Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 87 of 135
Found at i:26944805 original size:20 final size:20
Alignment explanation
Indices: 26944780--26944819 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
26944770 CGCGAGAATA
26944780 ACGTGAGGTTTTAGATTGTT
1 ACGTGAGGTTTTAGATTGTT
26944800 ACGTGAGGTTTTAGATTGTT
1 ACGTGAGGTTTTAGATTGTT
26944820 GGTTGCAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (20 bp):
ACGTGAGGTTTTAGATTGTT
Found at i:26945685 original size:16 final size:17
Alignment explanation
Indices: 26945656--26945688 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
26945646 TAAATTTTTA
26945656 AAAATATTAATTTAATAT
1 AAAATATT-ATTTAATAT
26945674 AAAATATT-TTTAATA
1 AAAATATTATTTAATA
26945689 ATATGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATATTATTTAATAT
Found at i:26945906 original size:37 final size:37
Alignment explanation
Indices: 26945839--26945926 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
26945829 TAAATTATTT
* *
26945839 TATTACTAATACATAA-A-ATAATAATATATTATAATG
1 TATTACTATTAC-TAATACATAATAATATATTATAATA
*
26945875 TATTAGTATTACTAATACATAA-AATAGTATTATAATA
1 TATTACTATTACTAATACATAATAATA-TATTATAATA
26945912 TATTACTATTACTAA
1 TATTACTATTACTAA
26945927 AAGATTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
35 3 0.07
36 15 0.33
37 27 0.60
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (37 bp):
TATTACTATTACTAATACATAATAATATATTATAATA
Found at i:26945949 original size:3 final size:3
Alignment explanation
Indices: 26945941--26945965 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26945931 TTAATACATG
26945941 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
26945966 TAGATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:26946276 original size:2 final size:2
Alignment explanation
Indices: 26946264--26946350 Score: 117
Period size: 2 Copynumber: 44.0 Consensus size: 2
26946254 TTTAATCATT
*
26946264 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
26946306 TA TA TA TA TA TA TA TA TA TA AA CTA T- TA -A TA TA TCA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA T-A TA TA TA
26946347 TA TA
1 TA TA
26946351 GCGTTATATA
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
1 3 0.04
2 70 0.92
3 3 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:26951977 original size:23 final size:23
Alignment explanation
Indices: 26951951--26952004 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
26951941 TACCTAATTT
26951951 CAGATTCACCTTACCAAGAATGG
1 CAGATTCACCTTACCAAGAATGG
26951974 CAGATTCACCTTACCAAGAATGG
1 CAGATTCACCTTACCAAGAATGG
*
26951997 CAAATTCA
1 CAGATTCA
26952005 GCTTTAAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (23 bp):
CAGATTCACCTTACCAAGAATGG
Found at i:26953692 original size:91 final size:89
Alignment explanation
Indices: 26953597--26953852 Score: 250
Period size: 90 Copynumber: 2.8 Consensus size: 89
26953587 CCCTCAAATT
*
26953597 AAAAAAAAACCAATTAAGTCACTGTTTTTTTTACACTCAATTGGGTACTTGAACTGTCAAATGCA
1 AAAAAAAAACCAATTAAGTCACTGTTTTTTTT-CACTCAATTGGGTACTTAAACTGTCAAATGCA
26953662 TAAAAAAGACACTCAAAC-TTAAAA
65 TAAAAAAGACACTCAAACTTTAAAA
* * * * * * * *
26953686 AAAAAAAAATCAATTAAGTCTCTGGTTTTTTTTGCATTCAATTGGATACTCATACTTTTAAAATG
1 AAAAAAAAACCAATTAAGTCACT-GTTTTTTTT-CACTCAATTGGGTACTTAAAC-TGTCAAATG
* *
26953751 TATAAAAAAGACCCTCAAACTTTTTTAAAA
63 CATAAAAAAGACACTCAAAC---TTTAAAA
* * * *
26953781 AAAAAAAAAGCAATTTAA--CCCTTGATTTTTTTCACCCAATTGGGTACTTAAAC-GATCAAATG
1 AAAAAAAAACCAA-TTAAGTCAC-TGTTTTTTTTCACTCAATTGGGTACTTAAACTG-TCAAATG
*
26953843 CATCAAAAAG
63 CATAAAAAAG
26953853 TCTTTTGGCT
Statistics
Matches: 134, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
89 21 0.16
90 25 0.19
91 25 0.19
92 14 0.10
93 16 0.12
94 10 0.07
95 19 0.14
96 4 0.03
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (89 bp):
AAAAAAAAACCAATTAAGTCACTGTTTTTTTTCACTCAATTGGGTACTTAAACTGTCAAATGCAT
AAAAAAGACACTCAAACTTTAAAA
Found at i:26953758 original size:90 final size:90
Alignment explanation
Indices: 26953597--26953795 Score: 231
Period size: 91 Copynumber: 2.2 Consensus size: 90
26953587 CCCTCAAATT
* * *
26953597 AAAAAAAAACCAATTAAGTCACTGTTTTTTTTACACTCAATTGGGTACTTGAACTGTCAAATGCA
1 AAAAAAAAACCAATTAAGTCACTGTTTTTTTTACACTCAATTGGATACTTCAACTGTAAAATGCA
26953662 TAAAAAAGACACTCAAAC-TTAAAA
66 TAAAAAAGACACTCAAACTTTAAAA
* * * * *
26953686 AAAAAAAAATCAATTAAGTCTCTGGTTTTTTTTGCATTCAATTGGATAC-TCATACTTTTAAAAT
1 AAAAAAAAACCAATTAAGTCACT-GTTTTTTTTACACTCAATTGGATACTTCA-AC-TGTAAAAT
* *
26953750 GTATAAAAAAGACCCTCAAACTTTTTTAAAA
63 GCATAAAAAAGACACTCAAAC---TTTAAAA
*
26953781 AAAAAAAAAGCAATT
1 AAAAAAAAACCAATT
26953796 TAACCCTTGA
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
89 23 0.25
90 24 0.26
91 25 0.27
95 20 0.22
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (90 bp):
AAAAAAAAACCAATTAAGTCACTGTTTTTTTTACACTCAATTGGATACTTCAACTGTAAAATGCA
TAAAAAAGACACTCAAACTTTAAAA
Found at i:26953996 original size:9 final size:9
Alignment explanation
Indices: 26953959--26954039 Score: 60
Period size: 9 Copynumber: 8.9 Consensus size: 9
26953949 ATGTGACAAA
*
26953959 AAAAACTAT
1 AAAAATTAT
26953968 AAAAA-TAT
1 AAAAATTAT
26953976 AAATAA--AT
1 AAA-AATTAT
26953984 AAAAATTAT
1 AAAAATTAT
26953993 AAAAATTATT
1 AAAAATTA-T
**
26954003 AAATTTTAAT
1 AAAAATT-AT
*
26954013 AAAAAATAT
1 AAAAATTAT
*
26954022 AAAACTTATT
1 AAAAATTA-T
26954032 AAAAATTA
1 AAAAATTA
26954040 GAATAAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
7 2 0.03
8 11 0.19
9 25 0.43
10 19 0.33
11 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:26954005 original size:19 final size:18
Alignment explanation
Indices: 26953959--26954039 Score: 60
Period size: 19 Copynumber: 4.4 Consensus size: 18
26953949 ATGTGACAAA
*
26953959 AAAAACTATAAAAA-TAT
1 AAAAATTATAAAAATTAT
26953976 AAATAA--ATAAAAATTAT
1 AAA-AATTATAAAAATTAT
**
26953993 AAAAATTATTAAATTTTAAT
1 AAAAATTA-TAAAAATT-AT
* *
26954013 AAAAAATATAAAACTTATT
1 AAAAATTATAAAAATTA-T
26954032 AAAAATTA
1 AAAAATTA
26954040 GAATAAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
16 9 0.18
17 9 0.18
18 4 0.08
19 20 0.39
20 9 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATTATAAAAATTAT
Found at i:26954114 original size:12 final size:12
Alignment explanation
Indices: 26954097--26954121 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26954087 AAACTTTTAT
26954097 AAAAATTATAAA
1 AAAAATTATAAA
26954109 AAAAATTATAAA
1 AAAAATTATAAA
26954121 A
1 A
26954122 TGCATCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:26954373 original size:19 final size:19
Alignment explanation
Indices: 26954351--26954453 Score: 61
Period size: 20 Copynumber: 5.4 Consensus size: 19
26954341 TTTCTTACGA
26954351 TTTTATAAAATTTTATATT
1 TTTTATAAAATTTTATATT
* *
26954370 TTTTCT--AATTTCTATATA
1 TTTTATAAAATTT-TATATT
*
26954388 TTTTAT-AATTATTTATGA-T
1 TTTTATAAAAT-TTTAT-ATT
** *
26954407 TTTTATAATTTTTTCTAATT
1 TTTTATAAAATTTTAT-ATT
* *
26954427 TTTAATAAAATTTAAATATT
1 TTTTATAAAATTT-TATATT
26954447 TTTTATA
1 TTTTATA
26954454 GTTTTTTATT
Statistics
Matches: 63, Mismatches: 14, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
17 5 0.08
18 10 0.16
19 21 0.33
20 26 0.41
21 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTATAAAATTTTATATT
Found at i:26954411 original size:9 final size:9
Alignment explanation
Indices: 26954351--26954430 Score: 63
Period size: 9 Copynumber: 8.6 Consensus size: 9
26954341 TTTCTTACGA
*
26954351 TTTTATAAAA
1 TTTTAT-AAT
*
26954361 TTTTATATT
1 TTTTATAAT
*
26954370 TTTTCTAAT
1 TTTTATAAT
*
26954379 TTCTAT-AT
1 TTTTATAAT
26954387 ATTTTATAAT
1 -TTTTATAAT
*
26954397 TATTTATGAT
1 T-TTTATAAT
26954407 TTTTATAATT
1 TTTTATAA-T
*
26954417 TTTTCTAAT
1 TTTTATAAT
26954426 TTTTA
1 TTTTA
26954431 ATAAAATTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
8 2 0.04
9 29 0.53
10 24 0.44
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:26954450 original size:30 final size:30
Alignment explanation
Indices: 26954414--26954481 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
26954404 GATTTTTATA
*
26954414 ATTTTTTCTA-ATTTTTAATAAAATTTAAAT
1 ATTTTTTATAGATTTTTAATAAAATTT-AAT
* *
26954444 ATTTTTTATAGTTTTTTATTAAAATTTAAT
1 ATTTTTTATAGATTTTTAATAAAATTTAAT
26954474 ATTTTTTA
1 ATTTTTTA
26954482 AAGCTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 20 0.59
31 14 0.41
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (30 bp):
ATTTTTTATAGATTTTTAATAAAATTTAAT
Found at i:26954773 original size:88 final size:88
Alignment explanation
Indices: 26954576--26954782 Score: 265
Period size: 89 Copynumber: 2.3 Consensus size: 88
26954566 ATTAAGGGTG
*
26954576 GTTCAAGTACCCAATTGAGTGCAAAATAAATCAGGGGCTTAGTTGTTTTTTTTGAAAAAGTTTGA
1 GTTCAAGTACCCAATTGAGTG-AAAA-AAATCAGGGGCTTAATTGTTTTTTTTGAAAAAGTTTGA
* * *
26954641 CAACCTTTTTTTATGCATTTTGAAA
64 CAACCTTTCTTGAGGCATTTTGAAA
* * * *
26954666 GTTCAAGTATCCAATTGAGTGGAAAAAATGTAGGGGCTTAATTGTTTTTTTTGAAAAAGTTTGAT
1 GTTCAAGTACCCAATTGAGTGAAAAAAAT-CAGGGGCTTAATTGTTTTTTTTGAAAAAGTTTGAC
* *
26954731 AGCC-TTCTTGAGGTATTTTGATAA
65 AACCTTTCTTGAGGCATTTTGA-AA
26954755 -TTCAAGTACCCAATTGAGTGCAAAAAAA
1 GTTCAAGTACCCAATTGAGTG-AAAAAAA
26954783 AAAAATAGGG
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
88 36 0.35
89 46 0.45
90 20 0.20
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (88 bp):
GTTCAAGTACCCAATTGAGTGAAAAAAATCAGGGGCTTAATTGTTTTTTTTGAAAAAGTTTGACA
ACCTTTCTTGAGGCATTTTGAAA
Found at i:26954926 original size:31 final size:29
Alignment explanation
Indices: 26954884--26954953 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
26954874 ATCCAAAAAC
* *
26954884 TATACACGAACTATAATTTAATGTGTAATTG
1 TATACATGAACTATAATTT--TGTATAATTG
* * *
26954915 TATACATGAACTTTGATTTTGTATAATTT
1 TATACATGAACTATAATTTTGTATAATTG
26954944 TATACATGAA
1 TATACATGAA
26954954 ATTTTGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (29 bp):
TATACATGAACTATAATTTTGTATAATTG
Found at i:26969291 original size:25 final size:25
Alignment explanation
Indices: 26969236--26969291 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
26969226 TTATTCCTGC
*
26969236 ATAAAACTAAAGAAAACAAAGTAAA
1 ATAAAACAAAAGAAAACAAAGTAAA
* *
26969261 AGAAAACAAAAGACAA-AAAGTAAA
1 ATAAAACAAAAGAAAACAAAGTAAA
26969285 TATAAAA
1 -ATAAAA
26969292 ATTGCTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.73, C:0.07, G:0.09, T:0.11
Consensus pattern (25 bp):
ATAAAACAAAAGAAAACAAAGTAAA
Found at i:26971962 original size:11 final size:11
Alignment explanation
Indices: 26971948--26971973 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26971938 TTCAGTCTTT
26971948 ATTGTTGCTCA
1 ATTGTTGCTCA
26971959 ATTGTTGCTCA
1 ATTGTTGCTCA
26971970 ATTG
1 ATTG
26971974 ACTATTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.46
Consensus pattern (11 bp):
ATTGTTGCTCA
Found at i:26982330 original size:17 final size:17
Alignment explanation
Indices: 26982310--26982356 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
26982300 GACAATGTAG
*
26982310 ATGCAGCGATAATAAAA
1 ATGCAGCGACAATAAAA
*
26982327 ATGCAGTGACAATAAAA
1 ATGCAGCGACAATAAAA
*
26982344 ATGCAGGGACAAT
1 ATGCAGCGACAAT
26982357 TATACTACAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.49, C:0.13, G:0.21, T:0.17
Consensus pattern (17 bp):
ATGCAGCGACAATAAAA
Found at i:26998644 original size:24 final size:24
Alignment explanation
Indices: 26998612--26998658 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
26998602 GTAGAAATAA
*
26998612 AAATCACATTTTTGTCGAAGCATTG
1 AAATCACA-TATTGTCGAAGCATTG
26998637 AAAT-ACATATTGTCGAAGCATT
1 AAATCACATATTGTCGAAGCATT
26998659 CTGCGATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.67
24 3 0.14
25 4 0.19
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (24 bp):
AAATCACATATTGTCGAAGCATTG
Found at i:27000452 original size:12 final size:12
Alignment explanation
Indices: 27000437--27000466 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27000427 TCAAGACGAG
*
27000437 GAAGAGAAAGAA
1 GAAGAAAAAGAA
27000449 GAAGAAAAAGAA
1 GAAGAAAAAGAA
27000461 GAAGAA
1 GAAGAA
27000467 GAACCTGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (12 bp):
GAAGAAAAAGAA
Found at i:27004351 original size:15 final size:16
Alignment explanation
Indices: 27004322--27004351 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27004312 AGCAACACGA
27004322 TGAAAAGTGAAATAAT
1 TGAAAAGTGAAATAAT
27004338 TGAAAAGT-AAATAA
1 TGAAAAGTGAAATAA
27004352 AAAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (16 bp):
TGAAAAGTGAAATAAT
Found at i:27015226 original size:32 final size:31
Alignment explanation
Indices: 27015167--27015232 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
27015157 AACGAAAAAG
27015167 AAATAACAAAGGAAATAAAAACAACTAAACCT
1 AAATAACAAAGGAAATAAAAACAACTAAA-CT
* * *
27015199 AAATTACAAAGGAAAATGAAAA-TACTAAACT
1 AAATAACAAAGG-AAATAAAAACAACTAAACT
27015230 AAA
1 AAA
27015233 GATGTGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 5 0.17
32 17 0.57
33 8 0.27
ACGTcount: A:0.65, C:0.12, G:0.08, T:0.15
Consensus pattern (31 bp):
AAATAACAAAGGAAATAAAAACAACTAAACT
Found at i:27029307 original size:201 final size:200
Alignment explanation
Indices: 27028931--27029310 Score: 564
Period size: 201 Copynumber: 1.9 Consensus size: 200
27028921 AATTGTACAG
* * * * *
27028931 GTGTCTTTTCATCAAAATCAAGTTATCTCTGGTCGTGCAAGCTGGTTATACCAGACTGGACAGCT
1 GTGTCCTTTCATCAAAATCAAGCTATCACTGGTCGTACAAGCTGGTTATACCAGACTAGACAGCT
* * * *
27028996 CACACATTTTTGTTCTTATCTAGACAGTTGTTAGATGCGGCGGCAATCCTAAACGCAATCTAAAA
66 CACACATTTTTGTTCTTATCTAGACAATTGTCAGATGCGACGACAATCCTAAACGCAATCTAAAA
*
27029061 TTACTTATGCAGCGACATTAGTACCAAAAAATGACAAAATTAAGAGTAAGTACAAGTTTTCCTTG
131 TTACTTATGCAGCGACATCAGTACCAAAAAATGACAAAATTAAGAGTAAGTACAAGTTTTCCTTG
27029126 TGCAA
196 TGCAA
* * *
27029131 GTGTCCTTTCATCAAAATCAAGCTGTCACTGGTTGTACAAGTTGGTTATACCAGACTAGACAGCT
1 GTGTCCTTTCATCAAAATCAAGCTATCACTGGTCGTACAAGCTGGTTATACCAGACTAGACAGCT
* * * *
27029196 CACATATTTTATGTTCTTATCTGGACAATTGTCAGATGCGACGACAATCCTAGACGCAATCTGAA
66 CACACATTTT-TGTTCTTATCTAGACAATTGTCAGATGCGACGACAATCCTAAACGCAATCTAAA
* *
27029261 ATTACTTATGCAGCGACATCAGTACTAAAACAA-GACAAATTTAAGAGTAA
130 ATTACTTATGCAGCGACATCAGTACCAAAA-AATGACAAAATTAAGAGTAA
27029311 ATAGGCTAAG
Statistics
Matches: 159, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
200 66 0.42
201 91 0.57
202 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (200 bp):
GTGTCCTTTCATCAAAATCAAGCTATCACTGGTCGTACAAGCTGGTTATACCAGACTAGACAGCT
CACACATTTTTGTTCTTATCTAGACAATTGTCAGATGCGACGACAATCCTAAACGCAATCTAAAA
TTACTTATGCAGCGACATCAGTACCAAAAAATGACAAAATTAAGAGTAAGTACAAGTTTTCCTTG
TGCAA
Found at i:27036286 original size:21 final size:20
Alignment explanation
Indices: 27036237--27036293 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
27036227 GCATCACAGA
*
27036237 TTGTTGTGACTGCATCTGAT
1 TTGTTGTGGCTGCATCTGAT
*
27036257 TCTGGTGTGGCTGCATCTGACT
1 T-TGTTGTGGCTGCATCTGA-T
*
27036279 TTGTTGTGGATGCAT
1 TTGTTGTGGCTGCAT
27036294 TTGAGTATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.90
22 2 0.06
ACGTcount: A:0.12, C:0.16, G:0.30, T:0.42
Consensus pattern (20 bp):
TTGTTGTGGCTGCATCTGAT
Found at i:27036304 original size:21 final size:21
Alignment explanation
Indices: 27036238--27036305 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
27036228 CATCACAGAT
* *
27036238 TGTTGT-GACTGCATCTGATTC
1 TGTTGTGGA-TGCATCTGACTA
* * *
27036259 TGGTGTGGCTGCATCTGACTT
1 TGTTGTGGATGCATCTGACTA
* *
27036280 TGTTGTGGATGCATTTGAGTA
1 TGTTGTGGATGCATCTGACTA
27036301 TGTTG
1 TGTTG
27036306 ATTGTAATTC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.13, C:0.13, G:0.31, T:0.43
Consensus pattern (21 bp):
TGTTGTGGATGCATCTGACTA
Found at i:27038903 original size:200 final size:200
Alignment explanation
Indices: 27038560--27038940 Score: 512
Period size: 200 Copynumber: 1.9 Consensus size: 200
27038550 CAAATTGTAT
* * *
27038560 AGGTGTCTTTTCATCAGAATCAAGTTGTCTCTAGTCGTACAAGTTGGTTATACCAGACTCGACAG
1 AGGTGTCCTTTCATCAGAATCAAGCTGTCACTAGTCGTACAAGTTGGTTATACCAGACTCGACAG
* * * * * * * * * * *
27038625 CTCACATATTTCTGTTATTATCCGGATAACTGTCAAATGCGACGACAATTCTGGATGCAATTTGA
66 CTCACACATTTATATTATTATCCAGACAACTGTCAAATGCGACAACAATCCTAGACGAAATCTGA
* *
27038690 AATTACTTATGCAGCGACACCAGTACCAAAACATGACAAAATTAAGGGTAAGTACAAGTTGTCCT
131 AATTACTTATGCAGCGACACCAGTACCAAAACAGGACAAAATTAAGAGTAAGTACAAGTTGTCCT
27038755 TGTGC
196 TGTGC
* * * *
27038760 AGGTGTCCTTTCATCATAATCAAGCTGTCACTGGTCGTACAAGTTGGTTATATCAGACTGGACAG
1 AGGTGTCCTTTCATCAGAATCAAGCTGTCACTAGTCGTACAAGTTGGTTATACCAGACTCGACAG
* * *
27038825 CTCACACATTTATATTATTATCTAGACAACTGTCAGATGC-AGCAATAATCCTAGACGAAATCTG
66 CTCACACATTTATATTATTATCCAGACAACTGTCAAATGCGA-CAACAATCCTAGACGAAATCTG
* * *
27038889 AAATTTCTTATGCAGCGACATCAGTACCAAAACAGGACAAATTTAAGAGTAA
130 AAATTACTTATGCAGCGACACCAGTACCAAAACAGGACAAAATTAAGAGTAA
27038941 ATAGGCTAAG
Statistics
Matches: 154, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
199 1 0.01
200 153 0.99
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (200 bp):
AGGTGTCCTTTCATCAGAATCAAGCTGTCACTAGTCGTACAAGTTGGTTATACCAGACTCGACAG
CTCACACATTTATATTATTATCCAGACAACTGTCAAATGCGACAACAATCCTAGACGAAATCTGA
AATTACTTATGCAGCGACACCAGTACCAAAACAGGACAAAATTAAGAGTAAGTACAAGTTGTCCT
TGTGC
Found at i:27048184 original size:20 final size:21
Alignment explanation
Indices: 27048148--27048186 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27048138 CATTTGTTTA
*
27048148 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
27048169 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
27048187 AATTCCGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:27056366 original size:21 final size:19
Alignment explanation
Indices: 27056316--27056369 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 19
27056306 TCTTCTTTGT
*
27056316 CTTCGTCCTTCTCCTCCTCA
1 CTTC-TCCTTCTCTTCCTCA
*
27056336 CTTC-CTTTCTCTTCCTCA
1 CTTCTCCTTCTCTTCCTCA
27056354 GCTCTCTCCTTCTCTT
1 -CT-TCTCCTTCTCTT
27056370 TTGTGCCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 12 0.43
19 2 0.07
20 6 0.21
21 8 0.29
ACGTcount: A:0.04, C:0.46, G:0.04, T:0.46
Consensus pattern (19 bp):
CTTCTCCTTCTCTTCCTCA
Found at i:27062386 original size:18 final size:18
Alignment explanation
Indices: 27062365--27062404 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
27062355 ACTTGTGGCT
*
27062365 GCATCTGATTTTGTGATC
1 GCATCTGATCTTGTGATC
*
27062383 GCATCTGGTCTTGTGATC
1 GCATCTGATCTTGTGATC
27062401 GCAT
1 GCAT
27062405 ATTATTTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (18 bp):
GCATCTGATCTTGTGATC
Found at i:27072032 original size:16 final size:17
Alignment explanation
Indices: 27072007--27072044 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
27071997 TCTTGATTGG
*
27072007 TTTTATTTGTTTGTTAA
1 TTTTATTTGTTTATTAA
*
27072024 TTTTA-TTGTTTATTTA
1 TTTTATTTGTTTATTAA
27072040 TTTTA
1 TTTTA
27072045 GATATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTATTTGTTTATTAA
Found at i:27077404 original size:49 final size:49
Alignment explanation
Indices: 27077337--27077436 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
27077327 TAAAATTAAG
* *
27077337 AATTTGATAGGTTAGAGTTGTGTGACCCGAATCCTATCGTTTGTTAAAA
1 AATTCGATAAGTTAGAGTTGTGTGACCCGAATCCTATCGTTTGTTAAAA
*
27077386 AATTCGATAAGTTAGAGTTGTGTGACCCGAATCCTATCTTTTGTTAAAA
1 AATTCGATAAGTTAGAGTTGTGTGACCCGAATCCTATCGTTTGTTAAAA
27077435 AA
1 AA
27077437 ATAAAATACA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (49 bp):
AATTCGATAAGTTAGAGTTGTGTGACCCGAATCCTATCGTTTGTTAAAA
Found at i:27077991 original size:3 final size:3
Alignment explanation
Indices: 27077983--27078018 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
27077973 TTGAAAAGTA
27077983 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27078019 CCAAAAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:27080991 original size:33 final size:32
Alignment explanation
Indices: 27080954--27081024 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
27080944 ATTATATTAT
27080954 TGTTTTGGAGCTGTTTTTTACTATTTTGGTTGC
1 TGTTTTGGAGCTGTTTTTTACTATTTTGG-TGC
* * * *
27080987 TGTTTTTGTGTTGTTTTTTATTATTTTGGTGC
1 TGTTTTGGAGCTGTTTTTTACTATTTTGGTGC
*
27081019 TTTTTT
1 TGTTTT
27081025 TACTGTTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 8 0.24
33 25 0.76
ACGTcount: A:0.07, C:0.06, G:0.21, T:0.66
Consensus pattern (32 bp):
TGTTTTGGAGCTGTTTTTTACTATTTTGGTGC
Found at i:27081032 original size:30 final size:33
Alignment explanation
Indices: 27080964--27081033 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
27080954 TGTTTTGGAG
*
27080964 CTGTTTTTTACTATTTTGGTTGCTGTTTTTGTG
1 CTGTTTTTTACTATTTTGGTTGCTGTTTTTGTA
* *
27080997 TTGTTTTTTATTATTTTGG-TGCT-TTTTT-TA
1 CTGTTTTTTACTATTTTGGTTGCTGTTTTTGTA
27081027 CTGTTTT
1 CTGTTTT
27081034 GGTTGTTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 7 0.21
31 5 0.15
32 4 0.12
33 17 0.52
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (33 bp):
CTGTTTTTTACTATTTTGGTTGCTGTTTTTGTA
Found at i:27081036 original size:53 final size:54
Alignment explanation
Indices: 27080950--27081051 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 54
27080940 AAAAATTATA
* *
27080950 TTATTGTTTTGGAGCTGTTTTTTACTATTTTGGTTGCTGTTTTTGTGTTGTTTT
1 TTATTATTTTGGAGCTGTTTTTTACTATTTTGGTTGCTGTTTTCGTGTTGTTTT
* * *
27081004 TTATTATTTTGGTGCT-TTTTTTACTGTTTTGGTTGTTGTTTTCGTGTT
1 TTATTATTTTGGAGCTGTTTTTTACTATTTTGGTTGCTGTTTTCGTGTT
27081052 TTTGCTGTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 29 0.67
54 14 0.33
ACGTcount: A:0.07, C:0.06, G:0.22, T:0.66
Consensus pattern (54 bp):
TTATTATTTTGGAGCTGTTTTTTACTATTTTGGTTGCTGTTTTCGTGTTGTTTT
Found at i:27081045 original size:20 final size:19
Alignment explanation
Indices: 27080990--27081045 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
27080980 TGGTTGCTGT
*
27080990 TTTTGTGTTGTTTTTTATTA
1 TTTTG-GTTGTTTTTTACTA
*
27081010 TTTTGG-TGCTTTTTTTACTG
1 TTTTGGTTG--TTTTTTACTA
27081030 TTTTGGTTGTTGTTTT
1 TTTTGGTTGTT-TTTT
27081046 CGTGTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 2 0.07
19 3 0.10
20 23 0.77
21 2 0.07
ACGTcount: A:0.05, C:0.04, G:0.20, T:0.71
Consensus pattern (19 bp):
TTTTGGTTGTTTTTTACTA
Found at i:27081067 original size:12 final size:12
Alignment explanation
Indices: 27081050--27081128 Score: 69
Period size: 12 Copynumber: 6.9 Consensus size: 12
27081040 TGTTTTCGTG
*
27081050 TTTTTGCTGTTA
1 TTTTTGTTGTTA
*
27081062 TTTTTGTTGCTA
1 TTTTTGTTGTTA
27081074 TTTTTGTTGTT-
1 TTTTTGTTGTTA
*
27081085 TTTAATGTTG---
1 TTT-TTGTTGTTA
*
27081095 -TTTTGCTGTTA
1 TTTTTGTTGTTA
*
27081106 TTTTGGTTGTTA
1 TTTTTGTTGTTA
27081118 TTTTTGTTGTT
1 TTTTTGTTGTT
27081129 TAGATGTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
8 4 0.08
9 2 0.04
11 3 0.06
12 44 0.83
ACGTcount: A:0.08, C:0.04, G:0.19, T:0.70
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:27081067 original size:53 final size:53
Alignment explanation
Indices: 27080951--27081065 Score: 142
Period size: 53 Copynumber: 2.2 Consensus size: 53
27080941 AAAATTATAT
* * * **
27080951 TATTGTTTTGGAGCTGTTTTTTACTATTTTGGTTGCTGTTTTTGTGTTGTTTTT
1 TATTATTTTGGTGCT-TTTTTTACTATTTTGGTTGCTGTTTTCGTGTTGTTTGC
* *
27081005 TATTATTTTGGTGCTTTTTTTACTGTTTTGGTTGTTGTTTTCGTGTT-TTTGC
1 TATTATTTTGGTGCTTTTTTTACTATTTTGGTTGCTGTTTTCGTGTTGTTTGC
*
27081057 TGTTATTTT
1 TATTATTTT
27081066 TGTTGCTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 11 0.21
53 29 0.55
54 13 0.25
ACGTcount: A:0.07, C:0.06, G:0.21, T:0.66
Consensus pattern (53 bp):
TATTATTTTGGTGCTTTTTTTACTATTTTGGTTGCTGTTTTCGTGTTGTTTGC
Found at i:27081085 original size:53 final size:52
Alignment explanation
Indices: 27080968--27081126 Score: 140
Period size: 53 Copynumber: 2.9 Consensus size: 52
27080958 TTGGAGCTGT
* * * * * *
27080968 TTTTTACTATTTTGGTTGCTGTTTTTGTGTTGTTTTTTATTA-TTTTGGTGCTT
1 TTTTTACTGTTTTGGTTGTTG-TTTTGTGTT-TTTGTTGTTATTTTTGTTGCTA
*
27081021 TTTTTACTGTTTTGGTTGTTGTTTTCGTGTTTTTGCTGTTATTTTTGTTGCTA
1 TTTTTACTGTTTTGGTTGTTGTTTT-GTGTTTTTGTTGTTATTTTTGTTGCTA
** ***
27081074 TTTTTGTTGTTTTTAATGTTGTTTTGCTGTTATTTTGGTTGTTATTTTTGTTG
1 TTTTTACTGTTTTGGTTGTTGTTTTG-TG-T-TTTT-GTTGTTATTTTTGTTG
27081127 TTTAGATGTT
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
52 12 0.14
53 55 0.63
54 1 0.01
55 4 0.05
56 15 0.17
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (52 bp):
TTTTTACTGTTTTGGTTGTTGTTTTGTGTTTTTGTTGTTATTTTTGTTGCTA
Found at i:27081108 original size:32 final size:32
Alignment explanation
Indices: 27081063--27081143 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
27081053 TTGCTGTTAT
* *
27081063 TTTTGTTGCTATTTTTGTTGTT-TTTAATGTTG
1 TTTTGATGTTATTTTTGTTGTTATTT-ATGTTG
* * *
27081095 TTTTGCTGTTATTTTGGTTGTTATTTTTGTTG
1 TTTTGATGTTATTTTTGTTGTTATTTATGTTG
*
27081127 TTTAGATGTTATATTTT
1 TTTTGATGTTAT-TTTT
27081144 TTGCGTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
32 34 0.85
33 6 0.15
ACGTcount: A:0.11, C:0.02, G:0.19, T:0.68
Consensus pattern (32 bp):
TTTTGATGTTATTTTTGTTGTTATTTATGTTG
Found at i:27082397 original size:15 final size:15
Alignment explanation
Indices: 27082373--27082411 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
27082363 TCGAATTTAA
*
27082373 AAAATTTTAAATTTT
1 AAAATTTTAAATTTG
*
27082388 AAATTTTTAAATTTG
1 AAAATTTTAAATTTG
27082403 AAAATTTTA
1 AAAATTTTA
27082412 TCTAATTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
AAAATTTTAAATTTG
Found at i:27086003 original size:19 final size:20
Alignment explanation
Indices: 27085963--27086004 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
27085953 TATGTCTAAT
*
27085963 TATGATGCGAAGCCTTTAAA
1 TATGATGCGAAGCCTATAAA
27085983 TATGATGCGAA-CCTATAAA
1 TATGATGCGAAGCCTATAAA
27086002 TAT
1 TAT
27086005 TTCTAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (20 bp):
TATGATGCGAAGCCTATAAA
Found at i:27092555 original size:52 final size:52
Alignment explanation
Indices: 27092477--27092682 Score: 295
Period size: 52 Copynumber: 4.0 Consensus size: 52
27092467 TAAATGAAAT
27092477 AGGTCCGATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTATG
*
27092529 AGGTCCGATGACTATGTGTCATCGTGAGAATATGAATCCTTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTATG
* ** * * *
27092581 ATGTATGATGATTATGTGTCATCGTGAATATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTATG
* * ** * *
27092633 AGGTCCGATTACTATGTGTTATCGTGAGTATATGAATTCTTTACGGATTA
1 AGGTCCGATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTA
27092683 AATGTCTGAT
Statistics
Matches: 138, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 138 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTATG
Found at i:27092666 original size:104 final size:104
Alignment explanation
Indices: 27092483--27092710 Score: 332
Period size: 104 Copynumber: 2.2 Consensus size: 104
27092473 AAATAGGTCC
27092483 GATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTATGAGGTCCGATGACTATGTGT
1 GATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTATGAGGTCCGATGACTATGTGT
27092548 CATCGTGAGAATATGAATCCTTTACGAATTATGATGTAT
66 CATCGTGAGAATATGAATCCTTTACGAATTATGATGTAT
* * * *
27092587 GATGATTATGTGTCATCGTGAATATATGAATCCTTTACGGATTATGAGGTCCGATTACTATGTGT
1 GATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTATGAGGTCCGATGACTATGTGT
* * * * * *
27092652 TATCGTGAGTATATGAATTCTTTACGGATTA-AATGTCT
66 CATCGTGAGAATATGAATCCTTTACGAATTATGATGTAT
** *
27092690 GATGACTCCGTTTCATCGTGA
1 GATGACTATGTGTCATCGTGA
27092711 GTATCAAATA
Statistics
Matches: 110, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
103 22 0.20
104 88 0.80
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (104 bp):
GATGACTATGTGTCATCGTGAAAATATGAATCCTTTACGAATTATGAGGTCCGATGACTATGTGT
CATCGTGAGAATATGAATCCTTTACGAATTATGATGTAT
Found at i:27093429 original size:21 final size:21
Alignment explanation
Indices: 27093405--27093462 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
27093395 TAGAATCAAG
*
27093405 ACTTGTATCGGTAGAGGAGTC
1 ACTTGTATCGGTAGAGCAGTC
* * *
27093426 ACTTGTATCAGTAGAACTGTC
1 ACTTGTATCGGTAGAGCAGTC
*
27093447 ACTTGTATCGATAGAG
1 ACTTGTATCGGTAGAG
27093463 ATCTGCACTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (21 bp):
ACTTGTATCGGTAGAGCAGTC
Found at i:27098659 original size:72 final size:72
Alignment explanation
Indices: 27098573--27098718 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 72
27098563 TGAAACTAAA
* *
27098573 ACATAGGTGGCGATCTTATTAGCGATAAAGTCCTCCTAACAAAGTTCTCGCCCTAACTGAAATTT
1 ACATAGGTGGCGATCTTATTAGCGATAAAGTCCTCCTAACAAAGTCCTCACCCTAACTGAAATTT
*
27098638 CTTTATC
66 CTCTATC
*
27098645 ACATAGGTGGCGATCTTATTAGCGATAAAGTCCTCCTAACAAAGTCCTTACCCTAACTGAAATTT
1 ACATAGGTGGCGATCTTATTAGCGATAAAGTCCTCCTAACAAAGTCCTCACCCTAACTGAAATTT
27098710 CTCTATC
66 CTCTATC
27098717 AC
1 AC
27098719 TTGGACTGGT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (72 bp):
ACATAGGTGGCGATCTTATTAGCGATAAAGTCCTCCTAACAAAGTCCTCACCCTAACTGAAATTT
CTCTATC
Found at i:27101061 original size:57 final size:57
Alignment explanation
Indices: 27100995--27101114 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 57
27100985 GATTGACTGG
* * * * *
27100995 ACATATATAATTAGGGCTCAAATGGTTTATAATTAAGTTCTATCTTTTTGCCTATTA
1 ACATATATAATTAGGGCTCAAATGATTTATAATTAAGTTCAAGCTTTTCGCCAATTA
*
27101052 ACATATATAATTAGGGTTCAAATGATTTATAATTAAGTTCAAGCTTTTCGCCAATTA
1 ACATATATAATTAGGGCTCAAATGATTTATAATTAAGTTCAAGCTTTTCGCCAATTA
27101109 A-ATATA
1 ACATATA
27101115 AACTCATTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 5 0.09
57 52 0.91
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (57 bp):
ACATATATAATTAGGGCTCAAATGATTTATAATTAAGTTCAAGCTTTTCGCCAATTA
Found at i:27106052 original size:18 final size:18
Alignment explanation
Indices: 27106003--27106079 Score: 91
Period size: 18 Copynumber: 4.2 Consensus size: 18
27105993 ATCCAAAATT
* *
27106003 TGCTCTAACGAGACAGTA
1 TGCTCAAACGAGCCAGTA
**
27106021 TTGCTCTTACGAGCCAGTA
1 -TGCTCAAACGAGCCAGTA
*
27106040 TGCTCAAATGAGCCAGTA
1 TGCTCAAACGAGCCAGTA
*
27106058 TGCTCTAACGAGCCAGTA
1 TGCTCAAACGAGCCAGTA
27106076 TGCT
1 TGCT
27106080 ATTCCTTCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
18 35 0.69
19 16 0.31
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (18 bp):
TGCTCAAACGAGCCAGTA
Found at i:27108746 original size:26 final size:28
Alignment explanation
Indices: 27108693--27108762 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 28
27108683 GAATCTGAAT
27108693 TTTG-AAATACGAAAATAGAAAGACTAAAA
1 TTTGAAAATAC-AAAATAG-AAGACTAAAA
*
27108722 TTTGAAAATA-AAAATAG-AGACTAAAT
1 TTTGAAAATACAAAATAGAAGACTAAAA
*
27108748 TTTGAATATACAAAA
1 TTTGAAAATACAAAA
27108763 AAAACAAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 17 0.46
27 4 0.11
28 7 0.19
29 4 0.11
30 5 0.14
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (28 bp):
TTTGAAAATACAAAATAGAAGACTAAAA
Found at i:27113687 original size:15 final size:15
Alignment explanation
Indices: 27113637--27113687 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
27113627 AATTTTTTTG
27113637 AATCGAATCAAGTGA
1 AATCGAATCAAGTGA
* *
27113652 AAT-GAAATTCGAGTAA
1 AATCG-AA-TCAAGTGA
27113668 AATCGAATCAAGTGA
1 AATCGAATCAAGTGA
27113683 AATCG
1 AATCG
27113688 TTCGAGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 1 0.03
15 16 0.55
16 11 0.38
17 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.22
Consensus pattern (15 bp):
AATCGAATCAAGTGA
Found at i:27117722 original size:33 final size:33
Alignment explanation
Indices: 27117682--27117749 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
27117672 ATGTACTTGA
27117682 TTTTGTGAGTAATAGAAGCAGTTGAGCATTTAT
1 TTTTGTGAGTAATAGAAGCAGTTGAGCATTTAT
27117715 TTTTGTGAGTAATAGAAGCAGTTGAGCATTTAT
1 TTTTGTGAGTAATAGAAGCAGTTGAGCATTTAT
27117748 TT
1 TT
27117750 ATTCTCTTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (33 bp):
TTTTGTGAGTAATAGAAGCAGTTGAGCATTTAT
Found at i:27122173 original size:27 final size:27
Alignment explanation
Indices: 27122143--27122232 Score: 153
Period size: 27 Copynumber: 3.3 Consensus size: 27
27122133 TGTTATTCTG
*
27122143 TTCTGGGCTCATAAGAGCTAAACTCTA
1 TTCTGGGCTCGTAAGAGCTAAACTCTA
*
27122170 TTCTGGGCTCGTAAGAGCTAAACTCTG
1 TTCTGGGCTCGTAAGAGCTAAACTCTA
*
27122197 TTCTGGGCTCGTAAGAGTTAAACTCTA
1 TTCTGGGCTCGTAAGAGCTAAACTCTA
27122224 TTCTGGGCT
1 TTCTGGGCT
27122233 TGAATGAGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (27 bp):
TTCTGGGCTCGTAAGAGCTAAACTCTA
Found at i:27122251 original size:54 final size:54
Alignment explanation
Indices: 27122137--27122251 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
27122127 AAATAGTGTT
27122137 ATTCTGTTCTGGGCTCATAAGAGCTAAACTCTATTCTGGGCTCGTAAGAGCTAA
1 ATTCTGTTCTGGGCTCATAAGAGCTAAACTCTATTCTGGGCTCGTAAGAGCTAA
* * * * *
27122191 ACTCTGTTCTGGGCTCGTAAGAGTTAAACTCTATTCTGGGCTTG-AATGAGCTAC
1 ATTCTGTTCTGGGCTCATAAGAGCTAAACTCTATTCTGGGCTCGTAA-GAGCTAA
27122245 ATTCTGT
1 ATTCTGT
27122252 GACGACCACA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.04
54 52 0.96
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (54 bp):
ATTCTGTTCTGGGCTCATAAGAGCTAAACTCTATTCTGGGCTCGTAAGAGCTAA
Found at i:27128322 original size:13 final size:14
Alignment explanation
Indices: 27128304--27128333 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27128294 GTCAACGCAA
27128304 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
27128317 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
27128331 TCA
1 TCA
27128334 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:27134259 original size:21 final size:21
Alignment explanation
Indices: 27134235--27134284 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
27134225 TATGCTACGA
* *
27134235 GAACTCTTTTAGATGTTGTGC
1 GAACTCTTTTACATGTTGTAC
*
27134256 GAACACTTTTACATGTTGTAC
1 GAACTCTTTTACATGTTGTAC
*
27134277 GAGCTCTT
1 GAACTCTT
27134285 ACGTATGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (21 bp):
GAACTCTTTTACATGTTGTAC
Found at i:27138671 original size:200 final size:200
Alignment explanation
Indices: 27138328--27138728 Score: 757
Period size: 200 Copynumber: 2.0 Consensus size: 200
27138318 CCTTGTGGTC
*
27138328 TTGAATTTATTGCATTCGCAATCTGGCCAACTTGATTTTCTAATGCTCTTAACGATGTAGCTTGG
1 TTGAATTTATTGCATTCGCAATCTGGCCAACTTGATTTTCTAATGCTCTTAACGATGCAGCTTGG
27138393 CTTTGGATGATAGCATCATTTTGGACATGTATTCCTTCAACAAATTCTCAATAGACGAGAAATCT
66 CTTTGGATGATAGCATCATTTTGGACATGTATTCCTTCAACAAATTCTCAATAGACGAGAAATCT
* * *
27138458 CCATTTTGCTATTGATTTTGCTTTGACAAATTTGGCTCAAATCCAGGTGTTCTGTCTTGGCGAAC
131 CCATTTTGCTATTGATTTTGCTTTGACAAATTTGGCTCAAATCCAGGTGCTATGTCTTGGCAAAC
*
27138523 ATCAT
196 AGCAT
27138528 TTGAATTTATTGCATTCGCAATCTGGCCAACTTGATTTTCTAATGCTCTTAACGATGCAGCTTGG
1 TTGAATTTATTGCATTCGCAATCTGGCCAACTTGATTTTCTAATGCTCTTAACGATGCAGCTTGG
27138593 CTTTGGATGATAGCATCATTTTGGACATGTATTCCTTCAACAAATTCTCAATAGACGAGAAATCT
66 CTTTGGATGATAGCATCATTTTGGACATGTATTCCTTCAACAAATTCTCAATAGACGAGAAATCT
27138658 CCATTTTGCTATTGATTTTGCTTTGACAAATTTGGCTCAAATCCAGGTGCTATGTCTTGGCAAAC
131 CCATTTTGCTATTGATTTTGCTTTGACAAATTTGGCTCAAATCCAGGTGCTATGTCTTGGCAAAC
27138723 AGCAT
196 AGCAT
27138728 T
1 T
27138729 GCTCGAACCA
Statistics
Matches: 196, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 196 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (200 bp):
TTGAATTTATTGCATTCGCAATCTGGCCAACTTGATTTTCTAATGCTCTTAACGATGCAGCTTGG
CTTTGGATGATAGCATCATTTTGGACATGTATTCCTTCAACAAATTCTCAATAGACGAGAAATCT
CCATTTTGCTATTGATTTTGCTTTGACAAATTTGGCTCAAATCCAGGTGCTATGTCTTGGCAAAC
AGCAT
Found at i:27139741 original size:58 final size:59
Alignment explanation
Indices: 27139642--27139786 Score: 217
Period size: 58 Copynumber: 2.5 Consensus size: 59
27139632 ACACAATTTC
*
27139642 TTCTTTCTTCTCTTTTT-TTTTCTTTTTCTTTTTCTAAATTAATCAATAGAAACATTTGGG
1 TTCTTTCTTCTCTTTTTCTTTT-TTTTT-TTTTTCTAAATTAATCAATAGAAACATTTGAG
* *
27139702 TTCTTTCTTCTCTTTTTCTTTTTTTTTTTTTTC-AAATTAATCGATAGAAGCATTTGAG
1 TTCTTTCTTCTCTTTTTCTTTTTTTTTTTTTTCTAAATTAATCAATAGAAACATTTGAG
27139760 TTCTTTCTTCTC--TTTCTTTTTTTTTTT
1 TTCTTTCTTCTCTTTTTCTTTTTTTTTTT
27139787 GCAGTTACAC
Statistics
Matches: 81, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
56 15 0.19
58 34 0.42
59 6 0.07
60 22 0.27
61 4 0.05
ACGTcount: A:0.16, C:0.15, G:0.06, T:0.63
Consensus pattern (59 bp):
TTCTTTCTTCTCTTTTTCTTTTTTTTTTTTTTCTAAATTAATCAATAGAAACATTTGAG
Found at i:27139809 original size:53 final size:56
Alignment explanation
Indices: 27139642--27139815 Score: 176
Period size: 58 Copynumber: 3.1 Consensus size: 56
27139632 ACACAATTTC
* * *
27139642 TTCTTTCTTCTCTTTTTTTTTCTTTTTCTTTTTCTAAATTAATCAATAGAAACATTTGGG
1 TTCTTTCTTCTC-TTTTCTTT-TTTTT-TTTTGC-AAATTAATCAATAGAAACATTTGAG
* * *
27139702 TTCTTTCTTCTCTTTTTCTTTTTTTTTTTTTTCAAATTAATCGATAGAAGCATTTGAG
1 TTCTTTCTTCTC-TTTTC-TTTTTTTTTTTTGCAAATTAATCAATAGAAACATTTGAG
* * *
27139760 TTCTTTCTTCTC-TTTC-TTTTTTTTTTTGC-AGTTACA-CAATAAAAACATTTAAG
1 TTCTTTCTTCTCTTTTCTTTTTTTTTTTTGCAAATTA-ATCAATAGAAACATTTGAG
27139813 TTC
1 TTC
27139816 CTTGGTTGGT
Statistics
Matches: 102, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
53 20 0.20
54 13 0.13
56 4 0.04
58 34 0.33
59 6 0.06
60 22 0.22
61 3 0.03
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.57
Consensus pattern (56 bp):
TTCTTTCTTCTCTTTTCTTTTTTTTTTTTGCAAATTAATCAATAGAAACATTTGAG
Found at i:27145038 original size:15 final size:15
Alignment explanation
Indices: 27145020--27145083 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
27145010 TCGCAACACG
27145020 AGTGTTCACAACATT
1 AGTGTTCACAACATT
* *
27145035 AGTGTTCGCAACATG
1 AGTGTTCACAACATT
* ** *
27145050 AGTGCTCGTAACACT
1 AGTGTTCACAACATT
*
27145065 AGTGTTCACAACATC
1 AGTGTTCACAACATT
27145080 AGTG
1 AGTG
27145084 CTGGCAACAC
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (15 bp):
AGTGTTCACAACATT
Found at i:27145046 original size:30 final size:30
Alignment explanation
Indices: 27145010--27145104 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
27145000 TCATCCATGC
* *
27145010 TCGCAACACGAGTGTTCACAACATTAGTGT
1 TCGCAACACGAGTGCTCACAACACTAGTGT
* **
27145040 TCGCAACATGAGTGCTCGTAACACTAGTGT
1 TCGCAACACGAGTGCTCACAACACTAGTGT
* ** * *
27145070 TCACAACATC-AGTGCTGGCAACACTTGTGC
1 TCGCAACA-CGAGTGCTCACAACACTAGTGT
27145100 TCGCA
1 TCGCA
27145105 TCTTCCAAGC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (30 bp):
TCGCAACACGAGTGCTCACAACACTAGTGT
Found at i:27145102 original size:45 final size:45
Alignment explanation
Indices: 27145007--27145092 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
27144997 CCTTCATCCA
* *
27145007 TGCTCGCAACACGAGTGTTCACAACATTAGTGTTCGCAACATGAG
1 TGCTCGCAACACGAGTGTTCACAACATCAGTGCTCGCAACATGAG
* * *
27145052 TGCTCGTAACACTAGTGTTCACAACATCAGTGCTGGCAACA
1 TGCTCGCAACACGAGTGTTCACAACATCAGTGCTCGCAACA
27145093 CTTGTGCTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (45 bp):
TGCTCGCAACACGAGTGTTCACAACATCAGTGCTCGCAACATGAG
Found at i:27151520 original size:15 final size:15
Alignment explanation
Indices: 27151502--27151568 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
27151492 TCGTAACACG
27151502 AGTGTTCACAACATC
1 AGTGTTCACAACATC
* * *
27151517 AGTGTTCGCGACATG
1 AGTGTTCACAACATC
* **
27151532 AGTGCTCGTAACA-C
1 AGTGTTCACAACATC
27151546 TAGTGTTCACAACATC
1 -AGTGTTCACAACATC
27151562 AGTGTTC
1 AGTGTTC
27151569 GTAGCTCCAG
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
15 39 0.98
16 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (15 bp):
AGTGTTCACAACATC
Found at i:27151551 original size:30 final size:30
Alignment explanation
Indices: 27151517--27151610 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
27151507 TCACAACATC
* *
27151517 AGTGTTCGCGACATGAGTGCTCGTAACACT
1 AGTGTTCACAACATGAGTGCTCGTAACACT
* * * * *
27151547 AGTGTTCACAACATCAGTGTTCGTAGCTCC
1 AGTGTTCACAACATGAGTGCTCGTAACACT
* *
27151577 AGTGTTCATAACATGAGTGCTCGCAACACT
1 AGTGTTCACAACATGAGTGCTCGTAACACT
27151607 AGTG
1 AGTG
27151611 CACGCATCTT
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (30 bp):
AGTGTTCACAACATGAGTGCTCGTAACACT
Found at i:27151589 original size:45 final size:45
Alignment explanation
Indices: 27151489--27151604 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 45
27151479 CCTTCATCCA
* * *
27151489 TGCTCGTAACACGAGTGTTCACAACATCAGTGTTCGCGACATGAG
1 TGCTCATAACACGAGTGTTCACAACATCAGTGTTCGAGACATCAG
* *
27151534 TGCTCGTAACACTAGTGTTCACAACATCAGTGTTCGTAG-C-TCCAG
1 TGCTCATAACACGAGTGTTCACAACATCAGTGTTCG-AGACAT-CAG
* * * *
27151579 TGTTCATAACATGAGTGCTCGCAACA
1 TGCTCATAACACGAGTGTTCACAACA
27151605 CTAGTGCACG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
44 1 0.02
45 58 0.97
46 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (45 bp):
TGCTCATAACACGAGTGTTCACAACATCAGTGTTCGAGACATCAG
Found at i:27151595 original size:15 final size:15
Alignment explanation
Indices: 27151502--27151595 Score: 57
Period size: 15 Copynumber: 6.3 Consensus size: 15
27151492 TCGTAACACG
*
27151502 AGTGTTCACAACATC
1 AGTGTTCATAACATC
*** *
27151517 AGTGTTCGCGACATG
1 AGTGTTCATAACATC
* *
27151532 AGTGCTCGTAACA-C
1 AGTGTTCATAACATC
*
27151546 TAGTGTTCACAACATC
1 -AGTGTTCATAACATC
* *
27151562 AGTGTTCGTAGC-TCC
1 AGTGTTCATAACAT-C
*
27151577 AGTGTTCATAACATG
1 AGTGTTCATAACATC
27151592 AGTG
1 AGTG
27151596 CTCGCAACAC
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
14 1 0.02
15 56 0.95
16 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (15 bp):
AGTGTTCATAACATC
Found at i:27156052 original size:20 final size:20
Alignment explanation
Indices: 27156016--27156065 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
27156006 TCATTAAGCT
*
27156016 TTAATTAACCACTTTTA-ATC
1 TTAATTAAACACTTTTACA-C
27156036 TTAATTAAAC-CTATTTACAC
1 TTAATTAAACACT-TTTACAC
27156056 TTAATATAAA
1 TTAAT-TAAA
27156066 TCATGCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAAACACTTTTACAC
Found at i:27158397 original size:224 final size:221
Alignment explanation
Indices: 27158013--27158433 Score: 550
Period size: 229 Copynumber: 1.9 Consensus size: 221
27158003 TCTAAGTGTC
** ** *
27158013 TATATTTTTCGTACATTTGAAAGTTAACCCTCCTTTATTATATAATTTTATATTATATCATATAA
1 TATATTTTTCGTACATTTGAAAGTTAACCCTCCAATATTATATAATGCTATATCATATCATATAA
* *
27158078 TATAAAATATATTAATAGTTTATATATATGCACCAACGATTGAATATTATAATATCTTGTAATAC
66 TATAAAATATATTAATAGTTTATATATATGCACCAAC-ATTGAACATTATAATATCATGTAATAC
*
27158143 TATATTATTTTATTATAATTTATAATATAATAATAGTAGTACATTATATATTAATTATTAT-TAT
130 TATATTATTTTATTATAATCTAT-A-AT-ATAATAGTAGTACATTATATATT-ATTA-TATCTAT
27158207 TATTATATTGATTGAAATATGCTTTAAGTCCT
190 TATTATATTGATTGAAATATGCTTTAAGTCCT
*
27158239 TATATTTTTCGTACATTTGAAAGTTAGCCCTCGTACAATATTATATAATGCTATATCATATCATA
1 TATATTTTTCGTACATTTGAAAGTTAACCCTC---CAATATTATATAATGCTATATCATATCATA
* * **
27158304 TAGTATACAAA-ATATTATTAG-TT-TATATATGCATCTTA-ATT-AACATTATAATATCATGTA
63 TAATATA-AAATATATTAATAGTTTATATATATGCA-CCAACATTGAACATTATAATATCATGTA
* * *
27158364 ATACTATA-TCTTTTATTATAATCTATAATATAATAGTAGTACCTTATATATTATTATATCTTTT
126 ATACTATATTATTTTATTATAATCTATAATATAATAGTAGTACATTATATATTATTATATCTATT
27158428 ATTATA
191 ATTATA
27158434 ATCTATAATA
Statistics
Matches: 173, Mismatches: 16, Indels: 18
0.84 0.08 0.09
Matches are distributed among these distances:
219 3 0.02
220 13 0.08
221 22 0.13
222 2 0.01
223 1 0.01
224 16 0.09
225 25 0.14
226 34 0.20
227 10 0.06
228 4 0.02
229 40 0.23
230 3 0.02
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (221 bp):
TATATTTTTCGTACATTTGAAAGTTAACCCTCCAATATTATATAATGCTATATCATATCATATAA
TATAAAATATATTAATAGTTTATATATATGCACCAACATTGAACATTATAATATCATGTAATACT
ATATTATTTTATTATAATCTATAATATAATAGTAGTACATTATATATTATTATATCTATTATTAT
ATTGATTGAAATATGCTTTAAGTCCT
Found at i:27158422 original size:50 final size:50
Alignment explanation
Indices: 27158368--27158468 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
27158358 CATGTAATAC
27158368 TATATCTTTTATTATAATCTATAATATAATAGTAGTACCTTATATATTAT
1 TATATCTTTTATTATAATCTATAATATAATAGTAGTACCTTATATATTAT
*
27158418 TATATCTTTTATTATAATCTATAATATAATAGTAGTATCTTATATATTAT
1 TATATCTTTTATTATAATCTATAATATAATAGTAGTACCTTATATATTAT
27158468 T
1 T
27158469 GTTTGACATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (50 bp):
TATATCTTTTATTATAATCTATAATATAATAGTAGTACCTTATATATTAT
Found at i:27159626 original size:79 final size:78
Alignment explanation
Indices: 27159524--27159833 Score: 304
Period size: 78 Copynumber: 4.0 Consensus size: 78
27159514 TTCTATTTGA
* * * * *
27159524 AAACATAAATGAATTGAATAATTCTGTTT-AAGGACTTTATTCCAGTTGTTCAAAAAAATTTATT
1 AAACAGAAATCAATTGAACAATTCTGTTTCAA-GA-TTTATTCCTGCTGTTCAAAAAAATTTATT
27159588 CGATTTTCTGTTTCC
64 CGATTTTCTGTTTCC
* * * *
27159603 AAACAGAAATCAATTGAACAATTCTTTTTCAAGATTTTATT-CTGCTGTTTAACAAAATTTATTT
1 AAACAGAAATCAATTGAACAATTCTGTTTCAAGA-TTTATTCCTGCTGTTCAAAAAAATTTATTC
*
27159667 GATTTTCTATTTCC
65 GATTTTCTGTTTCC
* * * * ** *
27159681 AAACATAAATCAATTGAACAATTTTATTTCAAGATTCTATTCTTGCCATTC-AACAAATTTATTC
1 AAACAGAAATCAATTGAACAATTCTGTTTCAAGATT-TATTCCTGCTGTTCAAAAAAATTTATTC
* *
27159745 AATTTTTTGTTTCC
65 GATTTTCTGTTTCC
* * * ** * * *
27159759 AAATAGAAATCATTTGAACAATTTTGTTTCAAGATTCTATTCCTGCCATTCAACAGAATTTATTT
1 AAACAGAAATCAATTGAACAATTCTGTTTCAAGATT-TATTCCTGCTGTTCAAAAAAATTTATTC
27159824 GA-TTTCTGTT
65 GATTTTCTGTT
27159834 GTTAACAGTA
Statistics
Matches: 192, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
77 2 0.01
78 140 0.73
79 48 0.25
80 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (78 bp):
AAACAGAAATCAATTGAACAATTCTGTTTCAAGATTTATTCCTGCTGTTCAAAAAAATTTATTCG
ATTTTCTGTTTCC
Found at i:27159682 original size:78 final size:79
Alignment explanation
Indices: 27159572--27159828 Score: 331
Period size: 78 Copynumber: 3.3 Consensus size: 79
27159562 ATTCCAGTTG
* *
27159572 TTCAAAAAAATTTATTCGATTTTCTGTTTCCAAACAGAAATCAATTGAACAATTCTT-TTTCAAG
1 TTCAACAAAATTTATTCGATTTTCTATTTCCAAACAGAAATCAATTGAACAATT-TTATTTCAAG
* **
27159636 ATTTTATT-CTGCTG
65 ATTCTATTCCTGCCA
* * *
27159650 TTTAACAAAATTTATTTGATTTTCTATTTCCAAACATAAATCAATTGAACAATTTTATTTCAAGA
1 TTCAACAAAATTTATTCGATTTTCTATTTCCAAACAGAAATCAATTGAACAATTTTATTTCAAGA
*
27159715 TTCTATTCTTGCCA
66 TTCTATTCCTGCCA
* * * * * *
27159729 TTCAAC-AAATTTATTCAATTTTTTGTTTCCAAATAGAAATCATTTGAACAATTTTGTTTCAAGA
1 TTCAACAAAATTTATTCGATTTTCTATTTCCAAACAGAAATCAATTGAACAATTTTATTTCAAGA
27159793 TTCTATTCCTGCCA
66 TTCTATTCCTGCCA
* *
27159807 TTCAACAGAATTTATTTGATTT
1 TTCAACAAAATTTATTCGATTT
27159829 CTGTTGTTAA
Statistics
Matches: 154, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
77 2 0.01
78 132 0.86
79 20 0.13
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (79 bp):
TTCAACAAAATTTATTCGATTTTCTATTTCCAAACAGAAATCAATTGAACAATTTTATTTCAAGA
TTCTATTCCTGCCA
Found at i:27165411 original size:5 final size:5
Alignment explanation
Indices: 27165397--27165438 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
27165387 TAGTAATAGT
27165397 TATT- TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
27165439 ATTATTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:27167836 original size:23 final size:25
Alignment explanation
Indices: 27167795--27167855 Score: 99
Period size: 23 Copynumber: 2.5 Consensus size: 25
27167785 AATTTAAATT
27167795 TATTTGTTTGTTTTGTTTTGATAAA
1 TATTTGTTTGTTTTGTTTTGATAAA
*
27167820 TATTTGTTT-TTTT-TTTTGGTAAA
1 TATTTGTTTGTTTTGTTTTGATAAA
27167843 TATTTGTTTGTTT
1 TATTTGTTTGTTT
27167856 GCTTTTAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 18 0.53
24 7 0.21
25 9 0.26
ACGTcount: A:0.16, C:0.00, G:0.15, T:0.69
Consensus pattern (25 bp):
TATTTGTTTGTTTTGTTTTGATAAA
Found at i:27173975 original size:21 final size:21
Alignment explanation
Indices: 27173949--27173990 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27173939 CAAACAATGA
27173949 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
27173970 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
27173991 ATCAAATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:27183612 original size:13 final size:13
Alignment explanation
Indices: 27183596--27183621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27183586 TATCCCTTTT
27183596 AAATATCGAAGAA
1 AAATATCGAAGAA
27183609 AAATATCGAAGAA
1 AAATATCGAAGAA
27183622 CCCTCTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (13 bp):
AAATATCGAAGAA
Found at i:27190896 original size:45 final size:45
Alignment explanation
Indices: 27190832--27190920 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
27190822 CGACATCTGT
* * *
27190832 TAAATTCCTGTGTTGGTGCTTCTACCTGTGGATTCAGCTTGATTC
1 TAAATTCCTGCGTTGGTGCTTCCACCTGTGAATTCAGCTTGATTC
*
27190877 TAAATTCCTGCGTTGGTGCTTCCAGCTGTGAATTCAGCTTGATT
1 TAAATTCCTGCGTTGGTGCTTCCACCTGTGAATTCAGCTTGATT
27190921 TACTCATTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.40
Consensus pattern (45 bp):
TAAATTCCTGCGTTGGTGCTTCCACCTGTGAATTCAGCTTGATTC
Found at i:27192148 original size:26 final size:26
Alignment explanation
Indices: 27192119--27192219 Score: 130
Period size: 26 Copynumber: 3.7 Consensus size: 26
27192109 AAATTTTACT
27192119 ATAATTAAATAAATACAAACATAAAC
1 ATAATTAAATAAATACAAACATAAAC
* *
27192145 ATAATTAAATAAATATAAATATAAAC
1 ATAATTAAATAAATACAAACATAAAC
27192171 ATAATTAACTAAATACAAATACAAACATAAAC
1 ATAA-T---TAAAT--AAATACAAACATAAAC
27192203 ATAATTAAATAAATACA
1 ATAATTAAATAAATACA
27192220 TAATTAAGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
26 35 0.54
27 1 0.02
28 5 0.08
30 5 0.08
31 1 0.02
32 18 0.28
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (26 bp):
ATAATTAAATAAATACAAACATAAAC
Found at i:27192218 original size:32 final size:32
Alignment explanation
Indices: 27192129--27192219 Score: 122
Period size: 32 Copynumber: 3.0 Consensus size: 32
27192119 ATAATTAAAT
27192129 AAATACAAACATAAACATAATTAAATAAAT--
1 AAATACAAACATAAACATAATTAAATAAATAC
* *
27192159 --AT--AAATATAAACATAATTAACTAAATAC
1 AAATACAAACATAAACATAATTAAATAAATAC
27192187 AAATACAAACATAAACATAATTAAATAAATAC
1 AAATACAAACATAAACATAATTAAATAAATAC
27192219 A
1 A
27192220 TAATTAAGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
26 22 0.43
28 2 0.04
30 2 0.04
32 25 0.49
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (32 bp):
AAATACAAACATAAACATAATTAAATAAATAC
Found at i:27192232 original size:16 final size:16
Alignment explanation
Indices: 27192119--27192226 Score: 69
Period size: 16 Copynumber: 6.5 Consensus size: 16
27192109 AAATTTTACT
27192119 ATAATTAAATAAATAC
1 ATAATTAAATAAATAC
* * * *
27192135 AAACATAAACATAATTAA
1 ATA-ATTAA-ATAAATAC
27192153 ATAAATATAAATATAA-AC
1 AT-AAT-TAAATA-AATAC
*
27192171 ATAATTAACTAAATAC
1 ATAATTAAATAAATAC
* *
27192187 A-AATACAAACATAA-AC
1 ATAAT-TAAATA-AATAC
27192203 ATAATTAAATAAATAC
1 ATAATTAAATAAATAC
27192219 ATAATTAA
1 ATAATTAA
27192227 GAAAATGAGT
Statistics
Matches: 68, Mismatches: 14, Indels: 20
0.67 0.14 0.20
Matches are distributed among these distances:
15 7 0.10
16 30 0.44
17 12 0.18
18 15 0.22
19 4 0.06
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAATTAAATAAATAC
Found at i:27223966 original size:14 final size:14
Alignment explanation
Indices: 27223949--27223980 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
27223939 GGGAGTGAAT
27223949 AAAAAGAAAGAAAG
1 AAAAAGAAAGAAAG
27223963 AAAAAGAAAGAAAG
1 AAAAAGAAAGAAAG
27223977 AAAA
1 AAAA
27223981 GAAGTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAG
Found at i:27226741 original size:24 final size:23
Alignment explanation
Indices: 27226698--27226744 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
27226688 ATCCCATTCC
27226698 CTCTCACTGCCTTATTTCTCCTT
1 CTCTCACTGCCTTATTTCTCCTT
*
27226721 CTCTCACCTTCCTT-TTCTCTCCTT
1 CTCTCA-CTGCCTTATT-TCTCCTT
27226745 TTTAAGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.06, C:0.43, G:0.02, T:0.49
Consensus pattern (23 bp):
CTCTCACTGCCTTATTTCTCCTT
Found at i:27247030 original size:22 final size:22
Alignment explanation
Indices: 27246999--27247041 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27246989 ATAATTGATG
27246999 TATTTAAAAATAGTATACAATT
1 TATTTAAAAATAGTATACAATT
* * *
27247021 TATTTTAAAATATTTTACAAT
1 TATTTAAAAATAGTATACAAT
27247042 GTACAGATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (22 bp):
TATTTAAAAATAGTATACAATT
Found at i:27258705 original size:31 final size:34
Alignment explanation
Indices: 27258659--27258729 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 34
27258649 TAAAATTGAA
*
27258659 AATAAAACAGAATAAAAAGATTAAATTAAAAAAG
1 AATAAAACAGAATAAAAAGATTAAATAAAAAAAG
* *
27258693 -ATAAAA-A-AATAAAAGGATTTAATAAAAAAAG
1 AATAAAACAGAATAAAAAGATTAAATAAAAAAAG
27258724 AATAAA
1 AATAAA
27258730 GGGAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 21 0.64
32 6 0.18
33 6 0.18
ACGTcount: A:0.72, C:0.01, G:0.08, T:0.18
Consensus pattern (34 bp):
AATAAAACAGAATAAAAAGATTAAATAAAAAAAG
Found at i:27261287 original size:40 final size:40
Alignment explanation
Indices: 27261243--27261344 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
27261233 GCAAGCACCA
* *
27261243 AAGTGCAAACAGAGACACAAATGTACAAATAGA-GACATCG
1 AAGTGCAAACAGAGGCACAAATGTACAAAAAGAGGA-ATCG
* ** *
27261283 AAGTGCAAATAGAGGCATGAATGTGCAAAAAGAGGAATCG
1 AAGTGCAAACAGAGGCACAAATGTACAAAAAGAGGAATCG
*
27261323 AAGTGAAAACAGAGGCACAAAT
1 AAGTGCAAACAGAGGCACAAAT
27261345 TTTCCTTGAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 49 0.96
41 2 0.04
ACGTcount: A:0.49, C:0.14, G:0.25, T:0.13
Consensus pattern (40 bp):
AAGTGCAAACAGAGGCACAAATGTACAAAAAGAGGAATCG
Found at i:27261291 original size:20 final size:20
Alignment explanation
Indices: 27261243--27261327 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 20
27261233 GCAAGCACCA
* *
27261243 AAGTGCAAACAGAGACA-CA
1 AAGTGCAAATAGAGACATCG
*
27261262 AATGTACAAATAGAGACATCG
1 AA-GTGCAAATAGAGACATCG
*
27261283 AAGTGCAAATAGAGGCAT-G
1 AAGTGCAAATAGAGACATCG
*
27261302 AATGTGCAAAAAGAGGA-ATCG
1 AA-GTGCAAATAGA-GACATCG
27261323 AAGTG
1 AAGTG
27261328 AAAACAGAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
19 5 0.09
20 42 0.78
21 7 0.13
ACGTcount: A:0.47, C:0.13, G:0.26, T:0.14
Consensus pattern (20 bp):
AAGTGCAAATAGAGACATCG
Found at i:27261336 original size:20 final size:19
Alignment explanation
Indices: 27261279--27261337 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
27261269 AAATAGAGAC
* *
27261279 ATCGAAGTGCAAATAGAGGC
1 ATCGAAGTG-AAAAAGAGGA
27261299 AT-GAATGTGCAAAAAGAGGA
1 ATCGAA-GTG-AAAAAGAGGA
27261319 ATCGAAGTGAAAACAGAGG
1 ATCGAAGTGAAAA-AGAGG
27261338 CACAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 7 0.21
20 24 0.71
21 3 0.09
ACGTcount: A:0.46, C:0.10, G:0.31, T:0.14
Consensus pattern (19 bp):
ATCGAAGTGAAAAAGAGGA
Found at i:27263896 original size:35 final size:35
Alignment explanation
Indices: 27263857--27263939 Score: 82
Period size: 37 Copynumber: 2.3 Consensus size: 35
27263847 ATATTTCACT
27263857 CTTTTTCACTC-CTTATGCTTTTAACCATATC-C-ATG
1 CTTTTTCACTCGCTT-TGCTTTTAA-CAT-TCACAATG
*
27263892 CTTTTATTCACTCGCTTTGTTTTTAACATTCACAATG
1 C-TTT-TTCACTCGCTTTGCTTTTAACATTCACAATG
*
27263929 TTTTTTCACTC
1 CTTTTTCACTC
27263940 AAATATTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
35 10 0.24
36 10 0.24
37 18 0.44
38 3 0.07
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.49
Consensus pattern (35 bp):
CTTTTTCACTCGCTTTGCTTTTAACATTCACAATG
Found at i:27265496 original size:26 final size:26
Alignment explanation
Indices: 27265447--27265496 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
27265437 GGAAATTTGT
*
27265447 AAAAAAAATAAATATAAATAGATATG
1 AAAAAAAATAAAGATAAATAGATATG
*
27265473 AAAATAAATAAAGATGAAAT-GATA
1 AAAAAAAATAAAGAT-AAATAGATA
27265497 ATAAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (26 bp):
AAAAAAAATAAAGATAAATAGATATG
Found at i:27265497 original size:18 final size:17
Alignment explanation
Indices: 27265456--27265501 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
27265446 TAAAAAAAAT
* *
27265456 AAATATAAATAGATATG
1 AAATATAAATAAAGATG
27265473 AAA-ATAAATAAAGATG
1 AAATATAAATAAAGATG
27265489 AAATGAT-AATAAA
1 AAAT-ATAAATAAA
27265502 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 14 0.56
17 9 0.36
18 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (17 bp):
AAATATAAATAAAGATG
Found at i:27265499 original size:21 final size:21
Alignment explanation
Indices: 27265451--27265506 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
27265441 ATTTGTAAAA
*
27265451 AAAATAAATATAAATAGATATG
1 AAAATAAATA-AAATAGAAATG
27265473 AAAATAAATAAAGAT-GAAATG
1 AAAATAAATAAA-ATAGAAATG
*
27265494 ATAATAAATAAAA
1 AAAATAAATAAAA
27265507 ATTATACAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.03
21 18 0.58
22 12 0.39
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (21 bp):
AAAATAAATAAAATAGAAATG
Found at i:27266330 original size:285 final size:282
Alignment explanation
Indices: 27265974--27266531 Score: 772
Period size: 285 Copynumber: 2.0 Consensus size: 282
27265964 CAAAATCACT
* * *
27265974 ATTTTTCTTAAAAATGAATACTTTTATTTCGAAATAGTTAAAAAAATCAAACTTTGTTTAAAAAT
1 ATTTTTCTTAAAAATCAAAACTTTTATTTCGAAATAATTAAAAAAATCAAACTTTGTTTAAAAAT
27266039 TTAAACTTTTCT-CTTCAAAATGACTAAAAAACATATTTTTATTTTTAAAAATCTAAACTTTCTT
66 TTAAACTTTTCTCCTTCAAAATGACT-AAAAACATATTTTTATTTTTAAAAATCTAAAC-TT-TT
* * * *
27266103 TTTTTTAAAAAATTACTACTTTTGTTAAAAATCAAAGTTTTTATTTCGAAATAGTTTGAAAAAAT
128 TTTTTT---AAATAACTACTTTTCTTAAAAATCAAAATTTTTATTTCGAAATAG-TTAAAAAAAT
** * *
27266168 C-AAATTTTGTTT-AAAAATTTAAACTTTTTCCTTTAAAA-TGACTAAAAAAAGATTTTATTTT-
189 CAAAACATTATTTAAAAAAGTTAAACTTTTTCCTTTAAAATTG-CTAAAAAAAGATTTT-TTTTA
* *
27266229 TAATAATCTAAACTTT-TTTTAAAAAAAATG
252 AAAAAATCTAAACTTTCTTTTAAAAAAAATG
*
27266259 ATTTTT-TTAAAATTCAAAACTTTTATATTC-AAATAATTAAAAAAATCAAAACTTTGTTTAAAA
1 ATTTTTCTTAAAAATCAAAACTTTTAT-TTCGAAATAATTAAAAAAATC-AAACTTTGTTTAAAA
* * *
27266322 ATTTAAACTTTTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAGTCTAAACTTTTT
64 ATTTAAACTTTTCTCCTTCAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAAACTTTTT
27266387 TTTTTAAATAACTACTTTTCTTAAAAATCAAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAA
129 TTTTTAAATAACTACTTTTCTTAAAAATCAAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAA
* * *
27266452 CATTATTTAAAAAAAGTTAAACTTTTTCCTTTAAAATTGCTGAAAACATATTTTTTTTAAAAAAA
194 CATTATTT-AAAAAAGTTAAACTTTTTCCTTTAAAATTGCTAAAAAAAGATTTTTTTTAAAAAAA
27266517 TCTAAACTTTCTTTT
258 TCTAAACTTTCTTTT
27266532 TTTTTAAAAA
Statistics
Matches: 244, Mismatches: 20, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
279 10 0.04
280 50 0.20
281 4 0.02
282 51 0.21
283 14 0.06
284 35 0.14
285 68 0.28
286 12 0.05
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (282 bp):
ATTTTTCTTAAAAATCAAAACTTTTATTTCGAAATAATTAAAAAAATCAAACTTTGTTTAAAAAT
TTAAACTTTTCTCCTTCAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAAACTTTTTTT
TTTAAATAACTACTTTTCTTAAAAATCAAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAACA
TTATTTAAAAAAGTTAAACTTTTTCCTTTAAAATTGCTAAAAAAAGATTTTTTTTAAAAAAATCT
AAACTTTCTTTTAAAAAAAATG
Found at i:27269803 original size:23 final size:23
Alignment explanation
Indices: 27269769--27269822 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
27269759 AACTAAAACC
* *
27269769 ATTTT-TTATTTTTAAAAATCTAA
1 ATTTTCTTATTTTAAAAAAACT-A
27269792 ATTTTCTT-TTTTAAAAAAACTA
1 ATTTTCTTATTTTAAAAAAACTA
27269814 ATTTTCTTA
1 ATTTTCTTA
27269823 AAAATCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.33
23 16 0.59
24 2 0.07
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTCTTATTTTAAAAAAACTA
Found at i:27269816 original size:22 final size:22
Alignment explanation
Indices: 27269777--27269821 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
27269767 CCATTTTTTA
*
27269777 TTTTTAAAAATCTAAATTTTCT
1 TTTTTAAAAAACTAAATTTTCT
27269799 TTTTTAAAAAAACT-AATTTTCT
1 TTTTT-AAAAAACTAAATTTTCT
27269821 T
1 T
27269822 AAAAATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTTAAAAAACTAAATTTTCT
Found at i:27270002 original size:148 final size:143
Alignment explanation
Indices: 27269738--27270101 Score: 459
Period size: 149 Copynumber: 2.5 Consensus size: 143
27269728 GTATCGATAT
* * *
27269738 TTTAAATTTTTTCTTTAAAATAACT-AAAACCAT-TTTTTATTTTTAAAAATCTAAATTTTCTTT
1 TTTAAATTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTTAAAAATCTAAATTTT-TTT
* * **
27269801 TTT-AAAAAAACTAATTTTCTTAAAAATCAAAACTTTTATTTTGAAATACTTAAAAATTTTCAAA
65 TTTAAAAAAAACTAATTTTCTTAAAAATCAAAAATTTTATTTCGAAATACTTAAAAA-AATCAAA
27269865 ACTTTGTTT-AAAAA
129 ACTTTGTTTAAAAAA
* * *
27269879 TTTAAACTTTTTCCTTTACAATGACTAAAAAACATATTTTTATTTTTAGAAATATAAATTTCTTT
1 TTTAAA-TTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTTAAAAATCTAAATTT-TTT
* *
27269944 TTTTAAAAAAAATCATTACTTTTCTTAAAAATCAAAAATTTTATTTCGAAATAGTTAAAAAAATC
64 TTTTAAAAAAAA-C--TAATTTTCTTAAAAATCAAAAATTTTATTTCGAAATACTTAAAAAAATC
*
27270009 CAAACTTTGTTTAAAAAAA
126 AAAACTTTGTTT-AAAAAA
* * * *
27270028 GTTAAAATTTTTCCTTTAAAATGACTAAAAAACATAATTTTATTTTAAAAAATCT-AATTTGTTT
1 -TTTAAATTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTTAAAAATCTAAATTTTTTT
27270092 TTTAAAAAAA
65 TTTAAAAAAA
27270102 TACTCCTTTT
Statistics
Matches: 192, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
141 6 0.03
142 16 0.08
143 7 0.04
144 29 0.15
145 8 0.04
146 1 0.01
147 26 0.14
148 46 0.24
149 48 0.25
150 5 0.03
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (143 bp):
TTTAAATTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTTAAAAATCTAAATTTTTTTT
TTAAAAAAAACTAATTTTCTTAAAAATCAAAAATTTTATTTCGAAATACTTAAAAAAATCAAAAC
TTTGTTTAAAAAA
Found at i:27270078 original size:20 final size:21
Alignment explanation
Indices: 27270053--27270100 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
27270043 TTAAAATGAC
27270053 TAAAAAA-CATAATTT-TATTT
1 TAAAAAATC-TAATTTGTATTT
*
27270073 TAAAAAATCTAATTTGTTTTT
1 TAAAAAATCTAATTTGTATTT
27270094 TAAAAAA
1 TAAAAAA
27270101 ATACTCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAAAAATCTAATTTGTATTT
Found at i:27270850 original size:42 final size:42
Alignment explanation
Indices: 27270796--27271325 Score: 637
Period size: 42 Copynumber: 12.7 Consensus size: 42
27270786 CACACATTGA
* * *
27270796 CCTCTAAATGCAATGAAAAGTGAATGGACCACCACACCTAGG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
* * **
27270838 CCTCTAACTGCAATGAAAAGTAAATTAACCTCCACACCTAGG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
* * * *
27270880 TCTTTAAATGTGATGAAAAGTAAATGGACCTCCACACCTGGG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
* * *
27270922 CCTATAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
*
27270964 CCTTTAAATGCGATGAAAAGTAAATGGACCT-C-CA-C-A--
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
* * *
27271000 CCTCTAAATGTGATGAAAAGTAAAAGGACCTCCACACCTGGG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
* * * *
27271042 CCACTAAATGCGATGAAAAGTAAATGAACTTCCATACCTAGG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
* * *
27271084 CCTCTAAATGCGTTGAAAAGTAAAAGGACCTCCACA-CTCGGG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCT-AGG
* * *
27271126 CCTCTAAATGTGATGAAAAGTAAATGGACTTCCACACCTGGG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
* * * *
27271168 CCTCTAAATGTGATAAAAAGTAAATGGACCTCCACACCCAAG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
* * *
27271210 CCTCTAAATGCGATGAAAAGTAAAAGGACCTCCACAACTGGG
1 CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
*
27271252 CCTCTAAATGCGATGAAAAGTAAATAGG-CCTCCACAGCTAGG
1 CCTCTAAATGCGATGAAAAGTAAAT-GGACCTCCACACCTAGG
27271294 CCTCTAAAATG-GAATGAAAAGTAAATGGACCT
1 CCTCT-AAATGCG-ATGAAAAGTAAATGGACCT
27271326 TGATAGCATT
Statistics
Matches: 419, Mismatches: 57, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
36 28 0.07
37 1 0.00
38 2 0.00
39 2 0.00
40 2 0.00
41 3 0.01
42 356 0.85
43 25 0.06
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (42 bp):
CCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTAGG
Found at i:27278322 original size:25 final size:25
Alignment explanation
Indices: 27278288--27278338 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
27278278 ATTCAAAAAC
27278288 CTCCATTGTTATTCAAAATTTTCTT
1 CTCCATTGTTATTCAAAATTTTCTT
27278313 CTCCATTGTTATTCAAAATTTTCTT
1 CTCCATTGTTATTCAAAATTTTCTT
27278338 C
1 C
27278339 AAGTTCCCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.51
Consensus pattern (25 bp):
CTCCATTGTTATTCAAAATTTTCTT
Found at i:27287788 original size:21 final size:20
Alignment explanation
Indices: 27287751--27287793 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
27287741 AGAAAAAACA
27287751 AAAAAACACAAAAAAAGAGAG
1 AAAAAACACAAAAAAAGA-AG
27287772 AAAAAACA-ACAAAAAAGAAG
1 AAAAAACACA-AAAAAAGAAG
27287792 AA
1 AA
27287794 GAAATAGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAACACAAAAAAAGAAG
Found at i:27301536 original size:4 final size:4
Alignment explanation
Indices: 27301520--27301576 Score: 62
Period size: 4 Copynumber: 14.2 Consensus size: 4
27301510 ACAAATTAGC
* * *
27301520 GAAT GAGT GAAT GAAT GGAT GAAT GAAT GAAT -AATT GAAT TAAT GAAT
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAA-T GAAT GAAT GAAT
*
27301568 GAAT TAAT G
1 GAAT GAAT G
27301577 GAATTGGGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
3 2 0.05
4 39 0.91
5 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.30
Consensus pattern (4 bp):
GAAT
Found at i:27303613 original size:42 final size:42
Alignment explanation
Indices: 27303566--27303647 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
27303556 AAAACTTATC
27303566 TAATTTCAAACTTAAATTAGAGATTTTTACTTTTAACGGGAA
1 TAATTTCAAACTTAAATTAGAGATTTTTACTTTTAACGGGAA
*
27303608 TAATTTGAAACTTAAATTAGAGATTTTTACTTTTAACGGG
1 TAATTTCAAACTTAAATTAGAGATTTTTACTTTTAACGGG
27303648 GACTCTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (42 bp):
TAATTTCAAACTTAAATTAGAGATTTTTACTTTTAACGGGAA
Found at i:27310187 original size:16 final size:16
Alignment explanation
Indices: 27310142--27310189 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
27310132 AGGGAAATGT
*
27310142 ATAAAAAAACAT-AAA
1 ATAAATAAACATGAAA
*
27310157 TATAAATAGACATGAAA
1 -ATAAATAAACATGAAA
*
27310174 ATAAATAAAGATGAAA
1 ATAAATAAACATGAAA
27310190 TAAGAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 24 0.89
17 3 0.11
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (16 bp):
ATAAATAAACATGAAA
Found at i:27310746 original size:22 final size:22
Alignment explanation
Indices: 27310666--27310746 Score: 53
Period size: 25 Copynumber: 3.6 Consensus size: 22
27310656 AAAAACATAT
27310666 TTTTATTTCTAAAAATCTAAAGC
1 TTTTATTTCTAAAAATC-AAAGC
* *
27310689 TTCTTTTTTTTTAAAAA--AATCA-C
1 -T-TTTATTTCTAAAAATCAA--AGC
*
27310712 TATT-TTTCTTAAAAATCAAAGC
1 TTTTATTTC-TAAAAATCAAAGC
27310734 TTTTATTTCTAAA
1 TTTTATTTCTAAA
27310747 TAGTTAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 18
0.66 0.07 0.27
Matches are distributed among these distances:
20 3 0.07
21 9 0.20
22 11 0.25
23 7 0.16
24 2 0.05
25 12 0.27
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTATTTCTAAAAATCAAAGC
Found at i:27310968 original size:140 final size:139
Alignment explanation
Indices: 27310572--27310987 Score: 508
Period size: 143 Copynumber: 2.9 Consensus size: 139
27310562 TCAGAAGTTT
* *
27310572 TCTTAAAAATCAAAACTATTATTTCAAAATAGTTAAAAAAATC-AAACTTTGTTTAAAAATTTAA
1 TCTTAAAAATCAAAGCTTTTATTTCAAAATAGTT-AAAAAATCAAAACTTTGTTTAAAAATTTAA
* * * *
27310636 A-ATTTTCTTCAAAATCACTAAAAAACATATTTTTATTTCTAAAAATCTAAAGCTTCTTTTTTTT
65 ACTTTTTCTTTAAAATGACT-AAAAACATATTTTTATTTTTAAAAATCTAAA-----TTTTTTTT
*
27310700 TAAAAAAATCACTATTTT
124 TAAAAAAA--ACTATTTA
* *
27310718 TCTTAAAAATCAAAGCTTTTATTTCTAAATAGTT-AAAAA--AAAA--TTATTTAAAAATTTAAA
1 TCTTAAAAATCAAAGCTTTTATTTCAAAATAGTTAAAAAATCAAAACTTTGTTTAAAAATTTAAA
27310778 CTTTTTTCTTTAAAATGACTAAAAACCATATTTTTATTTTT-AAAATCTAAA-TTTTTTTTAAAA
66 C-TTTTTCTTTAAAATGACTAAAAA-CATATTTTTATTTTTAAAAATCTAAATTTTTTTTTAAAA
27310841 AAAACTATTTA
129 AAAACTATTTA
* * *
27310852 TCTTAAAAATTAAAGCTTTTATTTCGAAATAGTTAAAAAATTCAAAACTTTGTTTAAAAGTTTAA
1 TCTTAAAAATCAAAGCTTTTATTTCAAAATAGTTAAAAAA-TCAAAACTTTGTTTAAAAATTTAA
* *
27310917 ACTTTTTCCTTTAAAATGACTAAAAATAGATTTTTATTTTTAAAAATCTAAACTTTCTTTTTTAA
65 ACTTTTT-CTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAAA-TTT-TTTTTTAA
27310982 AAAAAA
127 AAAAAA
27310988 TCAAAACTTT
Statistics
Matches: 240, Mismatches: 15, Indels: 33
0.83 0.05 0.11
Matches are distributed among these distances:
134 39 0.16
135 5 0.02
136 15 0.06
138 4 0.02
139 18 0.08
140 44 0.18
141 16 0.07
142 17 0.07
143 46 0.19
144 5 0.02
146 31 0.13
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.43
Consensus pattern (139 bp):
TCTTAAAAATCAAAGCTTTTATTTCAAAATAGTTAAAAAATCAAAACTTTGTTTAAAAATTTAAA
CTTTTTCTTTAAAATGACTAAAAACATATTTTTATTTTTAAAAATCTAAATTTTTTTTTAAAAAA
AACTATTTA
Found at i:27310986 original size:96 final size:97
Alignment explanation
Indices: 27310886--27311085 Score: 291
Period size: 97 Copynumber: 2.1 Consensus size: 97
27310876 CGAAATAGTT
* *
27310886 AAAAAATTCAAAACTTTGTTT-A-AAAGTTTAAACTTTTTCCTTTAAAATGACTAAAA-ATAGAT
1 AAAAAAATCAAAACTTT-TTTAATAAAG-TTAAACTTTTTCCTTTAAAATGACTAAAACACAGAT
* *
27310948 TTTTATTTTTAAAAATCTAAACTTTC-TTTTTTA
64 TTTTATTCTTAAAAATCTAAACCTTCTTTTTTTA
* *
27310981 AAAAAAATCAAAACTTTTTTAAATAAAGTTCAACTTTTTCCTTTAAAATGACTAAAACACATATT
1 AAAAAAATCAAAACTTTTTT-AATAAAGTTAAACTTTTTCCTTTAAAATGACTAAAACACAGATT
27311046 TTTATTCTTAAAAATCTAAACCTTCTTTTTTTA
65 TTTATTCTTAAAAATCTAAACCTTCTTTTTTTA
27311079 AAAAAAA
1 AAAAAAA
27311086 ATCACCTATT
Statistics
Matches: 94, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
94 3 0.03
95 16 0.17
96 29 0.31
97 32 0.34
98 14 0.15
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (97 bp):
AAAAAAATCAAAACTTTTTTAATAAAGTTAAACTTTTTCCTTTAAAATGACTAAAACACAGATTT
TTATTCTTAAAAATCTAAACCTTCTTTTTTTA
Found at i:27311121 original size:96 final size:94
Alignment explanation
Indices: 27310916--27311124 Score: 253
Period size: 97 Copynumber: 2.2 Consensus size: 94
27310906 TAAAAGTTTA
* * *
27310916 AACTTTTTCCTTTAAAATGACTAAAAATAGATTTTTATTTTTAAAAATCTAAACTTTCTTTTTTA
1 AACTTTTTCCTTTAAAATGACTAAAAACAGATTTTTATTCTTAAAAATCTAAACCTTCTTTTTTA
* *
27310981 AAAAAAATCAAAACTTTTTTAAATAAAGTTC
66 AAAAAAATC-AAACTATTTT-AATAAAGATC
*
27311012 AACTTTTTCCTTTAAAATGACTAAAACACATATTTTTATTCTTAAAAATCTAAACCTTCTTTTTT
1 AACTTTTTCCTTTAAAATGACTAAAA-ACAGATTTTTATTCTTAAAAATCTAAACCTTC-TTTTT
* * *
27311077 TAAAAAAAAATC-ACCTATTTT-CTTAAGATC
64 T-AAAAAAAATCAAACTATTTTAATAAAGATC
27311107 AAGCTATTTT-CTTTAAAA
1 AA-CT-TTTTCCTTTAAAA
27311125 ACTTTATTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
95 8 0.08
96 36 0.36
97 39 0.39
98 6 0.06
99 10 0.10
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.43
Consensus pattern (94 bp):
AACTTTTTCCTTTAAAATGACTAAAAACAGATTTTTATTCTTAAAAATCTAAACCTTCTTTTTTA
AAAAAAATCAAACTATTTTAATAAAGATC
Found at i:27326892 original size:769 final size:769
Alignment explanation
Indices: 27325415--27327722 Score: 4562
Period size: 769 Copynumber: 3.0 Consensus size: 769
27325405 TTTGACACCC
* *
27325415 ACAAACAGTCCGTTTTATCGTTGTTTGTCCAGCAACCGTCATGCCAGGCTACTCTTTGGCGATTA
1 ACAAACAGTCCGTTTTATCATTGTTTGTCCAGCAACCGTCATGCTAGGCTACTCTTTGGCGATTA
27325480 TCTCTTTCTCAAAATTTTCCTTTTTTTCCTGCGTAGATCACTGCCAACTCTTTTCGACGATCATA
66 TCTCTTTCTCAAAATTTTCCTTTTTTTCCTGCGTAGATCACTGCCAACTCTTTTCGACGATCATA
27325545 TTTATTGACGACCTCTGTAAATATATACAACCATCCTTTCGCATGATTGCTTTTATCATTAATCC
131 TTTATTGACGACCTCTGTAAATATATACAACCATCCTTTCGCATGATTGCTTTTATCATTAATCC
27325610 ACTTGTGAAATTCACATGCCTTAGTGTGGTGGATTAATTGCTGCTCAATCACCTCATTTAGTAAA
196 ACTTGTGAAATTCACATGCCTTAGTGTGGTGGATTAATTGCTGCTCAATCACCTCATTTAGTAAA
27325675 AATGGTGGATTTACTGCAAATTCATGCATTGATGTTGTTGCAGCTATCTGTTTCCCATTGTAATT
261 AATGGTGGATTTACTGCAAATTCATGCATTGATGTTGTTGCAGCTATCTGTTTCCCATTGTAATT
27325740 TCCATCACTGCATTCTGTTTCCTTTGAATTGTGCTGCCAGTGTAGTAGTTGCCTCTCTCATGGGC
326 TCCATCACTGCATTCTGTTTCCTTTGAATTGTGCTGCCAGTGTAGTAGTTGCCTCTCTCATGGGC
27325805 GTATACTATCTTGTTCCACAGATATAATTATTAGGCTCGTAAATGCTTCCTGTTTTCTGTAAAAA
391 GTATACTATCTTGTTCCACAGATATAATTATTAGGCTCGTAAATGCTTCCTGTTTTCTGTAAAAA
*
27325870 TTGAAAAAATTTCACATTAGTAATTTCTCTAGGAATTTACTGCTCCAGGAAAGTATTATACATAA
456 TTGAAAAAATTTCACATTAGTAATTTCTCTAGGAATTTGCTGCTCCAGGAAAGTATTATACATAA
27325935 TAGCTAATTTCTAGTGGAAATTAAATTTTTGATGGATGATATCTTCAACTAATATTTCTTTTGTT
521 TAGCTAATTTCTAGTGGAAATTAAATTTTTGATGGATGATATCTTCAACTAATATTTCTTTTGTT
27326000 GACGGTTTGGCAACAATAATTAATTGAAGATCTAAATTTGGGATTTAAGAACCGTCTTCTTCCTC
586 GACGGTTTGGCAACAATAATTAATTGAAGATCTAAATTTGGGATTTAAGAACCGTCTTCTTCCTC
27326065 TATGAGGATTGATTCATCATTGGATTGGGGCCAATTCTCAATTTTTACACGATCATCCATTTTCC
651 TATGAGGATTGATTCATCATTGGATTGGGGCCAATTCTCAATTTTTACACGATCATCCATTTTCC
27326130 CTTCCAAAGATGATATTTCTTTTTACCCGGCGGTCTGGTCATCCAATTCCATAA
716 CTTCCAAAGATGATATTTCTTTTTACCCGGCGGTCTGGTCATCCAATTCCATAA
27326184 ACAAACAGTCCGTTTTATCATTGTTTGTCCAGCAACCGTCATGCTAGGCTACTCTTTGGCGATTA
1 ACAAACAGTCCGTTTTATCATTGTTTGTCCAGCAACCGTCATGCTAGGCTACTCTTTGGCGATTA
27326249 TCTCTTTCTCAAAATTTTCCTTTTTTTCCTGCGTAGATCACTGCCAACTCTTTTCGACGATCATA
66 TCTCTTTCTCAAAATTTTCCTTTTTTTCCTGCGTAGATCACTGCCAACTCTTTTCGACGATCATA
27326314 TTTATTGACGACCTCTGTAAATATATACAACCATCCTTTCGCATGATTGCTTTTATCATTAATCC
131 TTTATTGACGACCTCTGTAAATATATACAACCATCCTTTCGCATGATTGCTTTTATCATTAATCC
27326379 ACTTGTGAAATTCACATGCCTTAGTGTGGTGGATTAATTGCTGCTCAATCACCTCATTTAGTAAA
196 ACTTGTGAAATTCACATGCCTTAGTGTGGTGGATTAATTGCTGCTCAATCACCTCATTTAGTAAA
27326444 AATGGTGGATTTACTGCAAATTCATGCATTGATGTTGTTGCAGCTATCTGTTTCCCATTGTAATT
261 AATGGTGGATTTACTGCAAATTCATGCATTGATGTTGTTGCAGCTATCTGTTTCCCATTGTAATT
27326509 TCCATCACTGCATTCTGTTTCCTTTGAATTGTGCTGCCAGTGTAGTAGTTGCCTCTCTCATGGGC
326 TCCATCACTGCATTCTGTTTCCTTTGAATTGTGCTGCCAGTGTAGTAGTTGCCTCTCTCATGGGC
27326574 GTATACTATCTTGTTCCACAGATATAATTATTAGGCTCGTAAATGCTTCCTGTTTTCTGTAAAAA
391 GTATACTATCTTGTTCCACAGATATAATTATTAGGCTCGTAAATGCTTCCTGTTTTCTGTAAAAA
27326639 TTGAAAAAATTTCACATTAGTAATTTCTCTAGGAATTTGCTGCTCCAGGAAAGTATTATACATAA
456 TTGAAAAAATTTCACATTAGTAATTTCTCTAGGAATTTGCTGCTCCAGGAAAGTATTATACATAA
27326704 TAGCTAATTTCTAGTGGAAATTAAATTTTTGATGGATGATATCTTCAACTAATATTTCTTTTGTT
521 TAGCTAATTTCTAGTGGAAATTAAATTTTTGATGGATGATATCTTCAACTAATATTTCTTTTGTT
27326769 GACGGTTTGGCAACAATAATTAATTGAAGATCTAAATTTGGGATTTAAGAACCGTCTTCTTCCTC
586 GACGGTTTGGCAACAATAATTAATTGAAGATCTAAATTTGGGATTTAAGAACCGTCTTCTTCCTC
27326834 TATGAGGATTGATTCATCATTGGATTGGGGCCAATTCTCAATTTTTACACGATCATCCATTTTCC
651 TATGAGGATTGATTCATCATTGGATTGGGGCCAATTCTCAATTTTTACACGATCATCCATTTTCC
*
27326899 CTTCCAAAGATGATATTTCTTTTTACCCGGCGGTCTGGTCATCCAATTCTATAA
716 CTTCCAAAGATGATATTTCTTTTTACCCGGCGGTCTGGTCATCCAATTCCATAA
27326953 ACAAACAGTCCGTTTTATCATTGTTTGTCCAGCAACCGTCATGCTAGGCTACTCTTTGGCGATTA
1 ACAAACAGTCCGTTTTATCATTGTTTGTCCAGCAACCGTCATGCTAGGCTACTCTTTGGCGATTA
27327018 TCTCTTTCTCAAAATTTTCCTTTTTTTCCTGCGTAGATCACTGCCAACTCTTTTCGACGATCATA
66 TCTCTTTCTCAAAATTTTCCTTTTTTTCCTGCGTAGATCACTGCCAACTCTTTTCGACGATCATA
*
27327083 TTTATTGATGACCTCTGTAAATATATACAACCATCCTTTCGCATGATTGCTTTTATCATTAATCC
131 TTTATTGACGACCTCTGTAAATATATACAACCATCCTTTCGCATGATTGCTTTTATCATTAATCC
27327148 ACTTGTGAAATTCACATGCCTTAGTGTGGTGGATTAATTGCTGCTCAATCACCTCATTTAGTAAA
196 ACTTGTGAAATTCACATGCCTTAGTGTGGTGGATTAATTGCTGCTCAATCACCTCATTTAGTAAA
27327213 AATGGTGGATTTACTGCAAATTCATGCATTGATGTTGTTGCAGCTATCTGTTTCCCATTGTAATT
261 AATGGTGGATTTACTGCAAATTCATGCATTGATGTTGTTGCAGCTATCTGTTTCCCATTGTAATT
27327278 TCCATCACTGCATTCTGTTTCCTTTGAATTGTGCTGCCAGTGTAGTAGTTGCCTCTCTCATGGGC
326 TCCATCACTGCATTCTGTTTCCTTTGAATTGTGCTGCCAGTGTAGTAGTTGCCTCTCTCATGGGC
27327343 GTATACTATCTTGTTCCACAGATATAATTATTAGGCTCGTAAATGCTTCCTGTTTTCTGTAAAAA
391 GTATACTATCTTGTTCCACAGATATAATTATTAGGCTCGTAAATGCTTCCTGTTTTCTGTAAAAA
27327408 TTGAAAAAATTTCACATTAGTAATTTCTCTAGGAATTTGCTGCTCCAGGAAAGTATTATACATAA
456 TTGAAAAAATTTCACATTAGTAATTTCTCTAGGAATTTGCTGCTCCAGGAAAGTATTATACATAA
*
27327473 TAGCTAATTTCTAATGGAAATTAAATTTTTGATGGATGATATCTTCAACTAATATTTCTTTTGTT
521 TAGCTAATTTCTAGTGGAAATTAAATTTTTGATGGATGATATCTTCAACTAATATTTCTTTTGTT
27327538 GACGGTTTGGCAACAATAATTAATTGAAGATCTAAATTTGGGATTTAAGAACCGTCTTCTTCCTC
586 GACGGTTTGGCAACAATAATTAATTGAAGATCTAAATTTGGGATTTAAGAACCGTCTTCTTCCTC
27327603 TATGAGGATTGATTCATCATTGGATTGGGGCCAATTCTCAATTTTTACACGATCATCCATTTTCC
651 TATGAGGATTGATTCATCATTGGATTGGGGCCAATTCTCAATTTTTACACGATCATCCATTTTCC
27327668 CTTCCAAAGATGATATTTCTTTTTACCCGGCGGTCTGGTCATCCAATTCCATAA
716 CTTCCAAAGATGATATTTCTTTTTACCCGGCGGTCTGGTCATCCAATTCCATAA
27327722 A
1 A
27327723 ATATTCTCTT
Statistics
Matches: 1532, Mismatches: 7, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
769 1532 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (769 bp):
ACAAACAGTCCGTTTTATCATTGTTTGTCCAGCAACCGTCATGCTAGGCTACTCTTTGGCGATTA
TCTCTTTCTCAAAATTTTCCTTTTTTTCCTGCGTAGATCACTGCCAACTCTTTTCGACGATCATA
TTTATTGACGACCTCTGTAAATATATACAACCATCCTTTCGCATGATTGCTTTTATCATTAATCC
ACTTGTGAAATTCACATGCCTTAGTGTGGTGGATTAATTGCTGCTCAATCACCTCATTTAGTAAA
AATGGTGGATTTACTGCAAATTCATGCATTGATGTTGTTGCAGCTATCTGTTTCCCATTGTAATT
TCCATCACTGCATTCTGTTTCCTTTGAATTGTGCTGCCAGTGTAGTAGTTGCCTCTCTCATGGGC
GTATACTATCTTGTTCCACAGATATAATTATTAGGCTCGTAAATGCTTCCTGTTTTCTGTAAAAA
TTGAAAAAATTTCACATTAGTAATTTCTCTAGGAATTTGCTGCTCCAGGAAAGTATTATACATAA
TAGCTAATTTCTAGTGGAAATTAAATTTTTGATGGATGATATCTTCAACTAATATTTCTTTTGTT
GACGGTTTGGCAACAATAATTAATTGAAGATCTAAATTTGGGATTTAAGAACCGTCTTCTTCCTC
TATGAGGATTGATTCATCATTGGATTGGGGCCAATTCTCAATTTTTACACGATCATCCATTTTCC
CTTCCAAAGATGATATTTCTTTTTACCCGGCGGTCTGGTCATCCAATTCCATAA
Found at i:27330148 original size:54 final size:54
Alignment explanation
Indices: 27330061--27330226 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
27330051 ACTTAAAGGA
* *
27330061 CATTTAATTAAGTTTTATTTCAATTT-AGTAAGTTTGCATTGTAATTATGTCTTG
1 CATTTAATTAAGTTTTATTTCAGTTTAAG-AAGTTTGCATTTTAATTATGTCTTG
* *
27330115 CATTTAATTAAGTTTTATTTCAGTTTAAGAAGTTTGAATTTTTATTATGTCTTG
1 CATTTAATTAAGTTTTATTTCAGTTTAAGAAGTTTGCATTTTAATTATGTCTTG
* * *
27330169 CATTTAATAAAGTTTTACTTCAGTTTAATAAGTTTGCATTTTAATTATGTCTTG
1 CATTTAATTAAGTTTTATTTCAGTTTAAGAAGTTTGCATTTTAATTATGTCTTG
27330223 CATT
1 CATT
27330227 ATATTTATGT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 100 0.98
55 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (54 bp):
CATTTAATTAAGTTTTATTTCAGTTTAAGAAGTTTGCATTTTAATTATGTCTTG
Found at i:27330225 original size:18 final size:18
Alignment explanation
Indices: 27330202--27330236 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27330192 TTTAATAAGT
*
27330202 TTGCATTTTAATTATGTC
1 TTGCATTATAATTATGTC
*
27330220 TTGCATTATATTTATGT
1 TTGCATTATAATTATGT
27330237 GTCTCATATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (18 bp):
TTGCATTATAATTATGTC
Found at i:27331946 original size:23 final size:23
Alignment explanation
Indices: 27331920--27332028 Score: 130
Period size: 23 Copynumber: 4.7 Consensus size: 23
27331910 TTTTAGCGCA
*
27331920 AATTGAAAGTGGCACTTTGGTGC
1 AATTGAAAGTGGCACTTTGATGC
** *
27331943 AATTGACCGTGGCACTCTGATGC
1 AATTGAAAGTGGCACTTTGATGC
* *
27331966 AATTGACAA-TGACACTTTGATGT
1 AATTGA-AAGTGGCACTTTGATGC
*
27331989 AATTGAAAGTGGCACTTCGATGC
1 AATTGAAAGTGGCACTTTGATGC
*
27332012 AATTGAAAATGGCACTT
1 AATTGAAAGTGGCACTT
27332029 CGGTGCAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
22 2 0.03
23 69 0.97
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (23 bp):
AATTGAAAGTGGCACTTTGATGC
Found at i:27333804 original size:37 final size:37
Alignment explanation
Indices: 27333755--27333836 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
27333745 TTCCTAAAGG
*
27333755 ATATATACGATTGAATAAGTGTTGTTGAGGTTAGTAT
1 ATATATATGATTGAATAAGTGTTGTTGAGGTTAGTAT
*
27333792 ATATATATGATTGAATTAGTGTTGTTGAGGTTAGTAT
1 ATATATATGATTGAATAAGTGTTGTTGAGGTTAGTAT
*
27333829 ATTTATAT
1 ATATATAT
27333837 CTAGTATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (37 bp):
ATATATATGATTGAATAAGTGTTGTTGAGGTTAGTAT
Found at i:27334317 original size:28 final size:28
Alignment explanation
Indices: 27334285--27334469 Score: 173
Period size: 28 Copynumber: 6.7 Consensus size: 28
27334275 AAACAGAGCA
* **
27334285 TTTGTGGCAAATTATGAAAGGAAATACC
1 TTTGTGGCGAATTATGAAAGGAAATGTC
* *
27334313 TTTGTGGTGAATTATGAAAAG-AATAGTC
1 TTTGTGGCGAATTATGAAAGGAAAT-GTC
** * *
27334341 TTTAAGGCAAATTATGAAAGGAAATGCC
1 TTTGTGGCGAATTATGAAAGGAAATGTC
* * *
27334369 CTTGTGGTGAATTACGAAAGGAAATGTC
1 TTTGTGGCGAATTATGAAAGGAAATGTC
27334397 -TTGTGGCGAATTATGAACA-G-AATGTC
1 TTTGTGGCGAATTATGAA-AGGAAATGTC
*
27334423 TTTGTGGCGAATTATGAAAAG-AATAGTC
1 TTTGTGGCGAATTATGAAAGGAAAT-GTC
**
27334451 TTTGTGATGAATTATGAAA
1 TTTGTGGCGAATTATGAAA
27334470 CGAATTATGA
Statistics
Matches: 129, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
26 7 0.05
27 40 0.31
28 79 0.61
29 3 0.02
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.31
Consensus pattern (28 bp):
TTTGTGGCGAATTATGAAAGGAAATGTC
Found at i:27334351 original size:56 final size:54
Alignment explanation
Indices: 27334289--27334454 Score: 203
Period size: 56 Copynumber: 3.0 Consensus size: 54
27334279 AGAGCATTTG
*
27334289 TGGCAAATTATGAAAGGAAATACCTTTGTGGTGAATTATGAAAAGAATAGTCTT
1 TGGCAAATTATGAAAGGAAATGCCTTTGTGGTGAATTATGAAAAGAATAGTCTT
* * *
27334343 TAAGGCAAATTATGAAAGGAAATGCCCTTGTGGTGAATTACGAAAGGAA-ATGTCTT
1 T--GGCAAATTATGAAAGGAAATGCCTTTGTGGTGAATTATGAAAAGAATA-GTCTT
* * *
27334399 GTGGCGAATTATGAACA-G-AATGTCTTTGTGGCGAATTATGAAAAGAATAGTCTT
1 -TGGCAAATTATGAA-AGGAAATGCCTTTGTGGTGAATTATGAAAAGAATAGTCTT
27334453 TG
1 TG
27334455 TGATGAATTA
Statistics
Matches: 96, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
53 2 0.02
54 30 0.31
55 15 0.16
56 48 0.50
57 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (54 bp):
TGGCAAATTATGAAAGGAAATGCCTTTGTGGTGAATTATGAAAAGAATAGTCTT
Found at i:27334494 original size:40 final size:40
Alignment explanation
Indices: 27334430--27334509 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
27334420 GTCTTTGTGG
* *
27334430 CGAATTATGAAAAGAATAGTCTTTGTGATGAATTATGAAA
1 CGAATTATGAAAAAAATAGTCTTTGTGACGAATTATGAAA
*
27334470 CGAATTATGAAAAAAATA-TCCTTTGTGGCGAATTATGAAA
1 CGAATTATGAAAAAAATAGT-CTTTGTGACGAATTATGAAA
27334510 GGAAGTGCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.03
40 35 0.97
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.31
Consensus pattern (40 bp):
CGAATTATGAAAAAAATAGTCTTTGTGACGAATTATGAAA
Found at i:27336518 original size:25 final size:25
Alignment explanation
Indices: 27336465--27336525 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
27336455 TATTTTATTT
*
27336465 TTTTTATTTTCTCTCTTTTTCTTCCC
1 TTTTTCTTTTCTCTCTTTTTCTT-CC
27336491 TTTTTCTTTTCTCTTCTTATTT-TT-C
1 TTTTTCTTTTCTC-TCTT-TTTCTTCC
27336516 TTTTTCTTTT
1 TTTTTCTTTT
27336526 TTCGGGCCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 11 0.34
26 12 0.38
27 6 0.19
28 3 0.09
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTCTTTTCTCTCTTTTTCTTCC
Found at i:27337653 original size:27 final size:25
Alignment explanation
Indices: 27337593--27337640 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27337583 AGGCCCATCA
*
27337593 AAAGAAAAAAAAAACAAAAAAGACG
1 AAAGAAAATAAAAACAAAAAAGACG
**
27337618 AGGGAAAATAAAAACAAAAAAGA
1 AAAGAAAATAAAAACAAAAAAGA
27337641 GGAACAAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (25 bp):
AAAGAAAATAAAAACAAAAAAGACG
Found at i:27343589 original size:243 final size:241
Alignment explanation
Indices: 27343163--27343643 Score: 917
Period size: 243 Copynumber: 2.0 Consensus size: 241
27343153 TCTACGTGCA
27343163 TAAATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAAGCTTCATATTGCAATGGAGAA
1 TAAATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAAGCTTCATATTGCAATGGAGAA
*
27343228 AGTCGGAAACACAATTTCATATACATATTCACTTCAATTTAGAAGATTCACACAATGTCAGGCTA
66 AGTCGGAAACACAATTACATATACATATTCACTTCAATTTAGAAGATTCACACAATGTCAGGCTA
27343293 TAAACATGTTAAAACTTTACAATGCTCCCTCATAATCCTGAACTTCTTCCAGTATTGCTTTCTAT
131 TAAACATGTTAAAACTTTACAATGCTCCCTCATAATCCTGAACTTCTTCCAGTATTGCTTTCTAT
27343358 TTGTTTTAATAGCTAGACTCAATCAAATTATGAACACGTTAATCTT
196 TTGTTTTAATAGCTAGACTCAATCAAATTATGAACACGTTAATCTT
27343404 TAAATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAAGCTTCATATTGCAATGGAGAA
1 TAAATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAAGCTTCATATTGCAATGGAGAA
* *
27343469 AGTCGGAAACACAAAATTACATATACATATTCATTTCAATTTAGAAGATTCACACAATGTTAGGC
66 AGTCGGAAACAC--AATTACATATACATATTCACTTCAATTTAGAAGATTCACACAATGTCAGGC
27343534 TATAAACATGTTAAAACTTTACAATGCTCCCTCATAATCCTGAACTTCTTCCAGTATTGCTTTCT
129 TATAAACATGTTAAAACTTTACAATGCTCCCTCATAATCCTGAACTTCTTCCAGTATTGCTTTCT
27343599 ATTTGTTTTAATAGCTAGACTCAATCAAATTATGAACACGTTAAT
194 ATTTGTTTTAATAGCTAGACTCAATCAAATTATGAACACGTTAAT
27343644 TAAATTGCTC
Statistics
Matches: 235, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
241 77 0.33
243 158 0.67
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (241 bp):
TAAATTCCACAAAGCAAGAGATCCTACAATCACAAAGTACTAAAGCTTCATATTGCAATGGAGAA
AGTCGGAAACACAATTACATATACATATTCACTTCAATTTAGAAGATTCACACAATGTCAGGCTA
TAAACATGTTAAAACTTTACAATGCTCCCTCATAATCCTGAACTTCTTCCAGTATTGCTTTCTAT
TTGTTTTAATAGCTAGACTCAATCAAATTATGAACACGTTAATCTT
Found at i:27348185 original size:170 final size:170
Alignment explanation
Indices: 27347904--27348242 Score: 590
Period size: 170 Copynumber: 2.0 Consensus size: 170
27347894 ATACCTTCAA
*
27347904 TTGAACTCCTAATACTTCTCCCAATAAAATAAGTAATAAATTAATCTAAATAATTAATTTGACTT
1 TTGAACTCCTAATACCTCTCCCAATAAAATAAGTAATAAATTAATCTAAATAATTAATTTGACTT
*
27347969 CTAACATAAAACCTTTCACCTAGATAAAATGAAGTATTTCAACTCTTCGCAAAAATCAC-AAATA
66 CTAACATAAAACCTTTCACCTAGATAAAATGAAGTATTTCAACTCTTCACAAAAATCACAAAATA
* * *
27348033 TGATGTAAACCTCAAATGCATTAGAGAGAGAGAGAGAGAT
131 TGATGGAAACCTAAAATGCATCAGAGAGAGAGAGAGAGAT
*
27348073 TTGAACTCCTAATACCTCTCCTAATAAAATAAGTAATAAATTAATCTAAAATAATTAATTTGACT
1 TTGAACTCCTAATACCTCTCCCAATAAAATAAGTAATAAATTAATCT-AAATAATTAATTTGACT
* *
27348138 TCTAACATAAAACGTTTCACCTAGATAAAATGAAGTATTTCAACTCTTCACAGAAATCACAAAAT
65 TCTAACATAAAACCTTTCACCTAGATAAAATGAAGTATTTCAACTCTTCACAAAAATCACAAAAT
27348203 ATGATGGAAACCTAAAATGCATCAGAGAGAGAGAGAGAGA
130 ATGATGGAAACCTAAAATGCATCAGAGAGAGAGAGAGAGA
27348243 GAGAGAGAGA
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
169 45 0.28
170 74 0.46
171 41 0.26
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (170 bp):
TTGAACTCCTAATACCTCTCCCAATAAAATAAGTAATAAATTAATCTAAATAATTAATTTGACTT
CTAACATAAAACCTTTCACCTAGATAAAATGAAGTATTTCAACTCTTCACAAAAATCACAAAATA
TGATGGAAACCTAAAATGCATCAGAGAGAGAGAGAGAGAT
Found at i:27348233 original size:2 final size:2
Alignment explanation
Indices: 27348226--27348256 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27348216 AAAATGCATC
27348226 AG AG 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 AG AG A
27348257 CCAGATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27350764 original size:3 final size:3
Alignment explanation
Indices: 27350756--27350793 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
27350746 TCCATCAGAA
*
27350756 TCT TCT TCT TCT TCT TCT TCT TCT TCT TGT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
27350794 CTCCTCTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:27352124 original size:26 final size:26
Alignment explanation
Indices: 27352064--27352157 Score: 98
Period size: 26 Copynumber: 3.6 Consensus size: 26
27352054 AGTGAGTCCG
* * *
27352064 AGGACCCTTTAGTTCGAGATGGGTCAA
1 AGGACCCTTGAGTTTGAG-TAGGTCAA
* *
27352091 AGGCCCCTTGAGTTTGAGTAGGTCTA
1 AGGACCCTTGAGTTTGAGTAGGTCAA
* * **
27352117 AGGACCCTTAAGTTTGAGTTGGTCGG
1 AGGACCCTTGAGTTTGAGTAGGTCAA
27352143 AGGACCCTTGAGTTT
1 AGGACCCTTGAGTTT
27352158 AAGATGGTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
26 41 0.73
27 15 0.27
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (26 bp):
AGGACCCTTGAGTTTGAGTAGGTCAA
Done.