 final size:16
Alignment explanation
Indices: 5973059--5973098 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5973049 CGAATTACAA
*
5973059 AAGAAAGAGGAGATAG
1 AAGAAAGAGGAGAGAG
* *
5973075 AAGAAAGATGAGAGGG
1 AAGAAAGAGGAGAGAG
5973091 AAGAAAGA
1 AAGAAAGA
5973099 AAAGAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (16 bp):
AAGAAAGAGGAGAGAG
Found at i:5973136 original size:14 final size:15
Alignment explanation
Indices: 5973096--5973142 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
5973086 GAGGGAAGAA
*
5973096 AGAAAAGAAGAAAGGA
1 AGAAAAGAA-AAAGGG
5973112 AGAAAATGAAAAAGGG
1 AGAAAA-GAAAAAGGG
*
5973128 AG-AAAGAAAAGGGG
1 AGAAAAGAAAAAGGG
5973142 A
1 A
5973143 AGAGGGGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 13 0.46
17 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (15 bp):
AGAAAAGAAAAAGGG
Found at i:5973247 original size:4 final size:4
Alignment explanation
Indices: 5973240--5973297 Score: 52
Period size: 4 Copynumber: 14.8 Consensus size: 4
5973230 GAAGGAAAAA
*
5973240 AAAG AAAG AAAG AAAG AAAGG AGAAG -AA- AAAG AGAG AAA- AAAGG AAAG
1 AAAG AAAG AAAG AAAG AAA-G A-AAG AAAG AAAG AAAG AAAG AAA-G AAAG
5973288 AAA- AAAG AAA
1 AAAG AAAG AAA
5973298 AATCAACAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
3 10 0.22
4 27 0.60
5 6 0.13
6 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:5973265 original size:32 final size:32
Alignment explanation
Indices: 5973229--5973290 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
5973219 GACCCGAAGA
5973229 AGAAGGAAAAA-AAAGAAAGAAA-GAAAGAAAGG
1 AGAA-GAAAAAGAAAGAAA-AAAGGAAAGAAAGG
*
5973261 AGAAGAAAAAGAGAGAAAAAAGGAAAGAAA
1 AGAAGAAAAAGAAAGAAAAAAGGAAAGAAA
5973291 AAAGAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (32 bp):
AGAAGAAAAAGAAAGAAAAAAGGAAAGAAAGG
Found at i:5973269 original size:28 final size:26
Alignment explanation
Indices: 5973231--5973293 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
5973221 CCCGAAGAAG
5973231 AAGGAAAAAAAAGAAAGAAAGAAA-GA
1 AAGGAAAAAAAAGAAAGAAA-AAAGGA
*
5973257 AAGGAGAAGAAAAAGAGAGAAAAAAGGA
1 AAGGA-AA-AAAAAGAAAGAAAAAAGGA
5973285 AA-GAAAAAA
1 AAGGAAAAAA
5973294 GAAAAATCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 3 0.09
26 7 0.21
27 7 0.21
28 16 0.48
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (26 bp):
AAGGAAAAAAAAGAAAGAAAAAAGGA
Found at i:5973281 original size:11 final size:11
Alignment explanation
Indices: 5973235--5973297 Score: 60
Period size: 12 Copynumber: 5.8 Consensus size: 11
5973225 AAGAAGAAGG
5973235 AAAAA-AAAGA
1 AAAAAGAAAGA
5973245 AAGAAAGAAAGA
1 AA-AAAGAAAGA
**
5973257 AAGGAG-AAG-
1 AAAAAGAAAGA
*
5973266 AAAAAGAGAGA
1 AAAAAGAAAGA
5973277 AAAAAGGAAAGA
1 AAAAA-GAAAGA
5973289 AAAAAGAAA
1 AAAAAGAAA
5973298 AATCAACAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
9 4 0.10
10 7 0.17
11 14 0.33
12 17 0.40
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:5973482 original size:11 final size:11
Alignment explanation
Indices: 5973466--5973492 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5973456 GACCCAGTAG
5973466 CGCAGGCCCAA
1 CGCAGGCCCAA
5973477 CGCAGGCCCAA
1 CGCAGGCCCAA
5973488 CGCAG
1 CGCAG
5973493 ACTAGCAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.44, G:0.30, T:0.00
Consensus pattern (11 bp):
CGCAGGCCCAA
Found at i:5973575 original size:8 final size:8
Alignment explanation
Indices: 5973564--5973598 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
5973554 AGCTAGAAAA
5973564 AAAAAGAG
1 AAAAAGAG
5973572 AAAAA-AG
1 AAAAAGAG
5973579 AAAAAGAG
1 AAAAAGAG
5973587 AAAAAGA-
1 AAAAAGAG
5973594 AAAAA
1 AAAAA
5973599 AAGGGGTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 12 0.46
8 14 0.54
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAGAG
Found at i:5973584 original size:15 final size:14
Alignment explanation
Indices: 5973560--5973597 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
5973550 GCCCAGCTAG
5973560 AAAA-AAAAAGAGAA
1 AAAAGAAAAAGAG-A
5973574 AAAAGAAAAAGAGA
1 AAAAGAAAAAGAGA
5973588 AAAAGAAAAA
1 AAAAGAAAAA
5973598 AAAGGGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAGA
Found at i:5973598 original size:15 final size:14
Alignment explanation
Indices: 5973560--5973598 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
5973550 GCCCAGCTAG
5973560 AAAAAAAAAGAGAA
1 AAAAAAAAAGAGAA
5973574 AAAAGAAAAAGAGAA
1 AAAA-AAAAAGAGAA
5973589 AAAGAAAAAA
1 AAA-AAAAAA
5973599 AAGGGGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.17
15 18 0.78
16 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAGAA
Found at i:5974101 original size:18 final size:18
Alignment explanation
Indices: 5974078--5974517 Score: 163
Period size: 18 Copynumber: 23.5 Consensus size: 18
5974068 AAAAATCGGG
5974078 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
5974096 TTTCAAAAAAATTTCTCGTG-
1 TTTC--AAAAATTT-TCGTGT
* *
5974116 TTTCAAAAAATTCCGTGT
1 TTTCAAAAATTTTCGTGT
* ***
5974134 TTTTAAAAAAAATCGTGT
1 TTTCAAAAATTTTCGTGT
* *
5974152 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTTTCGTGT
*
5974169 TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
5974187 TTTC-AAAA-TTCCAGTG-
1 TTTCAAAAATTTTC-GTGT
5974203 TTTCAAAAATTTTCCGTG-
1 TTTCAAAAATTTT-CGTGT
* * *
5974221 CTTCATAAATTTCCGTGT
1 TTTCAAAAATTTTCGTGT
** **
5974239 TTTCAAAAAAAAATTCCCGT
1 TTTC--AAAAATTTTCGTGT
*
5974259 CTTTCAAAAATTTTCATGT
1 -TTTCAAAAATTTTCGTGT
**
5974278 TTTCAAAAATTGACCGTG-
1 TTTCAAAAATT-TTCGTGT
*
5974296 TTTCATAAATTTTCGTG-
1 TTTCAAAAATTTTCGTGT
*
5974313 TTTCAAAAAAAATCCTCGTGTTTCGTAT
1 TTTC---AAAAA------T-TTTCGTGT
** *
5974341 TTCATCAAAAATTTTTATAT
1 TT--TCAAAAATTTTCGTGT
5974361 TTTCAAAAACAAATTTT-GTGT
1 TTTC---AA-AAATTTTCGTGT
5974382 TTT-AAAAATTTTCGTG-
1 TTTCAAAAATTTTCGTGT
**
5974398 TTTCAAAAAGAAAATTCGTGT
1 TTTC--AAA-AATTTTCGTGT
* *
5974419 TTTCAAAAAAAAATCTCGTG-
1 TTTC---AAAAATTTTCGTGT
5974439 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
* **
5974456 TTTAAAAAAAATTCGTG-
1 TTTCAAAAATTTTCGTGT
* *
5974473 TTTCTAAAATTCTT-GTAT
1 TTTCAAAAATT-TTCGTGT
* *
5974491 TTTAAAAAAATTTCGTGT
1 TTTCAAAAATTTTCGTGT
5974509 TTTCAAAAA
1 TTTCAAAAA
5974518 AAAAGAAAAA
Statistics
Matches: 317, Mismatches: 62, Indels: 86
0.68 0.13 0.18
Matches are distributed among these distances:
16 26 0.08
17 60 0.19
18 113 0.36
19 17 0.05
20 44 0.14
21 29 0.09
22 12 0.04
26 1 0.00
27 11 0.03
28 2 0.01
30 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:5974160 original size:35 final size:35
Alignment explanation
Indices: 5974066--5974326 Score: 133
Period size: 35 Copynumber: 7.3 Consensus size: 35
5974056 CGGTACTTCT
* *
5974066 AAAAAAATCG-GGTTTCAAAAATTTTCGTGTTTTCA
1 AAAAAAATCGTGTTTTCAAAAA-TTCCGTGTTTTCA
* *
5974101 AAAAAATTTC-TCGTGTTTCAAAAAATTCCGTGTTTTTA
1 AAAAAA-ATCGT-GT-TTTC-AAAAATTCCGTGTTTTCA
*
5974139 AAAAAAATCGTGTTTTCAAAAATTCTCATG-TTTCA
1 AAAAAAATCGTGTTTTCAAAAATTC-CGTGTTTTCA
***
5974174 AAAATCTTCGTGTTTTC-AAAATTCCAGTG-TTTCA
1 AAAAAAATCGTGTTTTCAAAAATTCC-GTGTTTTCA
*** * *
5974208 AAAATTTTCCGTG-CTTCATAAATTTCCGTGTTTTCAA
1 AAAAAAAT-CGTGTTTTCA-AAAATTCCGTGTTTTC-A
** * *
5974245 AAAAAAATTCCCGTCTTTCAAAAATTTTCATGTTTTCA
1 AAAAAAA-TCGTGT-TTTCAAAAA-TTCCGTGTTTTCA
** * * *
5974283 AAAATTGACCGTG-TTTCATAAATTTTCGTG-TTTCA
1 AAAA-AAATCGTGTTTTCA-AAAATTCCGTGTTTTCA
5974318 AAAAAAATC
1 AAAAAAATC
5974327 CTCGTGTTTC
Statistics
Matches: 174, Mismatches: 33, Indels: 39
0.71 0.13 0.16
Matches are distributed among these distances:
33 1 0.01
34 26 0.15
35 48 0.28
36 31 0.18
37 15 0.09
38 33 0.19
39 20 0.11
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (35 bp):
AAAAAAATCGTGTTTTCAAAAATTCCGTGTTTTCA
Found at i:5974176 original size:16 final size:16
Alignment explanation
Indices: 5974152--5974210 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
5974142 AAAATCGTGT
5974152 TTTCAAAAATTCTCATG
1 TTTC-AAAATTCTCATG
* *
5974169 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TCATG
5974186 TTTTCAAAATTC-CAGTG
1 -TTTCAAAATTCTCA-TG
5974203 TTTCAAAA
1 TTTCAAAA
5974211 ATTTTCCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 15 0.43
17 10 0.29
18 10 0.29
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (16 bp):
TTTCAAAATTCTCATG
Found at i:5974463 original size:35 final size:35
Alignment explanation
Indices: 5974412--5974516 Score: 133
Period size: 35 Copynumber: 2.9 Consensus size: 35
5974402 AAAAAGAAAA
5974412 TTCGTGTTTTCAAAAAAAAATCTCGTGTTTCAAAATT-
1 TTCGTGTTTT--AAAAAAAAT-TCGTGTTTCAAAATTC
5974449 TTCGTGTTTTAAAAAAAATTCGTGTTTCTAAAATTC
1 TTCGTGTTTTAAAAAAAATTCGTGTTTC-AAAATTC
* *
5974485 TT-GTATTTTAAAAAAATTTCGTGTTTTCAAAA
1 TTCGTGTTTTAAAAAAAATTCGTG-TTTCAAAA
5974517 AAAAAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
34 9 0.14
35 38 0.60
36 6 0.10
37 10 0.16
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.44
Consensus pattern (35 bp):
TTCGTGTTTTAAAAAAAATTCGTGTTTCAAAATTC
Found at i:5974520 original size:20 final size:20
Alignment explanation
Indices: 5974360--5974520 Score: 102
Period size: 20 Copynumber: 8.7 Consensus size: 20
5974350 AATTTTTATA
*
5974360 TTTTCAAAAACAAATTTTGTG
1 TTTTCAAAAA-AAATTTCGTG
*
5974381 TTTT---AAAAATTTTCGTG
1 TTTTCAAAAAAAATTTCGTG
*
5974398 -TTTCAAAAAGAAAATTCGTG
1 TTTTCAAAAA-AAATTTCGTG
*
5974418 TTTTCAAAAAAAAATCTCGTG
1 TTTTC-AAAAAAAATTTCGTG
*
5974439 -TTTC---AAAATTTTCGTG
1 TTTTCAAAAAAAATTTCGTG
5974455 TTTT-AAAAAAAA-TTCGTG
1 TTTTCAAAAAAAATTTCGTG
* *
5974473 -TTTC---TAAAA-TTCTTG
1 TTTTCAAAAAAAATTTCGTG
*
5974488 TATTT-TAAAAAAATTTCGTG
1 T-TTTCAAAAAAAATTTCGTG
5974508 TTTTCAAAAAAAA
1 TTTTCAAAAAAAA
5974521 AGAAAAAAAT
Statistics
Matches: 108, Mismatches: 14, Indels: 37
0.68 0.09 0.23
Matches are distributed among these distances:
15 9 0.08
16 13 0.12
17 17 0.16
18 9 0.08
19 14 0.13
20 25 0.23
21 16 0.15
22 5 0.05
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTTCAAAAAAAATTTCGTG
Found at i:5995481 original size:38 final size:38
Alignment explanation
Indices: 5995438--5995513 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
5995428 TCAAATCTAC
* * *
5995438 TCATCCTTTAAATGATTTAAGGATTCTTTTTCTTTTAA
1 TCATCCTTTAAATGATCTAAAGATTCTGTTTCTTTTAA
5995476 TCATCCTTTAAATGATCTAAAGATTCTGTTTCTTTTAA
1 TCATCCTTTAAATGATCTAAAGATTCTGTTTCTTTTAA
5995514 GATTTCACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (38 bp):
TCATCCTTTAAATGATCTAAAGATTCTGTTTCTTTTAA
Found at i:5997297 original size:3 final size:3
Alignment explanation
Indices: 5997291--5997330 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
5997281 TAATCAAAAA
* *
5997291 AAT AAT AAC AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5997331 GGGCGACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:5999070 original size:5 final size:5
Alignment explanation
Indices: 5999060--5999093 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
5999050 CAGATTCTTT
*
5999060 TTTTA TTTTA TTTTTA TTTTA TTTTC TTTTA TTT
1 TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTT
5999094 GTCGCTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:5999075 original size:11 final size:11
Alignment explanation
Indices: 5999059--5999093 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
5999049 TCAGATTCTT
5999059 TTTTTATTTTA
1 TTTTTATTTTA
5999070 TTTTTATTTTA
1 TTTTTATTTTA
*
5999081 -TTTTCTTTTA
1 TTTTTATTTTA
5999091 TTT
1 TTT
5999094 GTCGCTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:6000161 original size:40 final size:39
Alignment explanation
Indices: 6000100--6000197 Score: 157
Period size: 40 Copynumber: 2.6 Consensus size: 39
6000090 GAATAATAAA
*
6000100 TTTTTT-ATTTTTTTATTTTAAAATTTTTTTAAAATACT
1 TTTTTTAATTTTTTTATTTTAAAATATTTTTAAAATACT
6000138 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTTTT-ATTTTAAAATATTTTTAAAATACT
6000178 TTTTTTAA--TTTTTATTTTAA
1 TTTTTTAATTTTTTTATTTTAA
6000198 TTTTTAAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
37 7 0.12
38 11 0.19
39 8 0.14
40 31 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (39 bp):
TTTTTTAATTTTTTTATTTTAAAATATTTTTAAAATACT
Found at i:6005628 original size:27 final size:27
Alignment explanation
Indices: 6005589--6005648 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
6005579 TATTACAAAT
6005589 CCAAGTTTGTGTGTGCAGATTTTCCGA
1 CCAAGTTTGTGTGTGCAGATTTTCCGA
6005616 CCAAGTTCT-TGTGTGCAGATTTTCCGA
1 CCAAGTT-TGTGTGTGCAGATTTTCCGA
*
6005643 ACAAGT
1 CCAAGT
6005649 CAACTTCCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (27 bp):
CCAAGTTTGTGTGTGCAGATTTTCCGA
Found at i:6006455 original size:2 final size:2
Alignment explanation
Indices: 6006448--6006482 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6006438 TTTAAGATGC
6006448 TA TA 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 TA TA T
6006483 TTCTAACTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6008336 original size:9 final size:9
Alignment explanation
Indices: 6008320--6008361 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
6008310 GAGTTAAACG
6008320 AATCGAGTT
1 AATCGAGTT
*
6008329 ATTCGAGTT
1 AATCGAGTT
6008338 AATCGAGTT
1 AATCGAGTT
6008347 AATCGAGTT
1 AATCGAGTT
*
6008356 ATTCGA
1 AATCGA
6008362 ATCAACTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (9 bp):
AATCGAGTT
Found at i:6008434 original size:9 final size:9
Alignment explanation
Indices: 6008417--6008471 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
6008407 TGAGTTTTCG
6008417 AATTCGAAT
1 AATTCGAAT
*
6008426 AACTCGAAT
1 AATTCGAAT
6008435 AATTCGAAT
1 AATTCGAAT
*
6008444 AACTCGAAT
1 AATTCGAAT
6008453 AATTCGAAT
1 AATTCGAAT
6008462 AATTCGAAT
1 AATTCGAAT
6008471 A
1 A
6008472 TCAAACTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6008719 original size:30 final size:31
Alignment explanation
Indices: 6008685--6008744 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
6008675 AAACCTTTTA
*
6008685 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
6008715 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
6008745 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
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:6010804 original size:3 final size:3
Alignment explanation
Indices: 6010796--6010841 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6010786 TTTGTTAACT
6010796 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6010842 ATTTCCATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6011422 original size:110 final size:109
Alignment explanation
Indices: 6011229--6011462 Score: 396
Period size: 110 Copynumber: 2.1 Consensus size: 109
6011219 ATTCGTTTTT
* *
6011229 GTTTGGAAATTCGAGAAAATATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 GTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCTCATTCAACCAAATG
* *
6011294 GCTTAATATCCTTTTAAAAATTTTTAAAATAAGGCAATGTTTTGC
66 GCTTAATATCCTTTTAAAAA-ATTTAAAATAAGGCAATGTTTTGA
* * *
6011339 GTTTGAAAATTCGAGCAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCTCGTTCAACCAAATG
1 GTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCTCATTCAACCAAATG
6011404 GCTTAATATCCTTTTAAAAAATTTAAAATAAGGCAATGTTTTGA
66 GCTTAATATCCTTTTAAAAAATTTAAAATAAGGCAATGTTTTGA
6011448 GTTTGGAAATTCGAG
1 GTTTGGAAATTCGAG
6011463 GAACGTGTCC
Statistics
Matches: 116, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
109 36 0.31
110 80 0.69
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
GTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCTCATTCAACCAAATG
GCTTAATATCCTTTTAAAAAATTTAAAATAAGGCAATGTTTTGA
Found at i:6025401 original size:2 final size:2
Alignment explanation
Indices: 6025396--6025434 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6025386 TATATATATA
6025396 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
6025435 TTTATTATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:6025998 original size:3 final size:3
Alignment explanation
Indices: 6025992--6026032 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6025982 GTAATATGAA
*
6025992 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6026033 GGAAATAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6026482 original size:57 final size:59
Alignment explanation
Indices: 6026370--6026515 Score: 192
Period size: 57 Copynumber: 2.5 Consensus size: 59
6026360 ATTGACGGTA
* *
6026370 AAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCTGAAGAATATGTGTG
1 AAAATGATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-G
6026432 AAAATGATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAATGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
* *
6026488 -AAATGGATTTAGCCCGGACGGGTAATCC
1 AAAAT-GATCTAGCCCGGACGGGTGATCC
6026516 GAATTAAGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
55 4 0.05
56 20 0.26
57 27 0.35
59 1 0.01
61 1 0.01
62 25 0.32
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (59 bp):
AAAATGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:6030584 original size:2 final size:2
Alignment explanation
Indices: 6030579--6030613 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6030569 TATATATATA
6030579 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
6030614 TTTATTATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:6031111 original size:100 final size:100
Alignment explanation
Indices: 6030938--6031604 Score: 915
Period size: 100 Copynumber: 6.7 Consensus size: 100
6030928 GGGTGTTACA
* * * ** * *
6030938 CAGCGGAACAGATTGAAGCTACGATGGCGAATCTCACTTCCCCGACATTGCAATCCAAATGATCG
1 CAGCGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTG
*
6031003 AAGCCACAACGACGAATCTTACTTCCCAGGCGATG
66 AAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
* * *
6031038 CAGCGGAACAGATTGAAGCTACAACGGCGAATTTTGCTTCCCCGACATTGCAGTTTAAAAGATTG
1 CAGCGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTG
*
6031103 AAGCCACAACGGCGAATCTTACTTCCCAGGCAATG
66 AAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
* * * ** * *
6031138 CAGCGGAACAGATTGAAGCTACAACGGCAAATTTTGCTTCCCTAACATTTCAATTTAAAAGTTTG
1 CAGCGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTG
*
6031203 AAGCCACAACGGCGAATCTTACTTCCCAGGCGATT
66 AAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
* * * * * * *
6031238 CAGCGGAATAGATTGAAGCTACGACGGTGAATCTCACTTCCCTGACATTGCAATTCAAAAGATCG
1 CAGCGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTG
* * *
6031303 AAGCCACAACGACGAATCTTACTTTCCAGGCGATA
66 AAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
* * * *
6031338 CAGCGGAATAGATTGAAGCTACAACGGTGAATTTTGCTTCCCCGACATTGCAATTTAAAAGATTG
1 CAGCGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTG
6031403 AAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
66 AAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
* *
6031438 CAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCCTGACATTGCAA-TTAACAAGATT
1 CAGCGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTTAA-AAGATT
* * *
6031502 GAAGCCACAATGGCGGATCTTACTTCCCAGACGATG
65 GAAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
* * * *
6031538 CAACGGAACAGATTGAAGCTACAACGACGAATCTTACTTCCCCGACATTG-GAGTTAAACAGATT
1 CAGCGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTTAAA-AGATT
6031602 GAA
65 GAA
6031605 AGTCACAGAT
Statistics
Matches: 505, Mismatches: 59, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
99 6 0.01
100 499 0.99
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (100 bp):
CAGCGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTG
AAGCCACAACGGCGAATCTTACTTCCCAGGCGATG
Found at i:6031598 original size:50 final size:50
Alignment explanation
Indices: 6030944--6031604 Score: 473
Period size: 50 Copynumber: 13.2 Consensus size: 50
6030934 TACACAGCGG
* * * * * *
6030944 AACAGATTGAAGCTACGATGGCGAATCTCACTTCCCCGACATTGCAATCCA
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAGT-GA
* * * * * * *
6030995 AA-TGATCGAAGCCACAACGACGAATCTTACTTCCCAGGCGA-TGCAGCGG
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGAC-ATTGCAGTGA
* * * *
6031044 AACAGATTGAAGCTACAACGGCGAATTTTGCTTCCCCGACATTGCAGTTTA
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAG-TGA
* * * * *
6031095 AA-AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCAATGCAGCGG
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAGTGA
* * * * * *
6031144 AACAGATTGAAGCTACAACGGCAAATTTTGCTTCCCTA-ACATTTCAATTTA
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCC-AGACATTGC-AGTGA
* * * * *
6031195 AA-AGTTTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATT-CAGCGG
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGAC-ATTGCAGTGA
* * * * * * *
6031244 AATAGATTGAAGCTACGACGGTGAATCTCACTTCCCTGACATTGCAATTCA
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGC-AGTGA
* * * * * * * *
6031295 AA-AGATCGAAGCCACAACGACGAATCTTACTTTCCAGGCGA-TACAGCGG
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGAC-ATTGCAGTGA
* * * * * * *
6031344 AATAGATTGAAGCTACAACGGTGAATTTTGCTTCCCCGACATTGCAATTTA
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGC-AGTGA
* * * *
6031395 AA-AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGG
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGAC-ATTGCAGTGA
* * * *
6031444 AACAGATTGAAGCTACAACGGCGAATCTCACTTCCCTGACATTGCAAT-T
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAGTGA
* * * ** *
6031493 AACAAGATTGAAGCCACAATGGCGGATCTTACTTCCCAGACGA-TGCAACGG
1 AAC-AGATTGAAGCTACAACGGCGAATCTTACTTCCCAGAC-ATTGCAGTGA
* * * *
6031544 AACAGATTGAAGCTACAACGACGAATCTTACTTCCCCGACATTGGAGTTA
1 AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAGTGA
6031594 AACAGATTGAA
1 AACAGATTGAA
6031605 AGTCACAGAT
Statistics
Matches: 460, Mismatches: 127, Indels: 47
0.73 0.20 0.07
Matches are distributed among these distances:
49 24 0.05
50 412 0.90
51 24 0.05
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (50 bp):
AACAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAGTGA
Found at i:6031750 original size:44 final size:43
Alignment explanation
Indices: 6031610--6031902 Score: 211
Period size: 44 Copynumber: 6.8 Consensus size: 43
6031600 TTGAAAGTCA
* ***
6031610 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCATC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAATC
* * * * ** *
6031652 CAG-TCTTATCTCCCTAAAGTTGTAGTGGAGCAGACAGAAGAAAC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGA-TTAA-AATC
* * * *
6031696 CA-ATCCTATCTCTCTGAAGTTTCAGTTGAGTGGATTAAAATC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAATC
* * * ***
6031738 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATA-TCGCATC
1 -CAGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAATC
* * ** *
6031781 CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGA-TTAA-AATC
* * * *
6031825 CA-ATCCTATCTCTCTGAAATTGCAGTAGAGTAGATTAAAGTC
1 CAGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAATC
*
6031867 ACAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA
1 -CAGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGA
6031903 CCAAAGCCAT
Statistics
Matches: 188, Mismatches: 51, Indels: 22
0.72 0.20 0.08
Matches are distributed among these distances:
41 54 0.29
42 11 0.06
43 12 0.06
44 111 0.59
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (43 bp):
CAGATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAATC
Found at i:6031837 original size:129 final size:129
Alignment explanation
Indices: 6031597--6031894 Score: 497
Period size: 129 Copynumber: 2.3 Consensus size: 129
6031587 GGAGTTAAAC
*
6031597 AGATTGAAAGTCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCCAGTCTTATC
1 AGATT-AAAGTCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATC
* * * *
6031662 TCCCTAAAGTTGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAGTTTCAGTTGAGT
65 TCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAATTGCAGTAGAGT
* * *
6031727 GGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATATCGCATCCAGTCTTATCT
1 AGATTAAAGTCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCT
*
6031792 CCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAATTGCAGTAGAGT
66 CCCTAAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAATTGCAGTAGAGT
*
6031856 AGATTAAAGTCACAGATCTTATCTCCCTGAAGTTGCAGT
1 AGATTAAAGTCACAGATCTTATCTCTCTGAAGTTGCAGT
6031895 GGAGTAGACC
Statistics
Matches: 156, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
129 152 0.97
130 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (129 bp):
AGATTAAAGTCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCT
CCCTAAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTGAAATTGCAGTAGAGT
Found at i:6033464 original size:3 final size:3
Alignment explanation
Indices: 6033456--6033495 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6033446 TTTGTTAACT
6033456 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6033496 ATTTCCATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6034446 original size:110 final size:109
Alignment explanation
Indices: 6034068--6034550 Score: 779
Period size: 109 Copynumber: 4.4 Consensus size: 109
6034058 TTTCTAATTG
*
6034068 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCTTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* *
6034133 CGTTCAAACAAATGGCTTAATATCCTTTTAAAAATTTTAAAACA
66 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
* * *
6034177 AGGCGATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
6034242 CGTTCAACCAAATGGATTAATATCCTTTTAAAAATTTTAAAATA
66 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
* *
6034286 AGGCAATGTTTTGCGTGTGGAAATTCGAGAAAATATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
6034351 CGTTCAATCAAATGGCTTAATATCCTTTTAAAAATTTTTAAAATA
66 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAA-TTTTAAAATA
* * * *
6034396 AGGCAATGTTTTGCATTTGAAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
6034461 CGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTTAAAATA
66 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
* * * *
6034505 AGGCAATATTTTGCGTTTGGAAATTCGAG-GAACGTGTCCTAAGGTG
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTG
6034551 TTGGATTTTG
Statistics
Matches: 344, Mismatches: 29, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
108 14 0.04
109 229 0.67
110 101 0.29
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
Found at i:6034491 original size:219 final size:218
Alignment explanation
Indices: 6034068--6034550 Score: 806
Period size: 219 Copynumber: 2.2 Consensus size: 218
6034058 TTTCTAATTG
*
6034068 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCTTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* *
6034133 CGTTCAAACAAATGGCTTAATATCCTTTTAAAAATTTTAAAACAAGGCGATGTTTTGCGTTTGAA
66 CGTTCAAACAAATGGCTTAATATCCTTTTAAAAATTTTAAAACAAGGCAATGTTTTGCATTTGAA
* * *
6034198 AATTCGAGAAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTCTCGTTCAACCAAATGGATTAAT
131 AATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCTCGTTCAACCAAATGGATTAAT
6034263 ATCCTTTTAAAAATTTTAAAATA
196 ATCCTTTTAAAAATTTTAAAATA
* *
6034286 AGGCAATGTTTTGCGTGTGGAAATTCGAGAAAATATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* *
6034351 CGTTCAATCAAATGGCTTAATATCCTTTTAAAAATTTTTAAAATAAGGCAATGTTTTGCATTTGA
66 CGTTCAAACAAATGGCTTAATATCCTTTTAAAAA-TTTTAAAACAAGGCAATGTTTTGCATTTGA
*
6034416 AAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCTCGTTCAACCAAATGGCTTAA
130 AAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCTCGTTCAACCAAATGGATTAA
*
6034481 TATCCTTTTAAAATTTTTAAAATA
195 TATCCTTTTAAAAATTTTAAAATA
* * * *
6034505 AGGCAATATTTTGCGTTTGGAAATTCGAG-GAACGTGTCCTAAGGTG
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTG
6034551 TTGGATTTTG
Statistics
Matches: 246, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
218 108 0.44
219 138 0.56
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (218 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAAACAAATGGCTTAATATCCTTTTAAAAATTTTAAAACAAGGCAATGTTTTGCATTTGAA
AATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTCTCTCGTTCAACCAAATGGATTAAT
ATCCTTTTAAAAATTTTAAAATA
Found at i:6037706 original size:92 final size:92
Alignment explanation
Indices: 6037523--6038283 Score: 917
Period size: 92 Copynumber: 8.7 Consensus size: 92
6037513 TTTCCTAATG
6037523 ACATTTGCTTTGTCACAACAAGGATA-TCTCCCCATTTCTCTATAT-ATAAGCCTTCAGCTTAGA
1 ACATTTGCTTTGTCACAACAAGGA-ACTCTCCCCATTTCTCTATATGAT---CCTTCAGCTTAGA
* * *
6037586 GTCTTTTTGAGGAGACCATGGCCCTTTCTTC
62 GTCTTCTTCATGAGACCATGGCCCTTTCTTC
6037617 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
*
6037682 TCTTCAGGAGACCATGGCCCTTTCTTC
66 TCTTCATGAGACCATGGCCCTTTCTTC
* *
6037709 ACATTTGCTTTGTCACAACAAGGAA--CT-----TTTC-CCAT-T--TA-TTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
6037762 TCTTCATGAGACCATGGCCCTTTCTTC
66 TCTTCATGAGACCATGGCCCTTTCTTC
** * *
6037789 ACATTTGCTTTGTCACAAGGAGGAACTTTTCCCA--T-T-TAT-TGA----TCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
6037845 TCTTCATGAGACCATGGCCCTTTCTTC
66 TCTTCATGAGACCATGGCCCTTTCTTC
* *
6037872 ACATTTGCTTTGTCACAACAAGGAA--CT-----TTTC-CCAT-T--TA-TTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
6037925 TCTTCATGAGACCATGGCCCTTTCTTC
66 TCTTCATGAGACCATGGCCCTTTCTTC
*
6037952 ACATTTGCTTTGTCACGACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
*
6038017 TCTTCATGAGACCATGGCGCTTTCTTC
66 TCTTCATGAGACCATGGCCCTTTCTTC
** * *
6038044 ACATTTGCTTTGTCACAAGGAGGAACTTTTCCCA--T-T-TAT-TGA----TCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
6038100 TCTTCATGAGACCATGGCCCTTTCTTC
66 TCTTCATGAGACCATGGCCCTTTCTTC
* * *
6038127 ACATTTGCTTTGTCACAAGAAGGAACTCTTCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCT
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
*
6038192 TCTTCAGGAGACCATGGCCCTTAATTTCTTC
66 TCTTCATGAGACCATGGCCC----TTTCTTC
* * *
6038223 ACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTTAGCTTAGA
1 ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGA
6038284 TTTGCTCACT
Statistics
Matches: 592, Mismatches: 31, Indels: 86
0.83 0.04 0.12
Matches are distributed among these distances:
78 1 0.00
79 3 0.01
80 129 0.22
81 2 0.00
82 3 0.01
83 137 0.23
84 6 0.01
85 6 0.01
86 1 0.00
87 10 0.02
88 8 0.01
89 2 0.00
90 3 0.01
91 1 0.00
92 170 0.29
93 1 0.00
94 43 0.07
95 2 0.00
96 64 0.11
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.37
Consensus pattern (92 bp):
ACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCT
TCTTCATGAGACCATGGCCCTTTCTTC
Found at i:6037800 original size:80 final size:80
Alignment explanation
Indices: 6037667--6037988 Score: 563
Period size: 80 Copynumber: 4.0 Consensus size: 80
6037657 TATATGATCC
*
6037667 TTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGG
1 TTCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGG
6037732 AACTTTTCCCATTTA
66 AACTTTTCCCATTTA
**
6037747 TTCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAGGAGG
1 TTCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGG
6037812 AACTTTTCCCATTTA
66 AACTTTTCCCATTTA
6037827 TTGATCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACA
1 -T--TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACA
6037892 AGGAACTTTTCCCATTTA
63 AGGAACTTTTCCCATTTA
*
6037910 TTCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACGACAAGG
1 TTCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGG
* *
6037975 AACTCTCCCCATTT
66 AACTTTTCCCATTT
6037989 CTCTATATGA
Statistics
Matches: 231, Mismatches: 8, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
80 152 0.66
81 1 0.00
82 1 0.00
83 77 0.33
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (80 bp):
TTCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGG
AACTTTTCCCATTTA
Found at i:6037886 original size:83 final size:83
Alignment explanation
Indices: 6037668--6038246 Score: 801
Period size: 83 Copynumber: 6.8 Consensus size: 83
6037658 ATATGATCCT
*
6037668 TCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
1 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
6037733 ACTTTTCCCATTTA-T--
66 ACTTTTCCCATTTATTGA
**
6037748 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAGGAGGA
1 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
6037813 ACTTTTCCCATTTATTGA
66 ACTTTTCCCATTTATTGA
6037831 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
1 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
6037896 ACTTTTCCCATTTA-T--
66 ACTTTTCCCATTTATTGA
*
6037911 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACGACAAGGA
1 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
* *
6037976 ACTCTCCCCATTTCTCTATATGA
66 ACTTTTCCCA--T-T-TAT-TGA
* **
6037999 TCCTTCAGCTTAGAGTCTTCTTCATGAGACCATGGCGCTTTCTTCACATTTGCTTTGTCACAAGG
1 ----TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACA
6038064 AGGAACTTTTCCCATTTATTGA
62 AGGAACTTTTCCCATTTATTGA
*
6038086 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAGAAGGA
1 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
* *
6038151 ACTCTTCCCATTTCTCTATATAA
66 ACTTTTCCCA--T-T-TAT-TGA
*
6038174 TCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTAATTTCTTCACATTTGCTTTGTCAC
1 ----TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCC----TTTCTTCACATTTGCTTTGTCAC
6038239 AACAAGGA
58 AACAAGGA
6038247 GCTCTCCCCA
Statistics
Matches: 451, Mismatches: 20, Indels: 40
0.88 0.04 0.08
Matches are distributed among these distances:
80 148 0.33
81 1 0.00
82 2 0.00
83 150 0.33
84 2 0.00
85 1 0.00
86 2 0.00
87 6 0.01
88 5 0.01
89 1 0.00
90 1 0.00
92 102 0.23
96 30 0.07
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.36
Consensus pattern (83 bp):
TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
ACTTTTCCCATTTATTGA
Found at i:6038027 original size:255 final size:259
Alignment explanation
Indices: 6037576--6038283 Score: 998
Period size: 255 Copynumber: 2.7 Consensus size: 259
6037566 ATATAAGCCT
* * *
6037576 TCAGCTTAGAGTCTTTTTGAGGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
1 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
* *
6037641 ACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTC
66 ACTCTTCCCA----T-TATAT-A-ACTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTC
* *
6037706 TTCACATTTGCTTTGTCACAACAAGGAA--CT-----TTTC-CCAT-T-T-ATTCAGCTTAGAGT
124 TTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATATCCTTCAGCTTAGAGT
6037760 CTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAGGAGGAACTTTTCCCATT
189 CTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAGGAGGAACTTTTCCCATT
6037825 TATTGA
254 TATTGA
6037831 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
1 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
* *
6037896 ACTTTTCCCA-T-T-T-A-TTCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACAT
66 ACTCTTCCCATTATATAACTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACAT
*
6037956 TTGCTTTGTCACGACAAGGAACTCTCCCCATTTCTCTATATGATCCTTCAGCTTAGAGTCTTCTT
131 TTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATAT-ATCCTTCAGCTTAGAGTCTTCTT
*
6038021 CATGAGACCATGGCGCTTTCTTCACATTTGCTTTGTCACAAGGAGGAACTTTTCCCATTTATTGA
195 CATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAGGAGGAACTTTTCCCATTTATTGA
*
6038086 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAGAAGGA
1 TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
6038151 ACTCTTCCCATTTCTCTATATAATCCTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTAA
66 ACTCTTCCCA----T-TATATAA--CTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCC----
* *
6038216 TTTCTTCACATTTGCTTTGTCACAACAAGGAGCTCTCCCCATTTCTCTATATAATCCTTTAGCTT
120 TTTCTTCACATTTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATAT-ATCCTTCAGCTT
6038281 AGA
184 AGA
6038284 TTTGCTCACT
Statistics
Matches: 407, Mismatches: 18, Indels: 40
0.88 0.04 0.09
Matches are distributed among these distances:
243 65 0.16
245 2 0.00
247 1 0.00
248 1 0.00
249 1 0.00
250 4 0.01
251 3 0.01
252 1 0.00
254 1 0.00
255 226 0.56
261 1 0.00
262 1 0.00
263 1 0.00
264 1 0.00
267 34 0.08
271 64 0.16
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (259 bp):
TCAGCTTAGAGTCTTCTTCATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAACAAGGA
ACTCTTCCCATTATATAACTTCAGCTTAGAGTCTTCTTCAGGAGACCATGGCCCTTTCTTCACAT
TTGCTTTGTCACAACAAGGAACTCTCCCCATTTCTCTATATATCCTTCAGCTTAGAGTCTTCTTC
ATGAGACCATGGCCCTTTCTTCACATTTGCTTTGTCACAAGGAGGAACTTTTCCCATTTATTGA
Found at i:6040885 original size:29 final size:29
Alignment explanation
Indices: 6040853--6040909 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
6040843 AGTCAAAAAA
*
6040853 TTAAGATATTAAAGATTTAAGTATTTTGG
1 TTAAGATATTAAAAATTTAAGTATTTTGG
6040882 TTAAGATATTAAAAATTTAAGTATTTTG
1 TTAAGATATTAAAAATTTAAGTATTTTG
6040910 ATTATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (29 bp):
TTAAGATATTAAAAATTTAAGTATTTTGG
Found at i:6043751 original size:23 final size:23
Alignment explanation
Indices: 6043725--6043788 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
6043715 TTCTTTTAAC
*
6043725 TTAATCGAACATGTTCACGGATA
1 TTAATCGAACATGTTCACGAATA
* * *
6043748 TTAAACAAACATGTTCATGAATA
1 TTAATCGAACATGTTCACGAATA
* *
6043771 TATAATTGAACAAGTTCA
1 T-TAATCGAACATGTTCA
6043789 TGAACAATGT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAATA
Found at i:6053393 original size:25 final size:24
Alignment explanation
Indices: 6053356--6053403 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
6053346 TTTCGATATA
* *
6053356 TTAAATTATTAAAATTCTTTACAAT
1 TTAAATTACTAAAAATC-TTACAAT
*
6053381 TTAACTTACTAAAAATCTTACAA
1 TTAAATTACTAAAAATCTTACAA
6053404 AATTGTTGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (24 bp):
TTAAATTACTAAAAATCTTACAAT
Found at i:6056126 original size:31 final size:31
Alignment explanation
Indices: 6056091--6056172 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
6056081 TTTAATATCT
* *
6056091 AAACTAAAATTTCTAAATTTAAAAAATAT-AA
1 AAACTAAAATTTATAAATTCAAAAAA-ATGAA
* *
6056122 AAACTAAAATTTATCAATTCAAAAAAATGCA
1 AAACTAAAATTTATAAATTCAAAAAAATGAA
*
6056153 AAACTAAAATTAATCAAATT
1 AAACTAAAATTTAT-AAATT
6056173 ACCCAAAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
30 2 0.05
31 37 0.86
32 4 0.09
ACGTcount: A:0.60, C:0.10, G:0.01, T:0.29
Consensus pattern (31 bp):
AAACTAAAATTTATAAATTCAAAAAAATGAA
Found at i:6058563 original size:2 final size:2
Alignment explanation
Indices: 6058556--6058602 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
6058546 ATTACTAGTA
6058556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6058597 AT AT AT
1 AT AT AT
6058603 GTATTAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6060192 original size:68 final size:69
Alignment explanation
Indices: 6060113--6060254 Score: 277
Period size: 68 Copynumber: 2.1 Consensus size: 69
6060103 GAAACCTAAG
6060113 TAAATAACAGAAATTTTCAGTCCAATGATTTTTAAATTTTCTT-AAAAAAATGTTTACCTAGTAT
1 TAAATAACAGAAATTTTCAGTCCAATGATTTTTAAATTTTCTTAAAAAAAATGTTTACCTAGTAT
6060177 TTTT
66 TTTT
6060181 TAAATAACAGAAATTTTCAGTCCAATGATTTTTAAATTTTCTTAAAAAAAATGTTTACCTAGTAT
1 TAAATAACAGAAATTTTCAGTCCAATGATTTTTAAATTTTCTTAAAAAAAATGTTTACCTAGTAT
6060246 TTTT
66 TTTT
6060250 TAAAT
1 TAAAT
6060255 TACTTTTATT
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 43 0.59
69 30 0.41
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (69 bp):
TAAATAACAGAAATTTTCAGTCCAATGATTTTTAAATTTTCTTAAAAAAAATGTTTACCTAGTAT
TTTT
Found at i:6080339 original size:2 final size:2
Alignment explanation
Indices: 6080334--6080359 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6080324 ATTACCTCAA
6080334 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6080360 TCAACCAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6086008 original size:21 final size:20
Alignment explanation
Indices: 6085967--6086009 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6085957 AAAAAAACCC
*
6085967 TTGAAATTTAAATATTGTTT
1 TTGAAATTTAAATATTATTT
6085987 TTGAAATTTTATAA-ATTATTT
1 TTGAAA-TTTA-AATATTATTT
6086008 TT
1 TT
6086010 AAACTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 12 0.60
22 2 0.10
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
TTGAAATTTAAATATTATTT
Found at i:6090352 original size:12 final size:12
Alignment explanation
Indices: 6090333--6090366 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
6090323 CAATGACCCA
6090333 TCATCATCATCGT
1 TCATCATCATC-T
6090346 T-ATCATCATCT
1 TCATCATCATCT
6090357 TCATCATCAT
1 TCATCATCAT
6090367 ATGGTTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 17 0.85
13 1 0.05
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.41
Consensus pattern (12 bp):
TCATCATCATCT
Done.