Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 90 of 202
Found at i:27070826 original size:43 final size:43
Alignment explanation
Indices: 27070779--27071026 Score: 200
Period size: 43 Copynumber: 5.8 Consensus size: 43
27070769 TTTTACGGCG
* *
27070779 TTTAGTGGTGCTTTTAT-ATAAAACGCCGCTAAAGAACATGACC
1 TTTAGCGGCGCTTTTATCA-AAAACGCCGCTAAAGAACATGACC
* *
27070822 TTTAGTGGCGC-TTTACCCACAAAA-GCCGCTAAA-AAGCATGACC
1 TTTAGCGGCGCTTTTA-TCA-AAAACGCCGCTAAAGAA-CATGACC
* * * *
27070865 TTTAGCAGCGCTATTATCACAAATGCCGCTAAAGAACATGACC
1 TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGAACATGACC
** * * *
27070908 TTTAGCGATGCTTTTATCACAGACGCTGCTAAAGAACATGACC
1 TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGAACATGACC
* * * * * *
27070951 TTTACCGGCGCTTTTATCACAAATGTCGCTATAGAGA-ATGACT
1 TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGA-ACATGACC
** * * *
27070994 TTTAGCGGCTTTTTTTTCACAAACGCCACTAAA
1 TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAA
27071027 AATACTATTC
Statistics
Matches: 166, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
42 9 0.05
43 146 0.88
44 11 0.07
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAGAACATGACC
Found at i:27071026 original size:86 final size:85
Alignment explanation
Indices: 27070803--27071028 Score: 235
Period size: 86 Copynumber: 2.6 Consensus size: 85
27070793 TATATAAAAC
* * * *
27070803 GCCGCTAAAGAACATGACCTTTAGTG-GCGCTTTACCCACAAAAGCCGCTAAAAAGCATGACCTT
1 GCCGCTAAAGAACATGACCTTTAGCGAGC-TTTTA-TCACAAACGCCGCTAAAAAGCATGACCTT
*
27070867 TAGCAGCGCTATTATCACAAAT
64 TACCAGCGCTATTATCACAAAT
* *
27070889 GCCGCTAAAGAACATGACCTTTAGCGATGCTTTTATCACAGACGCTGCTAAAGAA-CATGACCTT
1 GCCGCTAAAGAACATGACCTTTAGCGA-GCTTTTATCACAAACGCCGCTAAA-AAGCATGACCTT
* *
27070953 TACCGGCGCTTTTATCACAAAT
64 TACCAGCGCTATTATCACAAAT
* * * * *
27070975 GTCGCTATAGAGA-ATGACTTTTAGCG-GCTTTTTTTTCACAAACGCCACTAAAAA
1 GCCGCTAAAGA-ACATGACCTTTAGCGAGC--TTTTATCACAAACGCCGCTAAAAA
27071029 TACTATTCTT
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
84 2 0.02
85 2 0.02
86 105 0.89
87 7 0.06
88 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (85 bp):
GCCGCTAAAGAACATGACCTTTAGCGAGCTTTTATCACAAACGCCGCTAAAAAGCATGACCTTTA
CCAGCGCTATTATCACAAAT
Found at i:27073855 original size:21 final size:24
Alignment explanation
Indices: 27073810--27073855 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
27073800 AATTTCAATA
27073810 ATGTAATTATTATTATTTATATAT
1 ATGTAATTATTATTATTTATATAT
*
27073834 ATGTAATTATTATT-TTTTTATA
1 ATGTAATTATTATTATTTATATA
27073856 ATTTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
ATGTAATTATTATTATTTATATAT
Found at i:27073863 original size:32 final size:33
Alignment explanation
Indices: 27073819--27073889 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
27073809 AATGTAATTA
*
27073819 TTATTATTTATATATATGTA-AT-TATTATTTTT
1 TTATAATTTATATATATGTATATAT-TTATTTTT
27073851 TTATAATTTATATATATGTATATATTTATTTTT
1 TTATAATTTATATATATGTATATATTTATTTTT
27073884 TATATA
1 T-TATA
27073890 TGTACATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
32 19 0.54
33 11 0.31
34 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (33 bp):
TTATAATTTATATATATGTATATATTTATTTTT
Found at i:27080831 original size:3 final size:3
Alignment explanation
Indices: 27080823--27080899 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
27080813 TAAGTCGCAA
27080823 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
27080871 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
27080900 CATATGTGAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27082118 original size:50 final size:50
Alignment explanation
Indices: 27082050--27082167 Score: 137
Period size: 50 Copynumber: 2.4 Consensus size: 50
27082040 AAGACATTAG
* * * *
27082050 TCTTATCGCCTTGACGTTGTAATGGAAAAGATTGAAGCCACAACAGCGAA
1 TCTTATCTCCCTGGCGTTGTAACGGAAAAGATTGAAGCCACAACAGCGAA
* ** * * *
27082100 TCTTATTTCCCTGGCGTTGTAACGGAGTAGATTGAAGCCACGACGGTGAA
1 TCTTATCTCCCTGGCGTTGTAACGGAAAAGATTGAAGCCACAACAGCGAA
*
27082150 TCTTATCTCCTTGGCGTT
1 TCTTATCTCCCTGGCGTT
27082168 AAGGCCTGGA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (50 bp):
TCTTATCTCCCTGGCGTTGTAACGGAAAAGATTGAAGCCACAACAGCGAA
Found at i:27082298 original size:50 final size:50
Alignment explanation
Indices: 27082237--27082520 Score: 166
Period size: 50 Copynumber: 5.7 Consensus size: 50
27082227 TTGGCATTAC
*
27082237 AGTGGAGCAGATTGAAG-TAGCAACGACGAATCTTACTCCCCTGGCGATGT
1 AGTGGAACAGATTGAAGCTA-CAACGACGAATCTTACTCCCCTGGCGATGT
* ** ** **
27082287 AGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCC-AAC-AT-T
1 AGTGGAACAGATTGAAGCTACAACGACGAATCTT-ACTCCCCTGGCGATGT
* ** * * ** * *
27082335 ACAATTAAAAAGATTGAGGCCGCAACGACGAATCTTACTTCCCTGGCGTTGT
1 --AGTGGAACAGATTGAAGCTACAACGACGAATCTTACTCCCCTGGCGATGT
* * * ** * *
27082387 AGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCC-AGC-ATTGC
1 AGTGGAACAGATTGAAGCTACAACGACGAATCTT-ACTCCCCTGGCGA-TGT
* ** * ** * *
27082437 AATTAAAAAGATTGAAGCCGCAACGTCGAATCTTACTCCCCTGGCGGTGT
1 AGTGGAACAGATTGAAGCTACAACGACGAATCTTACTCCCCTGGCGATGT
* *
27082487 AGTGGAACAAATTGAAGCTACGACGACGAATCTT
1 AGTGGAACAGATTGAAGCTACAACGACGAATCTT
27082521 GTTTCCCCAA
Statistics
Matches: 162, Mismatches: 61, Indels: 22
0.66 0.25 0.09
Matches are distributed among these distances:
48 1 0.01
49 11 0.07
50 137 0.85
51 12 0.07
52 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (50 bp):
AGTGGAACAGATTGAAGCTACAACGACGAATCTTACTCCCCTGGCGATGT
Found at i:27082360 original size:100 final size:100
Alignment explanation
Indices: 27082245--27082753 Score: 730
Period size: 100 Copynumber: 5.1 Consensus size: 100
27082235 ACAGTGGAGC
** * *
27082245 AGATTGAAGTAGCAACGACGAATCTTACTCCCCTGGCGATGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
27082310 CGGTGAATCTTGTTTCCCCAACATTACAATTAAAA
66 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * *
27082345 AGATTGAGGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGTGGAATAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
27082410 CGGCGAATCTTGTTTCCCCAGCATTGCAATTAAAA
66 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * *
27082445 AGATTGAAGCCGCAACGTCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAAATTGAAGCTACGA
1 AGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
27082510 CGACGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* ** * * * *
27082545 AGATTGAAGCCGCAATGGTGAATCTTACTTCCTTGGTGGTATAGTGGAACAAATTGAAGCTACGA
1 AGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
27082610 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * * * * *
27082645 AGATTGAAGCCACAATGTCGAATCTTACTTCCTTGGTGGTATAGTGGAACAGATTGATGCTACGA
1 AGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* * * *
27082710 CGGCGAATCTTGTTTCCCCGACATTCCAGTTAAAC
66 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
27082745 AGATTGAAG
1 AGATTGAAG
27082754 ATGGCGGATC
Statistics
Matches: 375, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 375 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:27082551 original size:50 final size:50
Alignment explanation
Indices: 27082295--27082554 Score: 191
Period size: 50 Copynumber: 5.2 Consensus size: 50
27082285 GTAGTGGAAC
** * *
27082295 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAACATTACAATTAAAA
1 AGATTGAAGCTACGACGACGAATCTTGTTTCCCCAGCATTGCAATTAAAA
* ** * ** ** * * * ** *
27082345 AGATTGAGGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGTGGAAT
1 AGATTGAAGCTACGACGACGAATCTTGTTTCCCCAGCATTGCAATTAAAA
*
27082395 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAGCATTGCAATTAAAA
1 AGATTGAAGCTACGACGACGAATCTTGTTTCCCCAGCATTGCAATTAAAA
** * * ** * ** * * * *
27082445 AGATTGAAGCCGCAACGTCGAATCTT-ACTCCCCTGGCGGTGTAGTGGAACA
1 AGATTGAAGCTACGACGACGAATCTTGTTTCCCC-AGCATTGCAAT-TAAAA
*
27082496 A-ATTGAAGCTACGACGACGAATCTTGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACGACGAATCTTGTTTCCCCAGCATTGCAATTAAAA
27082545 AGATTGAAGC
1 AGATTGAAGC
27082555 CGCAATGGTG
Statistics
Matches: 146, Mismatches: 60, Indels: 8
0.68 0.28 0.04
Matches are distributed among these distances:
49 9 0.06
50 128 0.88
51 9 0.06
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACGACGACGAATCTTGTTTCCCCAGCATTGCAATTAAAA
Found at i:27082568 original size:50 final size:50
Alignment explanation
Indices: 27082295--27082670 Score: 186
Period size: 50 Copynumber: 7.5 Consensus size: 50
27082285 GTAGTGGAAC
** * * * *
27082295 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAACATTACAATTAAAA
1 AGATTGAAGCCGCAACGGCGAATCTTGTTTCCCCAGCATTGCAATTAAAA
* * ** ** * * * ** *
27082345 AGATTGAGGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGTGGAAT
1 AGATTGAAGCCGCAACGGCGAATCTTGTTTCCCCAGCATTGCAATTAAAA
** *
27082395 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAGCATTGCAATTAAAA
1 AGATTGAAGCCGCAACGGCGAATCTTGTTTCCCCAGCATTGCAATTAAAA
* ** * ** * * * *
27082445 AGATTGAAGCCGCAACGTCGAATCTT-ACTCCCCTGGCGGTGTAGTGGAACA
1 AGATTGAAGCCGCAACGGCGAATCTTGTTTCCCC-AGCATTGCAAT-TAAAA
** * * *
27082496 A-ATTGAAGCTACGACGACGAATCTTGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCCGCAACGGCGAATCTTGTTTCCCCAGCATTGCAATTAAAA
* * ** ** * * * * *
27082545 AGATTGAAGCCGCAATGGTGAATCTTACTT-CCTTG-GTGGTATAGTGGAACA
1 AGATTGAAGCCGCAACGGCGAATCTTGTTTCCCCAGCATTGCA-A-T-TAAAA
** * *
27082596 A-ATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCCGCAACGGCGAATCTTGTTTCCCCAGCATTGCAATTAAAA
* * *
27082645 AGATTGAAGCCACAATGTCGAATCTT
1 AGATTGAAGCCGCAACGGCGAATCTT
27082671 ACTTCCTTGG
Statistics
Matches: 221, Mismatches: 95, Indels: 20
0.66 0.28 0.06
Matches are distributed among these distances:
48 3 0.01
49 16 0.07
50 183 0.83
51 16 0.07
52 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCGCAACGGCGAATCTTGTTTCCCCAGCATTGCAATTAAAA
Found at i:27082717 original size:50 final size:50
Alignment explanation
Indices: 27082564--27082720 Score: 129
Period size: 50 Copynumber: 3.1 Consensus size: 50
27082554 CCGCAATGGT
*
27082564 GAATCTTACTTCCTTGGTGGTATAGTGGAACAAATTGAAGCTACGACGGC
1 GAATCTTACTTCCTTGGTGGTATAGTGGAACAGATTGAAGCTACGACGGC
** **** * * ** * * * * *
27082614 GAATCTTGTTTCCCCAACATTGCA-A-TTAAAAAGATTGAAGCCACAATGTC
1 GAATCTTACTT--CCTTGGTGGTATAGTGGAACAGATTGAAGCTACGACGGC
*
27082664 GAATCTTACTTCCTTGGTGGTATAGTGGAACAGATTGATGCTACGACGGC
1 GAATCTTACTTCCTTGGTGGTATAGTGGAACAGATTGAAGCTACGACGGC
27082714 GAATCTT
1 GAATCTT
27082721 GTTTCCCCGA
Statistics
Matches: 71, Mismatches: 32, Indels: 8
0.64 0.29 0.07
Matches are distributed among these distances:
48 5 0.07
49 1 0.01
50 59 0.83
51 1 0.01
52 5 0.07
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (50 bp):
GAATCTTACTTCCTTGGTGGTATAGTGGAACAGATTGAAGCTACGACGGC
Found at i:27084765 original size:34 final size:30
Alignment explanation
Indices: 27084712--27084774 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 30
27084702 TATTATTATT
27084712 TTTATATATATGTAATTATTATTTT-TATAA
1 TTTATATATATGTAATTATT-TTTTATATAA
27084742 TTTATATATATGTATATATTTATTTTTTATATA
1 TTTATATATATG--TA-A-TTATTTTTTATATA
27084775 TGTACATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
30 12 0.43
32 2 0.07
33 5 0.18
34 9 0.32
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTATATATATGTAATTATTTTTTATATAA
Found at i:27086590 original size:9 final size:9
Alignment explanation
Indices: 27086576--27086992 Score: 283
Period size: 9 Copynumber: 45.1 Consensus size: 9
27086566 TATGTATTAC
27086576 GTAAGTTAT
1 GTAAGTTAT
27086585 GTAAGTTAT
1 GTAAGTTAT
*
27086594 GTGAGTTAT
1 GTAAGTTAT
27086603 GTAAGTTAT
1 GTAAGTTAT
27086612 GTAAGTTAT
1 GTAAGTTAT
*
27086621 GTGAGTTAT
1 GTAAGTTAT
*
27086630 GTGAGTTAT
1 GTAAGTTAT
27086639 GTAAGTTAT
1 GTAAGTTAT
*
27086648 GATATGATATAT
1 G-TAAG-T-TAT
*
27086660 ATAAGTTAT
1 GTAAGTTAT
27086669 GTAAGTTAT
1 GTAAGTTAT
*
27086678 GTGAGTTAT
1 GTAAGTTAT
*
27086687 GTGAGTTAT
1 GTAAGTTAT
*
27086696 GTGAGTTAT
1 GTAAGTTAT
27086705 GTAAGTTAT
1 GTAAGTTAT
*
27086714 GATATGATATAT
1 G-TAAG-T-TAT
*
27086726 ATAAGTTAT
1 GTAAGTTAT
27086735 GTAAGTTAT
1 GTAAGTTAT
*
27086744 GTGAGTTAT
1 GTAAGTTAT
*
27086753 GTGAGTTAT
1 GTAAGTTAT
27086762 GTGAA-TTAT
1 GT-AAGTTAT
27086771 GTAAGTTAT
1 GTAAGTTAT
* *
27086780 GATATGATAAAT
1 G-TAAG-T-TAT
*
27086792 ATAAGTTAT
1 GTAAGTTAT
27086801 -TAAGTTAT
1 GTAAGTTAT
*
27086809 GTATGTTAT
1 GTAAGTTAT
*
27086818 GTGAGTTAT
1 GTAAGTTAT
27086827 GTAAGTTAT
1 GTAAGTTAT
* *
27086836 GATATGAATAT
1 G-TAAG-TTAT
*
27086847 ATAAGTTAT
1 GTAAGTTAT
*
27086856 -TAAGTTAA
1 GTAAGTTAT
27086864 GATCCAAAGTT-T
1 G-T---AAGTTAT
* *
27086876 -T--TTTTT
1 GTAAGTTAT
* *
27086882 TTAA-TTCT
1 GTAAGTTAT
*
27086890 TTAAAGTTAT
1 GT-AAGTTAT
*
27086900 GTAAATTAT
1 GTAAGTTAT
27086909 GTAAGTTAT
1 GTAAGTTAT
*
27086918 GTAAGTTTT
1 GTAAGTTAT
* *
27086927 GATATGATAT
1 G-TAAGTTAT
* *
27086937 ATATATTTAT
1 GTA-AGTTAT
*
27086947 GTAAGTTAG
1 GTAAGTTAT
*
27086956 GTAAATTAT
1 GTAAGTTAT
* *
27086965 GCAAGTAAT
1 GTAAGTTAT
27086974 GTAAGTTAT
1 GTAAGTTAT
27086983 GTAAGTTAT
1 GTAAGTTAT
27086992 G
1 G
27086993 ATATATATTT
Statistics
Matches: 325, Mismatches: 56, Indels: 54
0.75 0.13 0.12
Matches are distributed among these distances:
5 2 0.01
6 1 0.00
7 1 0.00
8 22 0.07
9 236 0.73
10 35 0.11
11 15 0.05
12 8 0.02
13 5 0.02
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:27086672 original size:66 final size:66
Alignment explanation
Indices: 27086597--27086836 Score: 419
Period size: 66 Copynumber: 3.7 Consensus size: 66
27086587 AAGTTATGTG
27086597 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
1 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
27086662 A
66 A
*
27086663 AGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
1 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
27086728 A
66 A
* * *
27086729 AGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTGAATTATGTAAGTTATGATATGATAAATAT
1 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
27086794 A
66 A
* *
27086795 AGTTAT-TAAGTTATGTATGTTATGTGAGTTATGTAAGTTATG
1 AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATG
27086837 ATATGAATAT
Statistics
Matches: 167, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
65 32 0.19
66 135 0.81
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (66 bp):
AGTTATGTAAGTTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
A
Found at i:27086997 original size:56 final size:56
Alignment explanation
Indices: 27086893--27086998 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
27086883 TAATTCTTTA
* * * * *
27086893 AAGTTATGTAAATTATGTAAGTTATGTAAGTTTTGATATGATATATATATTTATGT
1 AAGTTAGGTAAATTATGCAAGTAATGTAAGTTATGATAAGATATATATATTTATGT
*
27086949 AAGTTAGGTAAATTATGCAAGTAATGTAAGTTATG-TAAGTTATGATATAT
1 AAGTTAGGTAAATTATGCAAGTAATGTAAGTTATGATAAGATAT-ATATAT
27086999 ATTTTATAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 6 0.14
56 37 0.86
ACGTcount: A:0.38, C:0.01, G:0.18, T:0.43
Consensus pattern (56 bp):
AAGTTAGGTAAATTATGCAAGTAATGTAAGTTATGATAAGATATATATATTTATGT
Found at i:27089849 original size:30 final size:30
Alignment explanation
Indices: 27089815--27089878 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
27089805 TATATGGAAA
* *
27089815 TAAACCCTAAACCCTAAAA-CTCTAAAATTC
1 TAAACCCTAAACACTAAAACCT-TAAAACTC
* *
27089845 TAAACCTTAAATACTAAAACCTTAAAACTC
1 TAAACCCTAAACACTAAAACCTTAAAACTC
27089875 TAAA
1 TAAA
27089879 TTCTAAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (30 bp):
TAAACCCTAAACACTAAAACCTTAAAACTC
Found at i:27089861 original size:14 final size:15
Alignment explanation
Indices: 27089828--27089870 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27089818 ACCCTAAACC
* *
27089828 CTAAAACTCTAAAATT
1 CTAAAAC-CTTAAATA
27089844 CT-AAACCTTAAATA
1 CTAAAACCTTAAATA
27089858 CTAAAACCTTAAA
1 CTAAAACCTTAAA
27089871 ACTCTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 14 0.58
16 2 0.08
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
CTAAAACCTTAAATA
Found at i:27089895 original size:38 final size:38
Alignment explanation
Indices: 27089823--27089895 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
27089813 AATAAACCCT
**
27089823 AAACCCTAAAACTCTAAAATTCTAAACCTTAAATACTA
1 AAACCCTAAAACTCTAAAATTCTAAACCCAAAATACTA
*
27089861 AAACCTTAAAACTCT-AAATTCTAAAACCCAAAATA
1 AAACCCTAAAACTCTAAAATTCT-AAACCCAAAATA
27089896 AATTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 7 0.23
38 24 0.77
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (38 bp):
AAACCCTAAAACTCTAAAATTCTAAACCCAAAATACTA
Found at i:27090271 original size:40 final size:39
Alignment explanation
Indices: 27090172--27090288 Score: 130
Period size: 40 Copynumber: 2.9 Consensus size: 39
27090162 CAACTTTTTT
* *
27090172 GCAGCGTTTTGTGAAAAGCGCCGCTAATGCTGATCTATA
1 GCAGCGTTTTGCGAAAAGCACCGCTAATGCTGATCTATA
* *
27090211 GCAGCATTTTTC-AAATAGCACCGCTAATGCTCGATCTATTA
1 GCAGCGTTTTGCGAAA-AGCACCGCTAATGCT-GATCTA-TA
* *
27090252 -CGGGGTTTTGCGAAAAGCACCGCTAATGCTTGATCTA
1 GCAGCGTTTTGCGAAAAGCACCGCTAATGC-TGATCTA
27090289 CTGCGACATT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
38 3 0.05
39 23 0.35
40 33 0.51
41 6 0.09
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (39 bp):
GCAGCGTTTTGCGAAAAGCACCGCTAATGCTGATCTATA
Found at i:27090405 original size:40 final size:40
Alignment explanation
Indices: 27090361--27090510 Score: 201
Period size: 40 Copynumber: 3.8 Consensus size: 40
27090351 CAACTTTATT
*
27090361 GCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* *
27090401 GCGGCGTTTTTCAAAAAGCGCTGCTAATGCTCAATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * * * * *
27090441 GCAGCGTTTTTTAAAAAGCGTCGCTAATGCTTGACCTTTT
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
*
27090481 GCGGCGTTTTTTAAAAAGCGCCGCTAATGC
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGC
27090511 CACTAAAGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:27090616 original size:187 final size:188
Alignment explanation
Indices: 27090153--27090696 Score: 565
Period size: 190 Copynumber: 2.9 Consensus size: 188
27090143 ACAAACGACG
* *
27090153 TCGTTTT-CTCAACTTTTTTGCAGCGTTTTGT-GAAAAGCGCCGCTAATGCT-GATCTATAGCAG
1 TCGTTTTGCTCAACTTTTATGCAGCGTTTT-TCGAAAAGCGCCGCTAATGCTCGATCTATAGCGG
* * * * * * **
27090215 CATTTTTCAAATAGCACCGCTAATGCTCGATCTATTA-CGGGGTTTTGCGAAAAGCACCGCTAAT
65 CATTTTTCAAAAAGCGCCGCTAATGCTCAATCTA-TAGC-GCGTTTTTCAAAAAGCGTCGCTAAT
* * * *
27090279 GCTTGATCTACTGCGACATTTGTTAAAAAGCGCCGCT-A---ACTAAAGCTCAACAACAAAGGAC
128 GCTTGATCTATTGCGGCGTTTTTTAAAAAGCGCCGCTAATGCACTAAAGCTCAACAAC--A--AC
* * *
27090340 GTCGTTTTGCTCAAC-TTTATTGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGATCTATAGCG
1 -TCGTTTTGCTCAACTTTTA-TGCAGCGTTTTTCGAAAAGCGCCGCTAATGCTCGATCTATAGCG
* * *
27090404 GCGTTTTTCAAAAAGCGCTGCTAATGCTCAATCTATAGCAGCGTTTTTTAAAAAGCGTCGCTAAT
64 GCATTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGC-GCGTTTTTCAAAAAGCGTCGCTAAT
* *
27090469 GCTTGACCTTTTGCGGCGTTTTTTAAAAAGCGCCGCTAATGCCACTAAAGCTCAACAAC-A-
128 GCTTGATCTATTGCGGCGTTTTTTAAAAAGCGCCGCTAATG-CACTAAAGCTCAACAACAAC
* * **
27090529 T-GTTTTGCTCAACTTTTATGCTGTGTTTTTCGAAAAGCGCCGCTAATGCTCGATCTATAATGGC
1 TCGTTTTGCTCAACTTTTATGCAGCGTTTTTCGAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
* ** * **
27090593 ATTTTTCTAGGAGCGCCGCTAATGCTTAATCTAT-GCGACACTTTTCAAAAAGCGTCGCTAATGC
66 ATTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCG-CGTTTTTCAAAAAGCGTCGCTAATGC
* * * *
27090657 TCGATCTATAGCTGCGTTTTTCAAAAAGCGCCGCTAATGC
130 TTGATCTATTGCGGCGTTTTTTAAAAAGCGCCGCTAATGC
27090697 TTGAGCTTTT
Statistics
Matches: 300, Mismatches: 44, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
185 2 0.01
186 58 0.19
187 80 0.27
188 15 0.05
189 36 0.12
190 92 0.31
191 1 0.00
195 16 0.05
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (188 bp):
TCGTTTTGCTCAACTTTTATGCAGCGTTTTTCGAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
ATTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCGCGTTTTTCAAAAAGCGTCGCTAATGCT
TGATCTATTGCGGCGTTTTTTAAAAAGCGCCGCTAATGCACTAAAGCTCAACAACAAC
Found at i:27090714 original size:40 final size:40
Alignment explanation
Indices: 27090553--27090717 Score: 161
Period size: 40 Copynumber: 4.2 Consensus size: 40
27090543 TTTATGCTGT
* **
27090553 GTTTTTCGAAAAGCGCCGCTAATGCTCGATCTATAATGGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
* * ** ** *
27090593 ATTTTTCTAGGAGCGCCGCTAATGCTTAATCTAT-GCGAC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
** * *
27090632 ACTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCTGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
* * * *
27090672 GTTTTTCAAAAAGCGCCGCTAATGCTTGAGCTTTTGCGGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
27090712 GTTTTT
1 GTTTTT
27090718 GTCATAAACG
Statistics
Matches: 98, Mismatches: 26, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
39 29 0.30
40 69 0.70
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (40 bp):
GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGC
Found at i:27093669 original size:75 final size:75
Alignment explanation
Indices: 27093582--27093731 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
27093572 TATTGAGTAA
27093582 GAGGGAACTCAACATCTTTCTCTTATACGCAATCGAAGAGTTTAATAGTTGAATTTTTAATTAAT
1 GAGGGAACTCAACATCTTTCTCTTATACGCAATCGAAGAGTTTAATAGTTGAATTTTTAATTAAT
27093647 ATATTTAATT
66 ATATTTAATT
27093657 GAGGGAACTCAACATCTTTCTCTTATACGCAATCGAAGAGTTTAATAGTTGAATTTTTAATTAAT
1 GAGGGAACTCAACATCTTTCTCTTATACGCAATCGAAGAGTTTAATAGTTGAATTTTTAATTAAT
27093722 ATATTTAATT
66 ATATTTAATT
27093732 CCATTTTTAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (75 bp):
GAGGGAACTCAACATCTTTCTCTTATACGCAATCGAAGAGTTTAATAGTTGAATTTTTAATTAAT
ATATTTAATT
Found at i:27094065 original size:16 final size:16
Alignment explanation
Indices: 27094046--27094076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27094036 ATAACAAAAT
27094046 GTTGTTATAGAGAGTG
1 GTTGTTATAGAGAGTG
*
27094062 GTTGTTATAGGGAGT
1 GTTGTTATAGAGAGT
27094077 CTTGACTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.39
Consensus pattern (16 bp):
GTTGTTATAGAGAGTG
Found at i:27094991 original size:27 final size:27
Alignment explanation
Indices: 27094880--27094996 Score: 135
Period size: 28 Copynumber: 4.2 Consensus size: 27
27094870 CGACAGTGTG
*
27094880 TCCCTTATTTTTCAAATTTTATAATTT
1 TCCCCTATTTTTCAAATTTTATAATTT
*
27094907 TGCCCCTATTTTTCAAATTTTATAGTTT
1 T-CCCCTATTTTTCAAATTTTATAATTT
* * * * *
27094935 ACCTCTATTTTTTAGATTTTATATTTTT
1 TCCCCTATTTTTCAAATTTTATA-ATTT
*
27094963 TCCCCTATTTTTCAGATTTTATAATTT
1 TCCCCTATTTTTCAAATTTTATAATTT
27094990 TCTCCCT
1 TC-CCCT
27094997 TGCTTCACAA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
27 25 0.33
28 51 0.67
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.57
Consensus pattern (27 bp):
TCCCCTATTTTTCAAATTTTATAATTT
Found at i:27095742 original size:78 final size:78
Alignment explanation
Indices: 27095613--27095768 Score: 240
Period size: 78 Copynumber: 2.0 Consensus size: 78
27095603 ACAACAAGTG
* *
27095613 GTAGTAACTGCACATATGCAGTTCAATCATGAACCAAGTGGCAATTTGTTTAATATGCAAATATG
1 GTAGTAACTGCAAATATGCAGTTCAATCATGAACCAAGTGGCAATTTGTTTAATATGAAAATATG
*
27095678 TTGTGCACTCACA
66 TTGTGCACCCACA
** * * *
27095691 GTAGTAACTGCAAATATGTGGTTCGATCATGAATCAAGTGGCAATTTGTTTAATTTGAAAATATG
1 GTAGTAACTGCAAATATGCAGTTCAATCATGAACCAAGTGGCAATTTGTTTAATATGAAAATATG
27095756 TTGTGCACCCACA
66 TTGTGCACCCACA
27095769 ACAAGTGGCA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (78 bp):
GTAGTAACTGCAAATATGCAGTTCAATCATGAACCAAGTGGCAATTTGTTTAATATGAAAATATG
TTGTGCACCCACA
Found at i:27098124 original size:154 final size:154
Alignment explanation
Indices: 27097832--27098293 Score: 854
Period size: 154 Copynumber: 3.0 Consensus size: 154
27097822 AGAGATTCTG
* *
27097832 GTTT-TACTGACCCAAATTCTCATCCTATAAAACAAACTACAAAGGGTAGACCGCAACAAGAGGT
1 GTTTCTACTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCGCAACAAGAGGT
27097896 TGTTGTAACTAATTCGAGGGGTTAGACTCCTAGTTATGCGTATTGTGAAAAATACCACATAGGTA
66 TGTTGTAACTAATTCGAGGGGTTAGACTCCTAGTTATGCGTATTGTGAAAAATACCACATAGGTA
27097961 AGTGTTGGAAGAAATTGAGTGCTT
131 AGTGTTGGAAGAAATTGAGTGCTT
*
27097985 GTTTCTATTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCGCAACAAGAGGT
1 GTTTCTACTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCGCAACAAGAGGT
27098050 TGTTGTAACTAATTCGAGGGGTTAGACTCCTAGTTATGCGTATTGTGAAAAATACCACATAGGTA
66 TGTTGTAACTAATTCGAGGGGTTAGACTCCTAGTTATGCGTATTGTGAAAAATACCACATAGGTA
27098115 AGTGTTGGAAGAAATTGAGTGCTT
131 AGTGTTGGAAGAAATTGAGTGCTT
27098139 GTTTCTACTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCGCAACAAGAGGT
1 GTTTCTACTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCGCAACAAGAGGT
* * * *
27098204 TGTTGTAACTAATTCAAGGGGTTAGACTTCTAGTTATGTGTATTGAGAAAAATACCACATAGGTA
66 TGTTGTAACTAATTCGAGGGGTTAGACTCCTAGTTATGCGTATTGTGAAAAATACCACATAGGTA
27098269 AGTGTTGGAAGAAATTGAGTGCTT
131 AGTGTTGGAAGAAATTGAGTGCTT
27098293 G
1 G
27098294 CTTAAAGTGT
Statistics
Matches: 300, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
153 4 0.01
154 296 0.99
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (154 bp):
GTTTCTACTGACTCAAATTCTCATCCTATAAAACAAACTAGAAAGGGTAGACCGCAACAAGAGGT
TGTTGTAACTAATTCGAGGGGTTAGACTCCTAGTTATGCGTATTGTGAAAAATACCACATAGGTA
AGTGTTGGAAGAAATTGAGTGCTT
Found at i:27099255 original size:18 final size:19
Alignment explanation
Indices: 27099220--27099255 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27099210 CCTCTCTTCT
*
27099220 CTTTATTTTTTTCTTTTCC
1 CTTTATTTTTTTCGTTTCC
27099239 CTTTATTTTTTT-GTTTC
1 CTTTATTTTTTTCGTTTC
27099256 TTTTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.06, C:0.17, G:0.03, T:0.75
Consensus pattern (19 bp):
CTTTATTTTTTTCGTTTCC
Found at i:27103195 original size:13 final size:13
Alignment explanation
Indices: 27103177--27103229 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
27103167 CTTAAACCAA
27103177 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
27103190 ACTTTTCTACAA-C
1 ACTTTTC-AAAAGC
* *
27103203 ACTTTTTAAAATC
1 ACTTTTCAAAAGC
*
27103216 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
27103229 A
1 A
27103230 TTGCTTAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:27105194 original size:7 final size:7
Alignment explanation
Indices: 27105182--27105221 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
27105172 AAGTCTGGAG
27105182 TAAAAAT
1 TAAAAAT
27105189 TAAAAAT
1 TAAAAAT
27105196 TAAAAAT
1 TAAAAAT
27105203 TAAAAAT
1 TAAAAAT
27105210 TAAAAAT
1 TAAAAAT
27105217 TAAAA
1 TAAAA
27105222 TAGTCCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAAAT
Found at i:27108954 original size:23 final size:23
Alignment explanation
Indices: 27108928--27109000 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
27108918 TAATTAGGGC
27108928 TCGCATACATAAAATGTAAGGCT
1 TCGCATACATAAAATGTAAGGCT
* * * *
27108951 TCGCATGCA-AAATAGGTAGGGGT
1 TCGCATACATAAA-ATGTAAGGCT
*
27108974 TCGCATACATAAATTAGTAAGGCT
1 TCGCATACATAAAAT-GTAAGGCT
27108998 TCG
1 TCG
27109001 TATAAAGGGC
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
22 3 0.08
23 23 0.61
24 12 0.32
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (23 bp):
TCGCATACATAAAATGTAAGGCT
Found at i:27110999 original size:39 final size:39
Alignment explanation
Indices: 27110945--27111034 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
27110935 CATGGCACAA
** *
27110945 AAGTGCGATCAGGGGTACTGAAGTACAACAAGGACATGT
1 AAGTGCGATCAGGGGTACCAAAGTACAACAAGGACACGT
* * *
27110984 AAGTGCGATCAGGGGTACCAAAGTACAATAGGGGCACGT
1 AAGTGCGATCAGGGGTACCAAAGTACAACAAGGACACGT
*
27111023 AAGTGTGATCAG
1 AAGTGCGATCAG
27111035 AGGTGTAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACCAAAGTACAACAAGGACACGT
Found at i:27113567 original size:27 final size:27
Alignment explanation
Indices: 27113537--27113592 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
27113527 ACTGACGAAC
* *
27113537 ACCAACTCGCTAGTCTTGTTGGCGTAT
1 ACCAACTCGCTAGACTTGCTGGCGTAT
* * *
27113564 ACCATCTCGTTAGACTTGCTGGTGTAT
1 ACCAACTCGCTAGACTTGCTGGCGTAT
27113591 AC
1 AC
27113593 TAGCTCTCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
ACCAACTCGCTAGACTTGCTGGCGTAT
Found at i:27121829 original size:17 final size:16
Alignment explanation
Indices: 27121776--27121832 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
27121766 AGTAAATGCG
* *
27121776 ATTTAAAAAATTTTAAA
1 ATTTTAAAAATTTT-TA
*
27121793 AATTTAAAAATTTTTA
1 ATTTTAAAAATTTTTA
*
27121809 ATTTTATAAATTTTCTA
1 ATTTTAAAAATTTT-TA
27121826 ATTTTAA
1 ATTTTAA
27121833 TCATTTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTAAAAATTTTTA
Found at i:27121838 original size:9 final size:9
Alignment explanation
Indices: 27121784--27121848 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
27121774 CGATTTAAAA
27121784 AATTTTAA-
1 AATTTTAAT
* *
27121792 AAATTTAAA
1 AATTTTAAT
27121801 AATTTT--T
1 AATTTTAAT
27121808 AATTTT-AT
1 AATTTTAAT
*
27121816 AAATTTT-CT
1 -AATTTTAAT
27121825 AATTTTAAT
1 AATTTTAAT
*
27121834 CATTTTAAT
1 AATTTTAAT
27121843 AATTTT
1 AATTTT
27121849 TTGTATTTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
7 6 0.13
8 14 0.30
9 26 0.57
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (9 bp):
AATTTTAAT
Found at i:27122326 original size:130 final size:130
Alignment explanation
Indices: 27122088--27122416 Score: 491
Period size: 130 Copynumber: 2.5 Consensus size: 130
27122078 ATTAAATGCT
* *
27122088 TGAAGGTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTACTTGATTTAAAGTGATTGATTG
1 TGAATGTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTATTTGATTTAAAGTGATTGATTG
* * * **
27122153 AATCTATATTTTCACAACTAAATTTGATGACATTAAAATATAATATTAAAATAACATATCATTTA
66 AGTCTATATTTCCACAACTAAATGTGACAACATTAAAATATAATATTAAAATAACATATCATTTA
*
27122218 TGAATGTAGTTGTTTGTTGATGTATTAGATTGGGTTGATGGTATTTGATTTAAAGTGATTGATTG
1 TGAATGTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTATTTGATTTAAAGTGATTGATTG
*
27122283 AGTCTATATTTCCACAACTAAATGTGACAACATTAAAATATAATATTAAAATAACATCTCATTTA
66 AGTCTATATTTCCACAACTAAATGTGACAACATTAAAATATAATATTAAAATAACATATCATTTA
* * ** * *
27122348 T-ACATGTAGTTGTTTGTCGATGTATTAGATTAGGTTGA-CCAACTTTAATTTAAAATGATTGAT
1 TGA-ATGTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTA-TTTGATTTAAAGTGATTGAT
27122411 TGAGTC
64 TGAGTC
27122417 CAGGCTTCTA
Statistics
Matches: 181, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
129 2 0.01
130 179 0.99
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (130 bp):
TGAATGTAGTTGTTTGTTGATGTATTAGATTGGGTTGATCGTATTTGATTTAAAGTGATTGATTG
AGTCTATATTTCCACAACTAAATGTGACAACATTAAAATATAATATTAAAATAACATATCATTTA
Found at i:27125630 original size:50 final size:52
Alignment explanation
Indices: 27125491--27125645 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
27125481 GAACAAATGA
*
27125491 GATGCAGACTTAAACTAACATGGGAGTTACATAATGCAAGACTTAATTTAAT
1 GATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGACTTAATTTAAT
* *
27125543 GATGTAGACTTAAACTAACATGGGAGTTACATAATGCATGTCATT-ATTT-AT
1 GATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGAC-TTAATTTAAT
* * * * * *
27125594 GATGCATACTT-AACTAGCATGGAAGTTACATAATGCATAACTTTATTAAAT
1 GATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGACTTAATTTAAT
27125645 G
1 G
27125646 CAGAACACAC
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
49 2 0.02
50 29 0.32
51 14 0.16
52 43 0.48
53 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (52 bp):
GATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGACTTAATTTAAT
Found at i:27125726 original size:20 final size:19
Alignment explanation
Indices: 27125685--27125726 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
27125675 AAAAATATGC
*
27125685 AAACTTATTAATTCAAATA
1 AAACTTATTAATTCAAAAA
27125704 AAACTATATTGAATT-AAAAA
1 AAACT-TATT-AATTCAAAAA
27125724 AAA
1 AAA
27125727 AGTCCTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (19 bp):
AAACTTATTAATTCAAAAA
Found at i:27125727 original size:21 final size:19
Alignment explanation
Indices: 27125685--27125727 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
27125675 AAAAATATGC
* *
27125685 AAACTTATTAATTCAAATA
1 AAACTTATTAATTAAAAAA
27125704 AAACTATATTGAATTAAAAAA
1 AAACT-TATT-AATTAAAAAA
27125725 AAA
1 AAA
27125728 GTCCTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 11 0.55
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (19 bp):
AAACTTATTAATTAAAAAA
Found at i:27126012 original size:57 final size:58
Alignment explanation
Indices: 27125872--27126027 Score: 163
Period size: 57 Copynumber: 2.7 Consensus size: 58
27125862 TTGTTTCATG
* * * * *
27125872 TATTTATTTATTATTCTTTTACCTTTTAAATATTTAAATTCGATATTATTTATATTTGTT
1 TATTTATTTATTATTCTTTT--TTTTTAAATACTTAAATTCAATATTATTTATATTTCTC
* * ** * *
27125932 TATCTATTTATTCTT-TTACTTTTTAAATACTTAAATTTAATATTATTTGT-TTTCTC
1 TATTTATTTATTATTCTTTTTTTTTAAATACTTAAATTCAATATTATTTATATTTCTC
27125988 TATTTATTTATTATTCTTTTTTTTTTGAAATACTTAAATT
1 TATTTATTTATTATTC-TTTTTTTTT-AAATACTTAAATT
27126028 GGATACTACT
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
56 17 0.22
57 26 0.33
58 7 0.09
59 15 0.19
60 13 0.17
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (58 bp):
TATTTATTTATTATTCTTTTTTTTTAAATACTTAAATTCAATATTATTTATATTTCTC
Found at i:27127317 original size:6 final size:6
Alignment explanation
Indices: 27127306--27127330 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27127296 AAAGGAGAAT
27127306 AATTAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA A
27127331 TGGTTCACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:27127755 original size:7 final size:7
Alignment explanation
Indices: 27127743--27127772 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
27127733 TGTTAAGCTT
27127743 AATGGAG
1 AATGGAG
27127750 AATGGAG
1 AATGGAG
27127757 AATGGAG
1 AATGGAG
27127764 AATGGAG
1 AATGGAG
27127771 AA
1 AA
27127773 AGATATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.40, T:0.13
Consensus pattern (7 bp):
AATGGAG
Found at i:27144573 original size:34 final size:35
Alignment explanation
Indices: 27144508--27144575 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
27144498 TACGAAACAT
*
27144508 AAGGATACTAATCTTCATAAAATAAACATTAAATA
1 AAGGATACTAATATTCATAAAATAAACATTAAATA
* *
27144543 AAGGATACTAATATT-ATAAAATACAGATTAAAT
1 AAGGATACTAATATTCATAAAATAAACATTAAAT
27144576 TAGGGATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.29
Consensus pattern (35 bp):
AAGGATACTAATATTCATAAAATAAACATTAAATA
Found at i:27145017 original size:43 final size:43
Alignment explanation
Indices: 27144969--27145196 Score: 262
Period size: 43 Copynumber: 5.3 Consensus size: 43
27144959 TTTTAGAAAT
* *
27144969 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTATCCCAC
1 AAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* *
27145012 AAACGCCGCTATAGATCATGATTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCCCAC
*
27145055 AAACGCCGCTATAAG-TCATGACTTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTA-AAGATCATGACTTTTAGCGGCGCTTTTCCCAC
* * * * ***
27145098 TAACGCCGCTATAGATCATCACTTTTAGCGACGCTTTTTTGTAC
1 AAACGCCGCTAAAGATCATGACTTTTAGCGGCGC-TTTTCCCAC
* * * * * *
27145142 AAACGCCGTTATAGAACA-GACCTTTAGCGGGGCTTTTCACAC
1 AAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCCCAC
27145184 AAACGCCGCTAAA
1 AAACGCCGCTAAA
27145197 AACATATCTT
Statistics
Matches: 155, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
42 19 0.12
43 113 0.73
44 23 0.15
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACTTTTAGCGGCGCTTTTCCCAC
Found at i:27145534 original size:43 final size:42
Alignment explanation
Indices: 27145462--27145552 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 42
27145452 ACATATGTAA
* ** *
27145462 TGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCT
1 TGTAATAAAACATACAATACATTGACTTAATCAAGGAAATCT
* * *
27145504 TGGTAATAAAAGATATAATACATTGACTTAATGAAGGAAATCT
1 T-GTAATAAAACATACAATACATTGACTTAATCAAGGAAATCT
27145547 TGTAAT
1 TGTAAT
27145553 GAACTCAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 6 0.15
43 35 0.85
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (42 bp):
TGTAATAAAACATACAATACATTGACTTAATCAAGGAAATCT
Found at i:27146027 original size:41 final size:41
Alignment explanation
Indices: 27145963--27146054 Score: 134
Period size: 41 Copynumber: 2.2 Consensus size: 41
27145953 AATACTCATT
* *
27145963 GCATTAGCGGCGCTTTTCTAAAAACGCTGCTAAAACCC-CGA
1 GCATTAGCGGCGCTTTTCTAAAAACACCGCTAAAACCCAC-A
27146004 GCATTAGCGGCGCTTTATC-AAAAACACCGCTAAAACCCACA
1 GCATTAGCGGCGCTTT-TCTAAAAACACCGCTAAAACCCACA
27146045 GCATTAGCGG
1 GCATTAGCGG
27146055 TGCTACTCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
41 44 0.94
42 3 0.06
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.20
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTCTAAAAACACCGCTAAAACCCACA
Found at i:27146067 original size:41 final size:40
Alignment explanation
Indices: 27145963--27146083 Score: 120
Period size: 41 Copynumber: 3.0 Consensus size: 40
27145953 AATACTCATT
* * *
27145963 GCATTAGCGGCGCTTTTCTAAAAACGCTGCTAAAACCCCGA
1 GCATTAGCGGCGC-TATCCAAAAACGCCGCTAAAACCCCGA
*
27146004 GCATTAGCGGCGCTTTAT-CAAAAACACCGCTAAAACCCAC-A
1 GCATTAGCGGCGC--TATCCAAAAACGCCGCTAAAACCC-CGA
* * *
27146045 GCATTAGCGGTGCTACTCCAAAAACGCCACTAAAGCCCC
1 GCATTAGCGGCGCTA-TCCAAAAACGCCGCTAAAACCCC
27146084 CGATAGGTCA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 60 0.88
42 4 0.06
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.18
Consensus pattern (40 bp):
GCATTAGCGGCGCTATCCAAAAACGCCGCTAAAACCCCGA
Found at i:27168886 original size:68 final size:67
Alignment explanation
Indices: 27168787--27168922 Score: 175
Period size: 68 Copynumber: 2.0 Consensus size: 67
27168777 AATTCAGGAT
* ** *
27168787 TACCAAAGTACAAACAGGGCACGTATATGCATTC-AGGGATACTTAAGTACAAATAGGGGCATGT
1 TACCAAAGTACAAACAGAGCACGTATATGCATTCAAGGG-TACCAAAGTACAAATAGGGGCACGT
27168851 ATG
65 ATG
* * * *
27168854 TACCGAAGTACAATCAAGAGCACGTATGTGCATTCAAGGGTACCAAAGTACAATTAGGGGCACGT
1 TACCAAAGTACAAAC-AGAGCACGTATATGCATTCAAGGGTACCAAAGTACAAATAGGGGCACGT
27168919 ATG
65 ATG
27168922 T
1 T
27168923 GCATTCAGAG
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
67 13 0.22
68 42 0.71
69 4 0.07
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (67 bp):
TACCAAAGTACAAACAGAGCACGTATATGCATTCAAGGGTACCAAAGTACAAATAGGGGCACGTA
TG
Found at i:27168917 original size:40 final size:40
Alignment explanation
Indices: 27168853--27169169 Score: 338
Period size: 40 Copynumber: 7.9 Consensus size: 40
27168843 GGGCATGTAT
* *
27168853 GTACCGAAGTACAATCAAGAGCACGTATGTGCATTCAAGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* *
27168893 GTACCAAAGTACAATTAGGGGCACGTATGTGCATTC-AGAG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAG-G
** * * *
27168933 GTATGGAAGTATAAACAGGGGCATGTATGTGCATTCAAGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* *
27168973 GTACCGAAGTACAATCAGGAGCACGTGTGTGCATTCAAGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* * *
27169013 GTACTGAAGTACAATCAGAGGCACGTATGTGCATTCAGGG
1 GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
* * *
27169053 GTATCGAAGTACAATCAGAGGG-ACGCATGTGCATTCAGGG
1 GTACCGAAGTACAATCAG-GGGCACGTATGTGCATTCAAGG
* * *
27169093 GTACCGAAGTACAAACAAGGGG-ACATATGTGCATT-TAGG
1 GTACCGAAGTACAATC-AGGGGCACGTATGTGCATTCAAGG
* * * *
27169132 TGTATCGAAGTACAAAT-ATGGGAATGTATGTGCATTCA
1 -GTACCGAAGTAC-AATCAGGGGCACGTATGTGCATTCA
27169170 TTCAATAATT
Statistics
Matches: 230, Mismatches: 39, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
39 8 0.03
40 214 0.93
41 8 0.03
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (40 bp):
GTACCGAAGTACAATCAGGGGCACGTATGTGCATTCAAGG
Found at i:27169083 original size:120 final size:120
Alignment explanation
Indices: 27168853--27169127 Score: 381
Period size: 120 Copynumber: 2.3 Consensus size: 120
27168843 GGGCATGTAT
* *
27168853 GTACCGAAGTACAATCAAGAGCACGTATGTGCATTCAAGGGTACCAAAGTACAATTAGGGGCACG
1 GTACCGAAGTACAATCAAGAGCACGTATGTGCATTCAAGGGTACCAAAGTACAATCAGAGGCACG
* * * *
27168918 TATGTGCATTCAGAGGTATGGAAGTATAAACAGGGGCATGTATGTGCATTCAAGG
66 TATGTGCATTCAGAGGTATCGAAGTACAAACAGGGGCACGCATGTGCATTCAAGG
* * **
27168973 GTACCGAAGTACAATCAGGAGCACGTGTGTGCATTCAAGGGTACTGAAGTACAATCAGAGGCACG
1 GTACCGAAGTACAATCAAGAGCACGTATGTGCATTCAAGGGTACCAAAGTACAATCAGAGGCACG
* * *
27169038 TATGTGCATTCAGGGGTATCGAAGTACAATCAGAGGG-ACGCATGTGCATTCAGGG
66 TATGTGCATTCAGAGGTATCGAAGTACAAACAG-GGGCACGCATGTGCATTCAAGG
* * * *
27169093 GTACCGAAGTACAAACAAGGGGACATATGTGCATT
1 GTACCGAAGTACAATCAAGAGCACGTATGTGCATT
27169128 TAGGTGTATC
Statistics
Matches: 135, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
120 132 0.98
121 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (120 bp):
GTACCGAAGTACAATCAAGAGCACGTATGTGCATTCAAGGGTACCAAAGTACAATCAGAGGCACG
TATGTGCATTCAGAGGTATCGAAGTACAAACAGGGGCACGCATGTGCATTCAAGG
Found at i:27177493 original size:21 final size:21
Alignment explanation
Indices: 27177415--27177494 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 21
27177405 AGCTCTCATA
* *
27177415 AGCTTCAG-TTAACTCATATG
1 AGCTTCAGTTTAACTCTTTTG
* * *
27177435 AGTTTCAGTTTAACCCTATTG
1 AGCTTCAGTTTAACTCTTTTG
* * * *
27177456 GGTTTCCGTTTAGCTCTTTTG
1 AGCTTCAGTTTAACTCTTTTG
27177477 AGCTTCAGTTTAACTCTT
1 AGCTTCAGTTTAACTCTT
27177495 ATAGGTTTCC
Statistics
Matches: 45, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
20 7 0.16
21 38 0.84
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (21 bp):
AGCTTCAGTTTAACTCTTTTG
Found at i:27177502 original size:42 final size:42
Alignment explanation
Indices: 27177433--27177515 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
27177423 TTAACTCATA
* * *
27177433 TGAGTTTCAGTTTAACCCTATTGGGTTTCCGTTTAGCTCTTT
1 TGAGCTTCAGTTTAACCCTATTAGGTTTCCGTTCAGCTCTTT
*
27177475 TGAGCTTCAGTTTAACTCT-TATAGGTTTCCGTTCAGCTCTT
1 TGAGCTTCAGTTTAACCCTAT-TAGGTTTCCGTTCAGCTCTT
27177516 ACGAGTCTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTATTAGGTTTCCGTTCAGCTCTTT
Found at i:27180873 original size:192 final size:192
Alignment explanation
Indices: 27180546--27180933 Score: 758
Period size: 192 Copynumber: 2.0 Consensus size: 192
27180536 TGTTTTACTA
27180546 AAAACCTTATTTAATAAATATACAACTATTTTAAATGCATGCATCCACAATGATATAGGTAATAA
1 AAAACCTTATTTAATAAATATACAACTATTTTAAATGCATGCATCCACAATGATATAGGTAATAA
27180611 GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTACGCCTTTCTACAATATCAT
66 GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTACGCCTTTCTACAATATCAT
27180676 TTTTTGAGGTATGTCTGGTATGGTATACTGTGCACATATGCCACAACTTTTGAGGAATTTAG
131 TTTTTGAGGTATGTCTGGTATGGTATACTGTGCACATATGCCACAACTTTTGAGGAATTTAG
*
27180738 AAAACCTTATTTAATAAATATACAACTATTTTAAGTGCATGCATCCACAATGATATAGGTAATAA
1 AAAACCTTATTTAATAAATATACAACTATTTTAAATGCATGCATCCACAATGATATAGGTAATAA
*
27180803 GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTATGCCTTTCTACAATATCAT
66 GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTACGCCTTTCTACAATATCAT
27180868 TTTTTGAGGTATGTCTGGTATGGTATACTGTGCACATATGCCACAACTTTTGAGGAATTTAG
131 TTTTTGAGGTATGTCTGGTATGGTATACTGTGCACATATGCCACAACTTTTGAGGAATTTAG
27180930 AAAA
1 AAAA
27180934 TGGACCTGGA
Statistics
Matches: 194, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 194 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (192 bp):
AAAACCTTATTTAATAAATATACAACTATTTTAAATGCATGCATCCACAATGATATAGGTAATAA
GGAGCTAGTTATCATCCTCCTAACCATATCCAATAAAGTCTGATTACGCCTTTCTACAATATCAT
TTTTTGAGGTATGTCTGGTATGGTATACTGTGCACATATGCCACAACTTTTGAGGAATTTAG
Found at i:27185517 original size:195 final size:194
Alignment explanation
Indices: 27185008--27185585 Score: 912
Period size: 190 Copynumber: 3.0 Consensus size: 194
27184998 TAAAGGTGAA
* * *
27185008 AAAAAATGCCACTATAAATAGAATTTCTTATAGTGGCAAGCAACAACATGGTACCAGAAGTGCAA
1 AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAGCAACAACATAGTACCAGAAGTGCAA
*
27185073 CTGATCCTGACAACATTAATCAAAGCTAGCAGTTGAATGAGGATATGTTCATGGAGAAAATGCAA
66 CTGATCCTGACAACATTAATCAAAGCTAGCAGTTGAATGAGGATATATTCATGGAGAAAATGCAA
*
27185138 CAATTAAGGAAAGAAATGTATAAGTATAAGAAATCAAAATCATTTGGCTAACTAAGAAAATA-T
131 CAATTAAGGAAAGAAATGTAAAAGTATAAGAAATCAAAATCATTTGGCTAACTAAGAAAATATT
27185201 AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAG---CAACATAGTACCAGAAGTGCAA
1 AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAGCAACAACATAGTACCAGAAGTGCAA
* * * *
27185263 CTGATCTTGACAACATTAATCAAAGCTAGCTGTTGAATAAGGATATATTCATAGAGAAAATGCAA
66 CTGATCCTGACAACATTAATCAAAGCTAGCAGTTGAATGAGGATATATTCATGGAGAAAATGCAA
* * *
27185328 TAGTTAAGGAAAGAAATATAAAAGTATAAGAAATCAAAATCATTTGGCTAACTAAGAAAATATTT
131 CAATTAAGGAAAGAAATGTAAAAGTATAAGAAATCAAAATCATTTGGCTAACTAAGAAAATA-TT
* * *
27185393 AAAAAATGCCACTATAAACAAAATTTCTTGTAGTGGCAAGCAACAACATAGTACCAAAACTGCAA
1 AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAGCAACAACATAGTACCAGAAGTGCAA
* * *
27185458 TTGATCCTGACAACATTAATCAAAGCTAACAGTTGAATGAGGATATATCCATGGAGAAAATGCAA
66 CTGATCCTGACAACATTAATCAAAGCTAGCAGTTGAATGAGGATATATTCATGGAGAAAATGCAA
* * * * *
27185523 CAATTAAGTAAAGAAATGTAAAAGTATAAGAAATCAACATCATTCGACTAACTAATAAAATAT
131 CAATTAAGGAAAGAAATGTAAAAGTATAAGAAATCAAAATCATTTGGCTAACTAAGAAAATAT
27185586 ACCAAGAAGC
Statistics
Matches: 350, Mismatches: 30, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
190 139 0.40
192 40 0.11
193 38 0.11
194 1 0.00
195 132 0.38
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (194 bp):
AAAAAATGCCACTATAAACAGAATTTCTTGTAGTGGCAAGCAACAACATAGTACCAGAAGTGCAA
CTGATCCTGACAACATTAATCAAAGCTAGCAGTTGAATGAGGATATATTCATGGAGAAAATGCAA
CAATTAAGGAAAGAAATGTAAAAGTATAAGAAATCAAAATCATTTGGCTAACTAAGAAAATATT
Found at i:27196833 original size:26 final size:22
Alignment explanation
Indices: 27196756--27196835 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 22
27196746 AATTCAATAT
27196756 CGAGCTGAAGAACAGTAAGCTC-TA
1 CGAGCTG-A-AAC-GTAAGCTCATA
27196780 TCGAGCTGAAACGTAAGCTCATA
1 -CGAGCTGAAACGTAAGCTCATA
*
27196803 AGAGCTGATATATCGATAAGCTCATA
1 CGAGCTGA-A-A-CG-TAAGCTCATA
27196829 CGAGCTG
1 CGAGCTG
27196836 TGGTGAGTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
22 15 0.31
23 6 0.12
24 2 0.04
25 9 0.19
26 16 0.33
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (22 bp):
CGAGCTGAAACGTAAGCTCATA
Found at i:27197043 original size:14 final size:14
Alignment explanation
Indices: 27197024--27197052 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27197014 TTCATTTCAT
27197024 ACAATTGCAATTAA
1 ACAATTGCAATTAA
27197038 ACAATTGCAATTAA
1 ACAATTGCAATTAA
27197052 A
1 A
27197053 TGAAAGTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACAATTGCAATTAA
Found at i:27201999 original size:17 final size:19
Alignment explanation
Indices: 27201971--27202005 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27201961 TTTCTTTTCT
27201971 CTTTACCAAGCTC-TTCAG
1 CTTTACCAAGCTCATTCAG
27201989 CTTTA-CAAGCTCATTCA
1 CTTTACCAAGCTCATTCA
27202006 ACCAGGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (19 bp):
CTTTACCAAGCTCATTCAG
Found at i:27204722 original size:26 final size:24
Alignment explanation
Indices: 27204692--27204750 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 24
27204682 CAATGATCGT
27204692 TAAGCTCAT-TCCGAGCTGAAGAACGG
1 TAAGCTCATAT-CGAGCT-AA-AACGG
*
27204718 TAAGCTC-TATCGAGCTAAATCGG
1 TAAGCTCATATCGAGCTAAAACGG
27204741 TAAGCTCATA
1 TAAGCTCATA
27204751 AGAGCTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 11 0.37
24 4 0.13
25 7 0.23
26 8 0.27
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (24 bp):
TAAGCTCATATCGAGCTAAAACGG
Found at i:27204755 original size:23 final size:26
Alignment explanation
Indices: 27204687--27204783 Score: 87
Period size: 26 Copynumber: 3.8 Consensus size: 26
27204677 TCGAGCAATG
* * *
27204687 ATCGTTAAGCTCATTCCGAGCTGA-AG
1 ATCGGTAAGCTCA-TACGAGCTGATAT
*
27204713 AACGGTAAGCTC-TATCGAGCT-A-A-
1 ATCGGTAAGCTCATA-CGAGCTGATAT
*
27204736 ATCGGTAAGCTCATAAGAGCTGATAT
1 ATCGGTAAGCTCATACGAGCTGATAT
*
27204762 ATCGGTAAGCCCATACGAGCTG
1 ATCGGTAAGCTCATACGAGCTG
27204784 TGGTGAGTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
23 16 0.27
24 6 0.10
25 7 0.12
26 30 0.51
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (26 bp):
ATCGGTAAGCTCATACGAGCTGATAT
Found at i:27208495 original size:15 final size:16
Alignment explanation
Indices: 27208465--27208496 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27208455 TAAGTGTGTT
27208465 AATGTAATATTCTTTA
1 AATGTAATATTCTTTA
27208481 AATGTAATATT-TTTA
1 AATGTAATATTCTTTA
27208496 A
1 A
27208497 TAAATAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
AATGTAATATTCTTTA
Found at i:27208647 original size:22 final size:24
Alignment explanation
Indices: 27208616--27208670 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
27208606 TGAACTATTT
*
27208616 TTTATGTTTTT-CATAAGTT-AAA
1 TTTATATTTTTACATAAGTTAAAA
* *
27208638 TTTATATTTTTACATTATTTAAAA
1 TTTATATTTTTACATAAGTTAAAA
27208662 TTTA-ATTTT
1 TTTATATTTT
27208671 GTTCCAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.36
23 11 0.39
24 7 0.25
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTATATTTTTACATAAGTTAAAA
Found at i:27209130 original size:31 final size:31
Alignment explanation
Indices: 27209092--27209170 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
27209082 ACTACAAAAA
*
27209092 TAGTCACTTTTGTTTG-CTTCAAATTACATTT
1 TAGTCACTTATGTTTGAC-TCAAATTACATTT
**
27209123 TAGTCACTTATGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGACTCAAATTACATTT
*
27209154 TAGTCACTTATATTTGA
1 TAGTCACTTATGTTTGA
27209171 AATGTTACGC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (31 bp):
TAGTCACTTATGTTTGACTCAAATTACATTT
Found at i:27210438 original size:2 final size:2
Alignment explanation
Indices: 27210431--27210456 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27210421 GGGATCATGA
27210431 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27210457 GTTACCGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27213753 original size:37 final size:35
Alignment explanation
Indices: 27213698--27213807 Score: 109
Period size: 37 Copynumber: 3.0 Consensus size: 35
27213688 TACTAGATAG
*
27213698 TTTAATATTATTTTAATAGTTTAATATTAAATTTAA
1 TTTAATATTATCTTAATAGTTTAATATT-AATTTAA
*
27213734 TTTAATACTTATCTTAATAGTATT-TTATTAATTTAA
1 TTTAATA-TTATCTTAATAGT-TTAATATTAATTTAA
*
27213770 TATTAAAGTGATTATCTTAATA-TTAAAT-TTAATTTAA
1 T-TT-AA-T-ATTATCTTAATAGTTTAATATTAATTTAA
27213807 T
1 T
27213808 GTTTATCTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
36 15 0.24
37 29 0.46
38 6 0.10
39 12 0.19
40 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.54
Consensus pattern (35 bp):
TTTAATATTATCTTAATAGTTTAATATTAATTTAA
Found at i:27213871 original size:17 final size:16
Alignment explanation
Indices: 27213848--27213905 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
27213838 TTAATAAGAT
27213848 TTAATATTATATTTAA
1 TTAATATTATATTTAA
27213864 TCTAATATT-TATCTTAA
1 T-TAATATTATAT-TTAA
*
27213881 TAAATATTATA-TTAA
1 TTAATATTATATTTAA
27213896 TATAATATTA
1 T-TAATATTA
27213906 AAGTAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 5 0.14
16 17 0.47
17 14 0.39
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATATTATATTTAA
Found at i:27213888 original size:16 final size:17
Alignment explanation
Indices: 27213849--27213904 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
27213839 TAATAAGATT
*
27213849 TAATA-TTATATTTAATC
1 TAATATTTATA-TTAATA
*
27213866 TAATATTTATCTTAATA
1 TAATATTTATATTAATA
27213883 -AATA-TTATATTAATA
1 TAATATTTATATTAATA
27213898 TAATATT
1 TAATATT
27213905 AAAGTAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.30
16 8 0.24
17 11 0.33
18 4 0.12
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATATTTATATTAATA
Found at i:27215636 original size:228 final size:225
Alignment explanation
Indices: 27215244--27215924 Score: 639
Period size: 228 Copynumber: 3.0 Consensus size: 225
27215234 GCGGTGTTTA
* * *
27215244 CTAA-AAGCGCCGCAAAATATGACAACCAAAACGCAGAGTTTGGTCTAGATGTATATTAGGATTA
1 CTAAGAAGCGCCGCAAGATATGAC-ACCAAAACGCAGAGTTTGGTCTTGACGTATATTA-GATTA
* * *** ** *
27215308 GTGGCGCTTACAGAAAAACGCCGCTAAAG-AGTACTATTAGCGGCGCGCACGCAGAAGCGCCGCT
64 GTGGCGCTTTC-GAGAAACGCCGCTAAAGTA-TACTATTAGCGGCGCTTTCTTAGAAGCGCCGCA
** * * * *** * *
27215372 ATATACCTTAATCAAAACTCAGCGTTTTGGTCTTGATGTATAATATAATTACTGGCGCTT-ATAA
127 ATATATATTAA-CGAAACGCTGCGTTTAAATCTTGATGTATAATAGAATTACTGGCG-TTCACAA
*
27215436 TACAA-CGCCGCTAAAT-ATCAGTATTAGCGGCACTT-
190 GA-AATCGCCGCTAAATCAT-AGTATTAGCGGCACTTG
* * *
27215471 CT-AGTTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGCTTGGTATTGAGGTATATTAGATG
1 CTAAG--AAGCGCCGCAAGATATG-ACACCAAAACGCAGAGTTTGGTCTTGACGTATATTAGAT-
*
27215535 TAGTGGTGCTTTCTG-GAAACGCCGC-AAAGGTATACTATTAGCGGCGCTTTCTTAGAAGCGCCG
62 TAGTGGCGCTTTC-GAGAAACGCCGCTAAA-GTATACTATTAGCGGCGCTTTCTTAGAAGCGCCG
* * * * *
27215598 CAATATATATTAACGGAAACGCTGCGTTTAAATCTTGATGTATACTGGAGTTAGTGGCGTTCACG
125 CAATATATATTAAC-GAAACGCTGCGTTTAAATCTTGATGTATAATAGAATTACTGGCGTTCACA
* *
27215663 AGAAATCGCCGCTAAATCATATTATTAGCGGCGCTTG
189 AGAAATCGCCGCTAAATCATAGTATTAGCGGCACTTG
* * * * * * *
27215700 CTAAGAAGCGCCGCAAGATAT-ATTAACCTAAACGCTGCGTTTAGATCTTGACGTATACTGGAAT
1 CTAAGAAGCGCCGCAAGATATGA--CACCAAAACGCAGAGTTT-GGTCTTGACGTATATTAG-AT
*
27215764 TAGTGGCG-TTTACGAGAAATCGCCGCTAAA-TCATATTATTAGCGGCGCTTTCTTAGAAGCGCC
62 TAGTGGCGCTTT-CGAGAAA-CGCCGCTAAAGT-ATACTATTAGCGGCGCTTTCTTAGAAGCGCC
* * * * *
27215827 GCAAGATATATTAACCGAAATGCTGCGTTTAAATCTTGATGTATACTGGAATTAGTGGCGTTCAC
124 GCAATATATATTAA-CGAAACGCTGCGTTTAAATCTTGATGTATAATAGAATTACTGGCGTTCAC
* *
27215892 GAGAAATCGCCGCTAAATCATATTATTAGCGGC
188 AAGAAATCGCCGCTAAATCATAGTATTAGCGGC
27215925 GCTTATTTGT
Statistics
Matches: 383, Mismatches: 48, Indels: 43
0.81 0.10 0.09
Matches are distributed among these distances:
226 2 0.01
227 10 0.03
228 143 0.37
229 89 0.23
230 135 0.35
231 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (225 bp):
CTAAGAAGCGCCGCAAGATATGACACCAAAACGCAGAGTTTGGTCTTGACGTATATTAGATTAGT
GGCGCTTTCGAGAAACGCCGCTAAAGTATACTATTAGCGGCGCTTTCTTAGAAGCGCCGCAATAT
ATATTAACGAAACGCTGCGTTTAAATCTTGATGTATAATAGAATTACTGGCGTTCACAAGAAATC
GCCGCTAAATCATAGTATTAGCGGCACTTG
Found at i:27215945 original size:115 final size:115
Alignment explanation
Indices: 27215570--27215928 Score: 628
Period size: 115 Copynumber: 3.1 Consensus size: 115
27215560 AAAGGTATAC
* *
27215570 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAATATATATTAACGGAAACGCTGCGTTTAAATCTTG
1 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
*
27215635 ATGTATACTGGAGTTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
66 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
* * * *
27215685 TATTAGCGGCGCTTGCTAAGAAGCGCCGCAAGATATATTAACCTAAACGCTGCGTTTAGATCTTG
1 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
* *
27215750 ACGTATACTGGAATTAGTGGCGTTTACGAGAAATCGCCGCTAAATCATAT
66 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
*
27215800 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAATGCTGCGTTTAAATCTTG
1 TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
27215865 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
66 ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
27215915 TATTAGCGGCGCTT
1 TATTAGCGGCGCTT
27215929 ATTTGTTAGC
Statistics
Matches: 228, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 228 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (115 bp):
TATTAGCGGCGCTTTCTTAGAAGCGCCGCAAGATATATTAACCGAAACGCTGCGTTTAAATCTTG
ATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAATCATAT
Found at i:27217558 original size:21 final size:21
Alignment explanation
Indices: 27217532--27217579 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
27217522 CAACAACTTA
* * *
27217532 AAGCAGATGCGGCAGTGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
27217553 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
27217574 AAGCAG
1 AAGCAG
27217580 CGATAGAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:27218187 original size:85 final size:83
Alignment explanation
Indices: 27218012--27218366 Score: 398
Period size: 85 Copynumber: 4.2 Consensus size: 83
27218002 GTTTGTGAAA
* *
27218012 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC-AAGCGCCGCTATAGAACAT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT--TCTAAGCGCCGCTAAAGAACAT
* *
27218074 CA-CTTTTAGAGGCATTT-TCTTCC
62 GATC-TTTAGAGGCGTTTAT-TT-C
* *
27218097 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT-CTAAGCGCCGCTAAAGAACATGA
*
27218162 TCTTTAGCGGCGTTTATTTC
64 TCTTTAGAGGCGTTTATTTC
* * *
27218182 TAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGGT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCTAAGCGCCGCTAAAGAACATGAT
* *
27218247 CTTTAGTGGCGTTTATTTTT
65 CTTTAGAGGCGTTTA-TTTC
*
27218267 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAAAGAACATGAT
* *
27218332 CTTTAGGGGC-TTTTTTTC
65 CTTTAGAGGCGTTTATTTC
*
27218350 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
27218367 TTTGCGACGT
Statistics
Matches: 236, Mismatches: 23, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
83 3 0.01
84 40 0.17
85 154 0.65
86 37 0.16
87 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (83 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATC
TTTAGAGGCGTTTATTTC
Found at i:27218329 original size:42 final size:42
Alignment explanation
Indices: 27218012--27218366 Score: 414
Period size: 42 Copynumber: 8.4 Consensus size: 42
27218002 GTTTGTGAAA
**
27218012 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TTC
* * * * *
27218055 -AAGCGCCGCTATAGAACATCA-CTTTTAGAGGCATTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTTC
* *
27218097 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTC
* *
27218140 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
27218182 TAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
27218224 TAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTC
*
27218267 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
27218309 TAAGCGCCGCTAAAGAACATGATCTTTAGGGGC-TTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
*
27218350 TGTAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
27218367 TTTGCGACGT
Statistics
Matches: 279, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
41 9 0.03
42 147 0.53
43 121 0.43
44 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:27218395 original size:127 final size:123
Alignment explanation
Indices: 27218014--27218366 Score: 351
Period size: 127 Copynumber: 2.8 Consensus size: 123
27218004 TTGTGAAATA
* * *
27218014 AGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTT-TTGAAC-AAGCGCCGCTATAGAACATC
1 AGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTATT--TCTAAGCGCCGCTAAAGAACATG
* * * * * *
27218075 A-CTTTTAGAGGCATTT-TCTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTT
62 ATC-TTTAGGGGCGTTTAT-TT-CTAAGCGCCGCAAAAGAACATGGTCGTTAGCGGC---TATTT
*
27218138 CCTT
121 -TTT
*
27218142 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGGTCT
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGATCT
* * * *
27218207 TTAGTGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTATTTTTTT
66 TTAGGGGCGTTTATTTCTAAGCGCCGCAAAAGAACATGGTCGTTAGCGGC---TA-TTTTTT
*
27218269 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCT
1 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGATCT
*
27218334 TTAGGGGC-TTTTTTTCTGTAAGCGCCGCAAAAG
66 TTAGGGGCGTTTATTTC--TAAGCGCCGCAAAAG
27218367 TTTGCGACGT
Statistics
Matches: 201, Mismatches: 15, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
126 7 0.03
127 110 0.55
128 79 0.39
129 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (123 bp):
AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGATCT
TTAGGGGCGTTTATTTCTAAGCGCCGCAAAAGAACATGGTCGTTAGCGGCTATTTTTT
Found at i:27219885 original size:20 final size:21
Alignment explanation
Indices: 27219860--27219912 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
27219850 GATAACATTT
*
27219860 TATTTTGAATTTTTTG-TTTA
1 TATTTTGAATTTTTAGTTTTA
*
27219880 TATTTT-TATTTTTAGTTTTA
1 TATTTTGAATTTTTAGTTTTA
*
27219900 TTTTTTGAATTTT
1 TATTTTGAATTTT
27219913 AAAGTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.74
Consensus pattern (21 bp):
TATTTTGAATTTTTAGTTTTA
Found at i:27219892 original size:19 final size:18
Alignment explanation
Indices: 27219857--27219904 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
27219847 TTAGATAACA
* *
27219857 TTTTATTTTGAATTTTTTG
1 TTTTATTTT-TATTTTTAG
27219876 TTTATATTTTTATTTTTAG
1 TTT-TATTTTTATTTTTAG
27219895 TTTTATTTTT
1 TTTTATTTTT
27219905 TGAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 7 0.27
19 13 0.50
20 6 0.23
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTATTTTTAG
Found at i:27221176 original size:36 final size:36
Alignment explanation
Indices: 27221107--27221192 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
27221097 CTACCTTCAT
** *
27221107 CCGATTTGCTTCCTTGTTTCTTTGCTTTTCTTTTCTG
1 CCGATTTGC-TCCCAGTTTATTTGCTTTTCTTTTCTG
*
27221144 CCGATTTGCTCCCAGTTTATTTTCTTTTCTTTTCTG
1 CCGATTTGCTCCCAGTTTATTTGCTTTTCTTTTCTG
27221180 CCGATTTGCTCCC
1 CCGATTTGCTCCC
27221193 CCCCGTTTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 36 0.80
37 9 0.20
ACGTcount: A:0.06, C:0.28, G:0.13, T:0.53
Consensus pattern (36 bp):
CCGATTTGCTCCCAGTTTATTTGCTTTTCTTTTCTG
Found at i:27225421 original size:17 final size:18
Alignment explanation
Indices: 27225399--27225481 Score: 73
Period size: 17 Copynumber: 4.7 Consensus size: 18
27225389 TTATTTTGGA
* *
27225399 ATTTTTGTTTATATTT-T
1 ATTTTTATTTTTATTTAT
*
27225416 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTTATTTAT
***
27225434 ATTTTTTATTTTTAAAGAT
1 A-TTTTTATTTTTATTTAT
*
27225453 -TTTTTATTTTT-TTCAT
1 ATTTTTATTTTTATTTAT
27225469 ATTTTTATTTTTA
1 ATTTTTATTTTTA
27225482 AACAAATTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.04
17 36 0.68
18 2 0.04
19 13 0.25
ACGTcount: A:0.20, C:0.01, G:0.02, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTTATTTAT
Found at i:27225421 original size:18 final size:17
Alignment explanation
Indices: 27225400--27225440 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
27225390 TATTTTGGAA
27225400 TTTTTGTTTATATTTTAT
1 TTTTTGTTTAT-TTTTAT
*
27225418 TTTTATTTTTATTTTTAT
1 TTTT-TGTTTATTTTTAT
27225436 TTTTT
1 TTTTT
27225441 ATTTTTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 14 0.67
19 6 0.29
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTTGTTTATTTTTAT
Found at i:27225433 original size:13 final size:13
Alignment explanation
Indices: 27225406--27225447 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
27225396 GGAATTTTTG
*
27225406 TTTATATTTTATT
1 TTTATTTTTTATT
27225419 TTTA-TTTTTATT
1 TTTATTTTTTATT
27225431 TTTATTTTTTATT
1 TTTATTTTTTATT
27225444 TTTA
1 TTTA
27225448 AAGATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:27225439 original size:19 final size:19
Alignment explanation
Indices: 27225406--27225447 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
27225396 GGAATTTTTG
27225406 TTTATATTTTATTTTTATT
1 TTTATATTTTATTTTTATT
27225425 TTTAT-TTTTATTTTTTATT
1 TTTATATTTTA-TTTTTATT
27225444 TTTA
1 TTTA
27225448 AAGATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTATATTTTATTTTTATT
Found at i:27225463 original size:6 final size:6
Alignment explanation
Indices: 27225406--27225447 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
27225396 GGAATTTTTG
27225406 TTTATAT TTTATT TTTATT TTTATT TTTATTT TTTATT TTTA
1 TTTAT-T TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTA
27225448 AAGATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 23 0.68
7 11 0.32
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:27225496 original size:24 final size:22
Alignment explanation
Indices: 27225467--27225528 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
27225457 TATTTTTTTC
*
27225467 ATATTTTTATTTTTAAACAAATT
1 ATATTTTTATTTTTAAA-AAAAT
27225490 ATAATTTTTATTTTTAAAAAAAT
1 AT-ATTTTTATTTTTAAAAAAAT
*
27225513 ATTTTTTTAATTTTTA
1 ATATTTTT-ATTTTTA
27225529 TGTTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 5 0.14
23 15 0.43
24 15 0.43
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATTTTTAAAAAAAT
Found at i:27225498 original size:34 final size:32
Alignment explanation
Indices: 27225429--27225504 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 32
27225419 TTTATTTTTA
* ** * *
27225429 TTTTTATTTTTTATTTTTAAAGATTTTTTATT
1 TTTTTATTTTTTATTTTTAAACAAATTATAAT
27225461 TTTTTCATATTTTTATTTTTAAACAAATTATAA-
1 TTTTT-AT-TTTTTATTTTTAAACAAATTATAAT
27225494 TTTTTATTTTT
1 TTTTTATTTTT
27225505 AAAAAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
31 4 0.11
32 7 0.19
33 7 0.19
34 19 0.51
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (32 bp):
TTTTTATTTTTTATTTTTAAACAAATTATAAT
Found at i:27225520 original size:23 final size:24
Alignment explanation
Indices: 27225469--27225528 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
27225459 TTTTTTTCAT
*
27225469 ATTTTTATTTTTAAACAAATTATA
1 ATTTTTATTTTTAAACAAAATATA
27225493 ATTTTTATTTTTAAA-AAAATAT-
1 ATTTTTATTTTTAAACAAAATATA
*
27225515 TTTTTTAATTTTTA
1 ATTTTT-ATTTTTA
27225529 TGTTTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 5 0.15
23 13 0.39
24 15 0.45
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTTTTATTTTTAAACAAAATATA
Found at i:27229584 original size:15 final size:16
Alignment explanation
Indices: 27229551--27229586 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
27229541 ATTATTTTAA
27229551 ATTTTATTAAATCATAT
1 ATTTTATTAAA-CATAT
27229568 ATTTTATTAAA-ATAT
1 ATTTTATTAAACATAT
27229583 ATTT
1 ATTT
27229587 AATATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
17 11 0.58
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTATTAAACATAT
Found at i:27229657 original size:66 final size:63
Alignment explanation
Indices: 27229587--27229905 Score: 205
Period size: 66 Copynumber: 5.2 Consensus size: 63
27229577 AAATATATTT
27229587 AATATTAATTATTTCAAATTATCTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATAATATATTATGATTTGAGTAAATTCATAT-A
27229652 G
63 G
* * *
27229653 AATATTAATTA-TTAAGA--A-TTTTAT--TA-AAT-TA-TAT-ATTTTAATTAAGA-T-ATATT
1 AATATTAATTATTTAA-ATTATTTTTATAGTATAATATATTATGA-TTTGAGTAA-ATTCATATA
*
27229706 T
63 G
* * *
27229707 AATAATAATTATGTTAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATAATATATTATGATTTGAGTAAATTCATAT-A
27229772 G
63 G
* * * * * **
27229773 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATATTT
1 AATATTAATTATTTA-AATTATTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAG
* * * *
27229827 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATCA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATAATATATTATGATTTGAGTAAATTCATAT-A
27229892 G
63 G
27229893 AATATTAATTATT
1 AATATTAATTATT
27229906 AAGAATTTTA
Statistics
Matches: 193, Mismatches: 28, Indels: 65
0.67 0.10 0.23
Matches are distributed among these distances:
54 24 0.12
55 13 0.07
56 20 0.10
57 6 0.03
58 4 0.02
59 18 0.09
60 9 0.05
61 18 0.09
62 3 0.02
63 7 0.04
64 18 0.09
65 16 0.08
66 37 0.19
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTTAAATTATTTTTATAGTATAATATATTATGATTTGAGTAAATTCATATAG
Found at i:27229748 original size:59 final size:58
Alignment explanation
Indices: 27229683--27229868 Score: 141
Period size: 59 Copynumber: 3.1 Consensus size: 58
27229673 TTATTAAATT
27229683 ATATATTTTAATTAAGATATATTTAATAATAATTATGTTAAATTTTCTTTTATAGTATC
1 ATATATTTTAATTAAGATATATTTAATAATAATTATGTTAAATTTT-TTTTATAGTATC
* * * * * * * * * *
27229742 ATATATTATGATT-TGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA-A--ATT
1 ATATATTTTAATTAAGA-TATATTTA-ATAA-TA-ATT-A-TGTTAA-ATTTTTTTTATAGTATC
27229803 ATATATTTTAATTATA-ATATATTTAATAATAATTATGTT-AATTTATATTTTATAGTATC
1 ATATATTTTAATTA-AGATATATTTAATAATAATTATGTTAAATTT-T-TTTTATAGTATC
27229862 ATATATT
1 ATATATT
27229869 ATTATTTGAG
Statistics
Matches: 93, Mismatches: 20, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
54 3 0.03
55 2 0.02
56 7 0.08
57 2 0.02
58 5 0.05
59 27 0.29
60 8 0.09
61 20 0.22
62 4 0.04
63 2 0.02
64 9 0.10
65 4 0.04
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (58 bp):
ATATATTTTAATTAAGATATATTTAATAATAATTATGTTAAATTTTTTTTATAGTATC
Found at i:27229751 original size:120 final size:120
Alignment explanation
Indices: 27229550--27229966 Score: 698
Period size: 120 Copynumber: 3.5 Consensus size: 120
27229540 AATTATTTTA
* * * *
27229550 AATTTTATTAAATCATATATTTT-ATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTCTTT
*
27229613 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
27229669 AATTTTATTAAATTATATATTTTAATTA-AGATATATTTAATAATAATTATGTTAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTATA-ATATATTTAATAATAATTATGTTAAATTTTCTTT
27229733 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
27229789 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TCTTT
* *
27229853 TATAGTATCATATATTATTATTTGAGTAAATTCATATCAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
27229909 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
27229967 ATGATTAAAT
Statistics
Matches: 284, Mismatches: 7, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
119 28 0.10
120 248 0.87
121 5 0.02
122 3 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:27229829 original size:15 final size:15
Alignment explanation
Indices: 27229794--27229845 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
27229784 TTAAGAATTT
*
27229794 TATTAAATTAT-ATA
1 TATTTAATTATAATA
27229808 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
27229822 TATTTAATAATAAT-
1 TATTTAATTATAATA
27229836 TATGTTAATT
1 TAT-TTAATT
27229846 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:27229944 original size:16 final size:16
Alignment explanation
Indices: 27229923--27229964 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27229913 TTATTAAATT
*
27229923 ATATATTTTAATTATA
1 ATATATTTTAATAATA
27229939 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
27229954 AT-TATGTTTAA
1 ATATAT-TTTAA
27229965 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:27229949 original size:15 final size:15
Alignment explanation
Indices: 27229914--27229955 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27229904 TTAAGAATTT
*
27229914 TATTAAATTAT-ATA
1 TATTTAATTATAATA
27229928 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
27229942 TATTTAATAATAAT
1 TATTTAATTATAAT
27229956 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:27230264 original size:16 final size:16
Alignment explanation
Indices: 27230240--27230280 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
27230230 NNNNNNCTAT
*
27230240 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
27230256 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
27230272 TCCAATACA
1 TCCAATACA
27230281 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:27230606 original size:9 final size:9
Alignment explanation
Indices: 27230592--27230626 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
27230582 TTTTGTTACA
27230592 ACAATTAAT
1 ACAATTAAT
27230601 ACAATT-A-
1 ACAATTAAT
27230608 ACAATTAAT
1 ACAATTAAT
27230617 ACAATTAAT
1 ACAATTAAT
27230626 A
1 A
27230627 ATTTGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 6 0.25
8 2 0.08
9 16 0.67
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (9 bp):
ACAATTAAT
Found at i:27230612 original size:16 final size:16
Alignment explanation
Indices: 27230591--27230629 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
27230581 ATTTTGTTAC
27230591 AACAATTAATACAATT
1 AACAATTAATACAATT
27230607 AACAATTAATACAATT
1 AACAATTAATACAATT
*
27230623 AATAATT
1 AACAATT
27230630 TGATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:27231110 original size:30 final size:31
Alignment explanation
Indices: 27231074--27231134 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
27231064 AAACCTTTTA
*
27231074 TTTTCCCCCAAAATTTTTACTCCC-TCCCAT
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
* *
27231104 TTTTCCCCTAAAACTTTTATTCCCTTCCCAT
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
27231135 CTCACCTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAT
Found at i:27231282 original size:21 final size:21
Alignment explanation
Indices: 27231241--27231282 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
27231231 TTTATTCCCA
* *
27231241 AAACTTTTTTATTTTTCCCCT
1 AAACTTTTTTACTTCTCCCCT
27231262 AAAC-TTTTTACTTCTCACCCT
1 AAACTTTTTTACTTCTC-CCCT
27231283 TTACTCTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (21 bp):
AAACTTTTTTACTTCTCCCCT
Found at i:27231988 original size:6 final size:6
Alignment explanation
Indices: 27231979--27232007 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
27231969 ATTAAAAAAA
27231979 TAATTT TAATTT TAATTT TAATTT TAATT
1 TAATTT TAATTT TAATTT TAATTT TAATT
27232008 AAAAACGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:27233039 original size:18 final size:18
Alignment explanation
Indices: 27232988--27233053 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
27232978 TTAGAATTTT
*
27232988 TTTTGAAATTTTTAT-AA
1 TTTTGAAATATTTATAAA
* * *
27233005 -TTTAAAAAATATATAAA
1 TTTTGAAATATTTATAAA
27233022 TTTTGAAATATTTATAAA
1 TTTTGAAATATTTATAAA
*
27233040 TATTTTAAAT-TTTA
1 T-TTTGAAATATTTA
27233054 AAAAGTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
16 10 0.26
17 2 0.05
18 19 0.50
19 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (18 bp):
TTTTGAAATATTTATAAA
Found at i:27233093 original size:21 final size:20
Alignment explanation
Indices: 27233021--27233084 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
27233011 AAATATATAA
* *
27233021 ATTTTGAAATATTTATAAA-T
1 ATTTT-AAATTTTTAAAAAGT
27233041 ATTTTAAA-TTTTAAAAAGT
1 ATTTTAAATTTTTAAAAAGT
*
27233060 ATTTTAAATTTTTAAAAATT
1 ATTTTAAATTTTTAAAAAGT
27233080 ATTTT
1 ATTTT
27233085 GTAATTTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 7 0.18
19 12 0.31
20 20 0.51
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTTAAATTTTTAAAAAGT
Found at i:27236165 original size:26 final size:27
Alignment explanation
Indices: 27236113--27236171 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
27236103 ATTGAGAATG
** *
27236113 AAAAAAAGAAAGTAAAATGTTATTAAA
1 AAAAAAAGAAAGTAAAATGAAAGTAAA
*
27236140 AAAAAAAGAAAG-AAAGTGAAAGTAAA
1 AAAAAAAGAAAGTAAAATGAAAGTAAA
27236166 AAAAAA
1 AAAAAA
27236172 GTAATTAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (27 bp):
AAAAAAAGAAAGTAAAATGAAAGTAAA
Found at i:27239513 original size:30 final size:28
Alignment explanation
Indices: 27239479--27239535 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
27239469 CGTTATTTCA
* *
27239479 GCCTAGTCTCGTAAATTTTTTAAAAAAATG
1 GCCTAATCTCGT-AA-TTTTAAAAAAAATG
*
27239509 GCCTAATCTGGTAATTTTAAAAAAAAT
1 GCCTAATCTCGTAATTTTAAAAAAAAT
27239536 CAGTATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.50
29 2 0.08
30 10 0.42
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (28 bp):
GCCTAATCTCGTAATTTTAAAAAAAATG
Found at i:27239545 original size:18 final size:18
Alignment explanation
Indices: 27239522--27239557 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27239512 TAATCTGGTA
27239522 ATTTTAAAAAAAATCAGT
1 ATTTTAAAAAAAATCAGT
* *
27239540 ATTTTAAAGAAATTCAGT
1 ATTTTAAAAAAAATCAGT
27239558 CCATCTGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (18 bp):
ATTTTAAAAAAAATCAGT
Found at i:27244503 original size:116 final size:116
Alignment explanation
Indices: 27244298--27244548 Score: 412
Period size: 116 Copynumber: 2.2 Consensus size: 116
27244288 AACCTAAACA
*
27244298 CCTCAAGCCCTAAGGCTCCTCGTCGTGTATTCTTGAAAACCAATACTTCATATTTAAAGGGAGTT
1 CCTCAAGCCCCAAGGCTCCTCGTCGTGTATTCTTGAAAACCAATACTTCATATTTAAAGGGAGTT
*
27244363 CAATTAGTTAACGAAAACTATAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
66 CAAGTAGTTAACGAAAACTATAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
* * * * *
27244414 CCTCAAGCCCCAAGGCTCCTTGTCGTGTATTCTTGAAAGCTAGTACTTCATATTTAAGGGGAGTT
1 CCTCAAGCCCCAAGGCTCCTCGTCGTGTATTCTTGAAAACCAATACTTCATATTTAAAGGGAGTT
* *
27244479 CAAGTAGTTAAGGAAAACTGTAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
66 CAAGTAGTTAACGAAAACTATAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
27244530 CCTCAAGCCCTCAAGGCTC
1 CCTCAAGCCC-CAAGGCTC
27244549 TTCATCAACA
Statistics
Matches: 125, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
116 117 0.94
117 8 0.06
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (116 bp):
CCTCAAGCCCCAAGGCTCCTCGTCGTGTATTCTTGAAAACCAATACTTCATATTTAAAGGGAGTT
CAAGTAGTTAACGAAAACTATAAGCCTCCAAAGTAACTTCGAGTGTAGGCT
Found at i:27244913 original size:36 final size:36
Alignment explanation
Indices: 27244872--27244943 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
27244862 CGAAAGTAAT
* *
27244872 CAAATTTATTGAAAGGCTAATATGCCATCTATCAAG
1 CAAATTGATTGAAAGACTAATATGCCATCTATCAAG
*
27244908 CAAATTGATTGAAAGACTAATATGCCGTCTATCAAG
1 CAAATTGATTGAAAGACTAATATGCCATCTATCAAG
27244944 TCTAGAGGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (36 bp):
CAAATTGATTGAAAGACTAATATGCCATCTATCAAG
Found at i:27249421 original size:17 final size:17
Alignment explanation
Indices: 27249401--27249438 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
27249391 AAAAGAGTCT
27249401 GCCAAGCCCTAGAGTTC
1 GCCAAGCCCTAGAGTTC
* *
27249418 GCC-AGCCTTAGAGTTT
1 GCCAAGCCCTAGAGTTC
27249434 GCCAA
1 GCCAA
27249439 ATGGTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (17 bp):
GCCAAGCCCTAGAGTTC
Found at i:27260516 original size:41 final size:41
Alignment explanation
Indices: 27260454--27260579 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 41
27260444 TAACCGTTAC
27260454 ACGGTGGAATCAGCACTTAGCAACTACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAAC-ACCTTATAATCAATGAT
* * *
27260496 ACGG-GGAATCAGCACATAGCAACCCCTT-TCACAGTCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACACCTTAT-A-A-TCAATGAT
*
27260538 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGA
1 ACGGTGGAATCAGCACTTAGCAA-CACC-TTATAATCAATGA
27260580 CGCGGATTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 19 0.27
42 15 0.21
43 23 0.33
44 3 0.04
45 3 0.04
46 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (41 bp):
ACGGTGGAATCAGCACTTAGCAACACCTTATAATCAATGAT
Found at i:27260698 original size:51 final size:49
Alignment explanation
Indices: 27260600--27260876 Score: 233
Period size: 51 Copynumber: 5.5 Consensus size: 49
27260590 CATAGTTGTA
* * * * *
27260600 TGCACATAGTACTACACATGTGACCATCACTATTCGATACACGTAGTAGCC
1 TGCACATAGTACTACACACGTGACGA--ACTATCCGGTACACATAGTAGCC
*
27260651 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
1 TGCACATAGTACTACACACGTGA-CGAA-CTATCCGGTACACATAGTAGCC
* * *
27260702 TGCACATAGTACTACACA--T-ACGACCTATCATTCTGGTACACGTAGGAGCC
1 TGCACATAGTACTACACACGTGACGAACTATC---C-GGTACACATAGTAGCC
* * *
27260752 TACACATAGTACTACACACGTGATCGAATCTATCCGGTACGCATAGTGGCC
1 TGCACATAGTACTACACACGTGA-CGAA-CTATCCGGTACACATAGTAGCC
* * *
27260803 TGCATATAGTACTACACA--TG-CGACCTATCATTCTGGTACACTTAGTAGCC
1 TGCACATAGTACTACACACGTGACGAACTATC---C-GGTACACATAGTAGCC
* *
27260853 TACACATAGTACTACACACATGAC
1 TGCACATAGTACTACACACGTGAC
27260877 CATTTCTTTC
Statistics
Matches: 184, Mismatches: 24, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
46 10 0.05
47 6 0.03
48 1 0.01
49 5 0.03
50 60 0.33
51 86 0.47
52 6 0.03
53 2 0.01
54 3 0.02
55 5 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TGCACATAGTACTACACACGTGACGAACTATCCGGTACACATAGTAGCC
Found at i:27260766 original size:101 final size:101
Alignment explanation
Indices: 27260600--27260871 Score: 422
Period size: 101 Copynumber: 2.7 Consensus size: 101
27260590 CATAGTTGTA
* * *
27260600 TGCACATAGTACTACACATGTGACC-ATCACTAT-TCGATACACGTAGTAGCCTGCACATAGTAC
1 TGCACATAGTACTACACATGCGACCTATCA-T-TCT-GGTACACGTAGTAGCCTACACATAGTAC
27260663 TACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
63 TACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
* *
27260702 TGCACATAGTACTACACATACGACCTATCATTCTGGTACACGTAGGAGCCTACACATAGTACTAC
1 TGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACACATAGTACTAC
* *
27260767 ACACGTGATCGAATCTATCCGGTACGCATAGTGGCC
66 ACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
* *
27260803 TGCATATAGTACTACACATGCGACCTATCATTCTGGTACACTTAGTAGCCTACACATAGTACTAC
1 TGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACACATAGTACTAC
27260868 ACAC
66 ACAC
27260872 ATGACCATTT
Statistics
Matches: 157, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
101 128 0.82
102 25 0.16
103 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
TGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACACATAGTACTAC
ACACGTGATCGAAGCTATCCGGTACGCATAGTAGCC
Found at i:27273480 original size:6 final size:6
Alignment explanation
Indices: 27273471--27273504 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
27273461 TATTTATATT
27273471 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAA
27273505 TATTGATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TTAAAA
Found at i:27278646 original size:22 final size:22
Alignment explanation
Indices: 27278615--27278666 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
27278605 TTAATAAATC
*
27278615 TATTAAAAAAAGAATTAACATTT
1 TATTAGAAAAA-AATTAACATTT
* *
27278638 T-TTAGAAAAAAATTGATATTT
1 TATTAGAAAAAAATTAACATTT
27278659 TATTAGAA
1 TATTAGAA
27278667 TTTCTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 10 0.40
22 14 0.56
23 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
TATTAGAAAAAAATTAACATTT
Found at i:27291157 original size:50 final size:50
Alignment explanation
Indices: 27291042--27291230 Score: 261
Period size: 50 Copynumber: 3.8 Consensus size: 50
27291032 GATAATAACA
* ** *
27291042 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CATCTCATCTCGG
* * * ** *
27291093 TGCCCATGCCATGTCCCAGACATGGTCTTGCGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
*
27291143 TGCCAACGCCATGTCCCAGACATGGTCTTACATGTGACATCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
*
27291193 TGCCAACGCTATGTCCCAGACATGGTCTTACATGGGAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
27291231 CTCTTTACCC
Statistics
Matches: 121, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 89 0.74
51 32 0.26
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGG
Found at i:27298788 original size:94 final size:93
Alignment explanation
Indices: 27298684--27299319 Score: 634
Period size: 94 Copynumber: 6.8 Consensus size: 93
27298674 ATTTCCAATC
* * **
27298684 CCCCTAAAGTTGTAGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATAAA-CTACCATAGCGAATCTTATCTCCCTAAAGTTGCAG
*
27298749 TGGAGCAAGATAAAGCTACAAATCCTATA
65 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
27298778 CCCCTGAAGTTACAATGGGTTGGAATGAAACTA-CATTGGTGAATCTTATCTCCCTTAAGTTGCA
1 CCCCTGAAGTTGCAGTGGGTTGGAAT-AAACTACCA-TAGCGAATCTTATCTCCCTAAAGTTGCA
27298842 GTGGAGCAAGATGAAGCTACAAATCCTATA
64 GTGGAGCAAGATGAAGCTACAAATCCTATA
* * * ** * *
27298872 CCCTTGAAGTTACAATATGTTGGAATAAAACTA-CA-A-CGAAAAATCTTATCTCCCTGAAGATG
1 CCCCTGAAGTTGCAGTGGGTTGGAAT-AAACTACCATAGCG---AATCTTATCTCCCTAAAGTTG
27298934 CAGTGGAGCAAGATGAAGCTACAAA--C--T-
62 CAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
27298961 --CCTGAAGTTACAGTGGGTCGGAATAAAGCTACCATAGTGAATCTTCTCT-CCTAGAAGTTGTA
1 CCCCTGAAGTTGCAGTGGGTTGGAATAAA-CTACCATAGCGAATCTTATCTCCCTA-AAGTTGCA
27299023 GTGGAGCAAGATGAAGCTACAAATCCTATA
64 GTGGAGCAAGATGAAGCTACAAATCCTATA
* * *** * * * * *
27299053 CCCCTAAAGTTGCAGTAGGTCAAAATGAAGCTACCATAGCGAATCTTATCTCTCTGAAGTTGTAA
1 CCCCTGAAGTTGCAGTGGGTTGGAAT-AAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCAG
*
27299118 TGGAGCAAGATGAAGCTACAAATCTTATA
65 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
27299147 CCCCTAGAA-TTGTAGTGGGTTGGAATGAAACTACAATAGTGAATCTTATCTCCTTGAAGTTGCA
1 CCCCT-GAAGTTGCAGTGGGTTGGAAT-AAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCA
*
27299211 GTGGAGTAAGATGAAGCTACAAATCCTATA
64 GTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
27299241 CCCCTGAAGTTGCAGTAGGTTGGAATGAAACTACAATAGCAAATATTATCT-CCTAGAAATTGCA
1 CCCCTGAAGTTGCAGTGGGTTGGAAT-AAACTACCATAGCGAATCTTATCTCCCTA-AAGTTGCA
* *
27299305 ATTGAGCAAGATGAA
64 GTGGAGCAAGATGAA
27299320 ACTATGACAT
Statistics
Matches: 454, Mismatches: 66, Indels: 44
0.80 0.12 0.08
Matches are distributed among these distances:
86 6 0.01
87 60 0.13
88 2 0.00
89 2 0.00
90 2 0.00
91 2 0.00
92 1 0.00
93 7 0.02
94 363 0.80
95 9 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (93 bp):
CCCCTGAAGTTGCAGTGGGTTGGAATAAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGT
GGAGCAAGATGAAGCTACAAATCCTATA
Found at i:27298862 original size:50 final size:45
Alignment explanation
Indices: 27298724--27299256 Score: 121
Period size: 44 Copynumber: 11.6 Consensus size: 45
27298714 CTACCATAGC
*
27298724 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTACA
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* * * * *** *
27298769 -AATCCTATAC-CCCTGAAGTTACAATGG-GTTGGAATGAAACTACA
1 GAATCTTAT-CTCCCTAAAGTTGCAGTGGAGCAAG-ATGAAGCTACA
*
27298813 TTGGTGAATCTTATCTCCCTTAAGTTGCAGTGGAGCAAGATGAAGCTACA
1 -----GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* * * * ** * * *
27298863 -AATCCTATAC-CCTTGAAGTTACAATATGTTGGAATAAAACT-ACAACGA-A
1 GAATCTTAT-CTCCCTAAAGTTGC---A-G-TGGAGCAAGA-TGA-AGCTACA
* * *
27298912 AAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTAC-
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* * * *
27298956 -AA----A-CT-CCTGAAGTTACAGTGG-GTC-GGAATAAAGCTACCATA
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAG-CAAG-ATGAAGCTA-C--A
* *
27298997 GTGAATCTTCTCT-CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACA
1 G--AATCTTATCTCCCTA-AAGTTGCAGTGGAGCAAGATGAAGCTACA
* * *
27299044 -AATCCTATAC-CCCTAAAGTTGCAGTAGG-TCAAAATGAAGCTACCATA
1 GAATCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAAGATGAAGCTA-C--A
* * * *
27299091 GCGAATCTTATCTCTCTGAAGTTGTAATGGAGCAAGATGAAGCTACA
1 --GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* *** *
27299138 -AATCTTATAC-CCCTAGAA-TTGTAGTGG-GTTGGAATGAAACTACAATA
1 GAATCTTAT-CTCCCTA-AAGTTGCAGTGGAGCAAG-ATGAAGCTAC---A
* * *
27299185 GTGAATCTTATCTCCTTGAAGTTGCAGTGGAGTAAGATGAAGCTACA
1 --GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
* *
27299232 -AATCCTATAC-CCCTGAAGTTGCAGT
1 GAATCTTAT-CTCCCTAAAGTTGCAGT
27299257 AGGTTGGAAT
Statistics
Matches: 353, Mismatches: 72, Indels: 127
0.64 0.13 0.23
Matches are distributed among these distances:
36 2 0.01
37 23 0.07
38 3 0.01
39 1 0.00
43 6 0.02
44 128 0.36
45 22 0.06
46 1 0.00
47 7 0.02
48 1 0.00
49 24 0.07
50 128 0.36
51 7 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (45 bp):
GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACA
Found at i:27299046 original size:275 final size:274
Alignment explanation
Indices: 27298697--27299237 Score: 712
Period size: 275 Copynumber: 2.0 Consensus size: 274
27298687 CTAAAGTTGT
27298697 AGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAA
1 AGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAA
* * *** * *
27298762 AGCTACAAATCCTATACCCCTGAAGTTACAATGGGTTGGAATGAAACTA-CATTGGTGAATCTTA
66 AGCTACAAATCCTATACCCCTAAAGTTACAATAGGTCAAAATGAAACTACCA-TAGCGAATCTTA
* * * *
27298826 TCTCCCTTAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCCTTGAAGTTACAATAT
130 TCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTAGAA-TTACAATAG
27298890 GTTGGAATAAAACTACAACGA-AAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCT
194 GTTGGAATAAAACTACAA-GAGAAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCT
27298954 ACAAACTCCTGAAGTTAC
258 ACAAA-TCCTGAAGTTAC
* * * * *
27298972 AGTGGGTCGGAATAAAGCTACCATAGTGAATCTTCTCT-CCTAGAAGTTGTAGTGGAGCAAGATG
1 AGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTA-AAGTTGCAGTGGAGCAAGATA
* * *
27299036 AAGCTACAAATCCTATACCCCTAAAGTTGCAGTAGGTCAAAATGAAGCTACCATAGCGAATCTTA
65 AAGCTACAAATCCTATACCCCTAAAGTTACAATAGGTCAAAATGAAACTACCATAGCGAATCTTA
* * * ** * *
27299101 TCTCTCTGAAGTTGTAATGGAGCAAGATGAAGCTACAAATCTTATACCCCTAGAATTGTAGTGGG
130 TCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTAGAATTACAATAGG
* * ** * * *
27299166 TTGGAATGAAACTACAATAGTGAATCTTATCTCCTTGAAGTTGCAGTGGAGTAAGATGAAGCTAC
195 TTGGAATAAAACTACAAGAGAAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTAC
27299231 AAATCCT
260 AAATCCT
27299238 ATACCCCTGA
Statistics
Matches: 229, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
274 9 0.04
275 211 0.92
276 9 0.04
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (274 bp):
AGTGGGTCAGAATAAAGCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAA
AGCTACAAATCCTATACCCCTAAAGTTACAATAGGTCAAAATGAAACTACCATAGCGAATCTTAT
CTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTAGAATTACAATAGGT
TGGAATAAAACTACAAGAGAAAATCTTATCTCCCTGAAGATGCAGTGGAGCAAGATGAAGCTACA
AATCCTGAAGTTAC
Found at i:27299160 original size:44 final size:45
Alignment explanation
Indices: 27299010--27299252 Score: 160
Period size: 44 Copynumber: 5.2 Consensus size: 45
27299000 AATCTTCTCT
*
27299010 CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACC
1 CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACC
* * *
27299055 CCTA-AAGTTGCAGTAGG-TCAAAATGAAGCTACCATAGCGAATCTTAT-CTC
1 CCTAGAAGTTGTAGT-GGAGCAAGATGAAGCTA-C--A---AATCTTATAC-C
* *
27299105 TCT-GAAGTTGTAATGGAGCAAGATGAAGCTACAAATCTTATACC
1 CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACC
*** * *
27299149 CCTAGAA-TTGTAGTGG-GTTGGAATGAAACTACAATAGTGAATCTTAT-CT
1 CCTAGAAGTTGTAGTGGAGCAAG-ATGAAGCTAC---A---AATCTTATACC
* * * *
27299198 CCTTGAAGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATACC
1 CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACC
27299243 CCT-GAAGTTG
1 CCTAGAAGTTG
27299253 CAGTAGGTTG
Statistics
Matches: 153, Mismatches: 23, Indels: 45
0.69 0.10 0.20
Matches are distributed among these distances:
43 2 0.01
44 63 0.41
45 15 0.10
47 4 0.03
49 11 0.07
50 55 0.36
51 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
CCTAGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCTTATACC
Found at i:27299269 original size:44 final size:44
Alignment explanation
Indices: 27299127--27299276 Score: 117
Period size: 44 Copynumber: 3.3 Consensus size: 44
27299117 ATGGAGCAAG
* * *
27299127 ATGAAGCTACAAATCTTATACCCCTAGAA-TTGTAGTGGGTTGGA
1 ATGAAACTACAAATCCTATACCCCT-GAAGTTGCAGTGGGTTGGA
* * **
27299171 ATGAAACTACAATAGTGAATCT-TATCTCCTTGAAGTTGCAGTGGAGTAAG-
1 ATGAAACTACAA-A-T---CCTATA-C-CCCTGAAGTTGCAGTGG-GTTGGA
* *
27299221 ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTTGGA
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGA
27299265 ATGAAACTACAA
1 ATGAAACTACAA
27299277 TAGCAAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
43 3 0.04
44 37 0.46
45 4 0.05
46 3 0.04
48 3 0.04
49 6 0.07
50 22 0.27
51 3 0.04
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (44 bp):
ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGA
Found at i:27300997 original size:9 final size:9
Alignment explanation
Indices: 27300983--27301017 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
27300973 TTAAATGTTG
27300983 ATACTATTA
1 ATACTATTA
27300992 ATACTATTA
1 ATACTATTA
27301001 ATACTATTA
1 ATACTATTA
*
27301010 GTACTATT
1 ATACTATT
27301018 TTATTTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (9 bp):
ATACTATTA
Found at i:27301160 original size:19 final size:20
Alignment explanation
Indices: 27301110--27301160 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
27301100 TGAATTATTA
*
27301110 TTATTTC-TTATTGTTATAT
1 TTATTTCATTATTGTCATAT
*
27301129 TCATTAT-ATTATTGTCAT-T
1 TTATT-TCATTATTGTCATAT
27301148 TTATTTCATTATT
1 TTATTTCATTATT
27301161 TATGTTGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.04
19 15 0.58
20 10 0.38
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.65
Consensus pattern (20 bp):
TTATTTCATTATTGTCATAT
Found at i:27301173 original size:20 final size:22
Alignment explanation
Indices: 27301120--27301173 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
27301110 TTATTTCTTA
27301120 TTGTTATATTCATTATATTATTG
1 TTGTTAT-TTCATTATATTATTG
*
27301143 TCATTTTATTTCATTAT-TTA-TG
1 T--TGTTATTTCATTATATTATTG
27301165 TTGTTATTT
1 TTGTTATTT
27301174 TGTTAATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
20 7 0.26
22 3 0.11
23 4 0.15
24 8 0.30
25 5 0.19
ACGTcount: A:0.22, C:0.06, G:0.07, T:0.65
Consensus pattern (22 bp):
TTGTTATTTCATTATATTATTG
Found at i:27331804 original size:12 final size:12
Alignment explanation
Indices: 27331789--27331814 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27331779 ATATTTTCCC
27331789 AACTCTTTTTAA
1 AACTCTTTTTAA
27331801 AACTCTTTTTAA
1 AACTCTTTTTAA
27331813 AA
1 AA
27331815 AGTCGGGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (12 bp):
AACTCTTTTTAA
Found at i:27334855 original size:35 final size:35
Alignment explanation
Indices: 27334809--27334879 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
27334799 TATAGAATCT
27334809 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
1 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
27334844 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
1 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
27334879 G
1 G
27334880 TTCTAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (35 bp):
GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
Done.