Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 185 of 425
Found at i:56055915 original size:30 final size:30
Alignment explanation
Indices: 56055871--56055959 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
56055861 CAAAGATAAC
56055871 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
56055900 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
56055930 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
56055960 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:56055919 original size:15 final size:15
Alignment explanation
Indices: 56055871--56055950 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
56055861 CAAAGATAAC
*
56055871 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56055885 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56055900 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56055915 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
56055930 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
56055945 AAGAAA
1 AAGAAA
56055951 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56055959 original size:15 final size:15
Alignment explanation
Indices: 56055882--56055959 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
56055872 AGAAAACCGA
56055882 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56055897 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
56055911 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
56055926 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
56055942 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56055957 ATA
1 ATA
56055960 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56059020 original size:93 final size:93
Alignment explanation
Indices: 56058908--56059079 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56058898 GCCCATAAGT
* *
56058908 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56058973 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56059001 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56059066 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56059080 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56059075 original size:46 final size:46
Alignment explanation
Indices: 56058900--56059075 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
56058890 TGTAACCCGC
* * *
56058900 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
56058946 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
56058996 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
56059039 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56059076 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:56067608 original size:22 final size:22
Alignment explanation
Indices: 56067582--56067626 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
56067572 TGAAAACTAA
* *
56067582 ACATGTTCTAATTGTATTATTG
1 ACATGTTATAATAGTATTATTG
*
56067604 ACATGTTATTATAGTATTATTG
1 ACATGTTATAATAGTATTATTG
56067626 A
1 A
56067627 TTTGAATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (22 bp):
ACATGTTATAATAGTATTATTG
Found at i:56071881 original size:55 final size:53
Alignment explanation
Indices: 56071745--56071952 Score: 170
Period size: 55 Copynumber: 3.8 Consensus size: 53
56071735 ATCCTTTTGA
* ** * *
56071745 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTAACATGGGATCCTTGCCTTATG
* * * *
56071798 AACTCACCAATGCCATGCCTTGGCATGGTCTAACATGGGA-CCTTTGCCTTATAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTAACATGGGATCC-TTGCCTTAT--G
* * ** *
56071853 AACTTATCAATGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTA-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTAACATGGGATCCTTGCCTTATG
* * * *
56071905 AAACCTTACCAATTTCCAT-TCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGT-CTTGACATGGTCTAACATGGGATCCTT
56071953 AAACCCTATT
Statistics
Matches: 124, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.02
53 43 0.35
54 8 0.06
55 69 0.56
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTAACATGGGATCCTTGCCTTATG
Found at i:56071892 original size:108 final size:110
Alignment explanation
Indices: 56071745--56071945 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
56071735 ATCCTTTTGA
*
56071745 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
56071808 -TGCCATGCCTTGGCATGGTCTAACATGGGACCTTTGCCTTATAAT
65 TTGCCATGCCTTGGCATGGTCTAACATGGGACCTTTGCCTTATAAT
* ** ** *
56071853 AACTTATCAATGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
* * *
56071918 TTCCATTCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTAACATGG
56071946 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTAACATGGGACCTTTGCCTTATAAT
Found at i:56079416 original size:71 final size:71
Alignment explanation
Indices: 56079332--56079495 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56079322 CGATTTGTCT
56079332 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56079397 CTTTCA
66 CTTTCA
56079403 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56079468 CTTTCA
66 CTTTCA
56079474 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
56079496 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:56079533 original size:71 final size:70
Alignment explanation
Indices: 56079332--56079529 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
56079322 CGATTTGTCT
* * * *
56079332 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
56079397 CTTTCA
65 CTTTCA
* * * *
56079403 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
56079468 CTTTCA
65 CTTTCA
* *
56079474 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
56079530 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:56086995 original size:71 final size:71
Alignment explanation
Indices: 56086911--56087074 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56086901 CGATTTGTCT
56086911 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56086976 CTTTCA
66 CTTTCA
56086982 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56087047 CTTTCA
66 CTTTCA
56087053 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
56087075 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:56087112 original size:71 final size:70
Alignment explanation
Indices: 56086911--56087108 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
56086901 CGATTTGTCT
* * * *
56086911 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
56086976 CTTTCA
65 CTTTCA
* * * *
56086982 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
56087047 CTTTCA
65 CTTTCA
* *
56087053 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
56087109 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:56090401 original size:16 final size:16
Alignment explanation
Indices: 56090382--56090412 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56090372 CTTCTTCACT
56090382 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
56090398 TACTTACTTACTTAA
1 TACTCACTTACTTAA
56090413 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:56090418 original size:20 final size:20
Alignment explanation
Indices: 56090379--56090418 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
56090369 AAACTTCTTC
* *
56090379 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
56090399 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
56090419 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:56091981 original size:55 final size:53
Alignment explanation
Indices: 56091780--56092025 Score: 231
Period size: 55 Copynumber: 4.7 Consensus size: 53
56091770 ACGCGGGTAC
* * * *
56091780 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAGAA
*
56091829 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAGAA
* * *
56091882 CTCACCAATGCCATG-CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTATAG-AA
* * *
56091936 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATAGAA
* * *
56091989 CCTTACCAATTACCATGCCTTGGCATGGTCTTACATG
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATG
56092026 GTATTCTTAA
Statistics
Matches: 167, Mismatches: 17, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
49 41 0.25
51 2 0.01
52 31 0.19
53 18 0.11
54 23 0.14
55 50 0.30
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATAGAA
Found at i:56091981 original size:107 final size:110
Alignment explanation
Indices: 56091827--56092026 Score: 309
Period size: 107 Copynumber: 1.8 Consensus size: 110
56091817 ATCCTTTTGA
* *
56091827 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
56091890 -TGCCATG-CTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
56091934 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
56091999 TACCATGCCTTGGCATGGTCTTACATGG
66 TACCATGCCTTGGCATGGTCTTACATGG
56092027 TATTCTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
106 1 0.01
107 49 0.59
108 7 0.08
109 6 0.07
110 20 0.24
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:56093548 original size:108 final size:110
Alignment explanation
Indices: 56093422--56093622 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
56093412 ATCCTTTTGA
*
56093422 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
56093485 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
56093530 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
56093595 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
56093623 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:56093565 original size:55 final size:54
Alignment explanation
Indices: 56093326--56093629 Score: 283
Period size: 49 Copynumber: 5.8 Consensus size: 54
56093316 ACACAGGTAC
* * * * *
56093326 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * ** *
56093375 CTTACCATTGCCATGACTTGTCATGGTCTTATGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * **
56093424 CTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * *
56093477 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* * *
56093532 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
*
56093585 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56093630 AAACCCTAAT
Statistics
Matches: 220, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
49 85 0.39
52 4 0.02
53 44 0.20
54 8 0.04
55 77 0.35
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:56094982 original size:23 final size:23
Alignment explanation
Indices: 56094952--56094996 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
56094942 TATTCAAATG
56094952 CCAATACTATCAATACCGATTAT
1 CCAATACTATCAATACCGATTAT
56094975 CCAATACTATCAATACCGATTA
1 CCAATACTATCAATACCGATTA
56094997 ATATCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (23 bp):
CCAATACTATCAATACCGATTAT
Found at i:56095682 original size:57 final size:57
Alignment explanation
Indices: 56095611--56095718 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 57
56095601 TTAAAACATC
* *
56095611 ATATTCTATCATCAATCCGTAAGATCATACCAATTTCACAAAGTTCATTTCCTTGTG
1 ATATTCTATCATCAATCCATAAGATCATACCAATTTCACAAAATTCATTTCCTTGTG
* * * *
56095668 ATATTCTATTATCAATCTATAATATCATACCCATTTCACAAAATTCATTTC
1 ATATTCTATCATCAATCCATAAGATCATACCAATTTCACAAAATTCATTTC
56095719 AATGTTATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (57 bp):
ATATTCTATCATCAATCCATAAGATCATACCAATTTCACAAAATTCATTTCCTTGTG
Found at i:56098789 original size:39 final size:39
Alignment explanation
Indices: 56098705--56098857 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
56098695 TATGGTAACC
** * *
56098705 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
56098745 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56098784 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56098823 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
56098858 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:56098830 original size:78 final size:79
Alignment explanation
Indices: 56098686--56098856 Score: 272
Period size: 78 Copynumber: 2.2 Consensus size: 79
56098676 CTTCAGGACA
* **
56098686 TAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
56098751 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
* ** *
56098765 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
56098829 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
56098843 TAGCCCGGATATCA
1 TAGCCCGGATATCA
56098857 CTCGAACATT
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 54 0.64
79 31 0.36
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (79 bp):
TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
ATTGCCTTCGGGCT
Found at i:56111406 original size:40 final size:39
Alignment explanation
Indices: 56111361--56111490 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
56111351 CGGAATATAA
56111361 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
56111401 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56111441 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
56111481 CCGGATATAA
1 CCGGATATAA
56111491 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56111505 original size:40 final size:40
Alignment explanation
Indices: 56111377--56111528 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
56111367 ATAACCATGT
* * *
56111377 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
56111417 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
56111457 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
56111497 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
56111529 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:56111511 original size:80 final size:80
Alignment explanation
Indices: 56111377--56111526 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
56111367 ATAACCATGT
*
56111377 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
56111441 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
56111457 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
56111520 CCCGGAT
64 CCCGGAT
56111527 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:56113690 original size:29 final size:29
Alignment explanation
Indices: 56113626--56113691 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
56113616 CTTTCATTTA
* *
56113626 TTTCCCAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
56113655 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
56113683 TTTACTCAA
1 TTT-CTCAA
56113692 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:56117077 original size:27 final size:27
Alignment explanation
Indices: 56117021--56117077 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
56117011 ACGCCAAATT
*
56117021 GATAAAATAACTATTATGCCTCTATGA
1 GATAAAATAACTATTATGCCTCTATAA
*
56117048 GATAAAATGACTATTATGCC-CTTATAA
1 GATAAAATAACTATTATGCCTC-TATAA
56117075 GAT
1 GAT
56117078 GTATGACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (27 bp):
GATAAAATAACTATTATGCCTCTATAA
Found at i:56122166 original size:19 final size:17
Alignment explanation
Indices: 56122118--56122169 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
56122108 ATGGACTGTA
**
56122118 TGGGCCCCACGGACAAG
1 TGGGCCCCACGGGTAAG
56122135 TGGGCCCCACGGGTAAG
1 TGGGCCCCACGGGTAAG
56122152 TGGGCCCTACACGGGTAA
1 TGGGCCC--CACGGGTAA
56122170 ACCACACTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 22 0.71
19 9 0.29
ACGTcount: A:0.21, C:0.31, G:0.37, T:0.12
Consensus pattern (17 bp):
TGGGCCCCACGGGTAAG
Found at i:56125386 original size:40 final size:39
Alignment explanation
Indices: 56125221--56125404 Score: 133
Period size: 40 Copynumber: 4.6 Consensus size: 39
56125211 AAATTGAATG
* * *
56125221 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56125261 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* *
56125301 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACAT--T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-A-ATCGT
*
56125341 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56125380 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56125405 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 22, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
37 6 0.05
38 3 0.03
39 4 0.04
40 98 0.87
42 1 0.01
43 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56125387 original size:80 final size:79
Alignment explanation
Indices: 56125219--56125414 Score: 189
Period size: 80 Copynumber: 2.4 Consensus size: 79
56125209 AGAAATTGAA
* * * *
56125219 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATAACCGGGTTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-GGAAATTATAACCGGGCTAAGACCCGAAGG
* * *
56125284 CAATTGTGCTAGTGGC
64 CAATTGTGCAAATCGC
* * * *
56125300 T-ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACATTCTATCCGGGCTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCG-GAAATTATAACCGGGCTAAGACCCGAAGG
*
56125364 CATTTGTGCAAATCG-
64 CAATTGTGCAAATCGC
* * * *
56125379 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGG
1 TGATATCCGGGCTAAGACCCGAAGGCATT-GTGCGG
56125415 GTTACCATAA
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
79 6 0.06
80 87 0.93
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (79 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTGTGCGGAAATTATAACCGGGCTAAGACCCGAAGGCA
ATTGTGCAAATCGC
Found at i:56133283 original size:40 final size:39
Alignment explanation
Indices: 56133119--56133301 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56133109 AAATTGAATG
* *
56133119 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56133158 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56133198 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56133238 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56133277 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56133302 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.13
40 92 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56133284 original size:80 final size:80
Alignment explanation
Indices: 56133162--56133310 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56133152 GAAATTATAA
* * * *
56133162 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
56133227 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
56133242 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
56133306 GTGCG
65 GTGCG
56133311 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:56133326 original size:80 final size:81
Alignment explanation
Indices: 56133158--56133329 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
56133148 GCTGGAAATT
* * * *
56133158 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56133223 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56133239 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56133302 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
56133318 ATAACCGGGCTA
1 ATAACCGGGCTA
56133330 TGTCCCAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56137116 original size:21 final size:22
Alignment explanation
Indices: 56137083--56137126 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56137073 ATAAGATAAT
*
56137083 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
56137105 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
56137126 A
1 A
56137127 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:56137361 original size:15 final size:17
Alignment explanation
Indices: 56137321--56137358 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
56137311 AATATGTTGT
*
56137321 TAAAATGTAAAATAATA
1 TAAAATATAAAATAATA
56137338 TAATAATATAAAAT-ATA
1 TAA-AATATAAAATAATA
56137355 TAAA
1 TAAA
56137359 TATTATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 1 0.05
17 9 0.47
18 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAAATATAAAATAATA
Found at i:56139440 original size:28 final size:28
Alignment explanation
Indices: 56139371--56139471 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56139361 GACAAGATTG
* * * *
56139371 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56139401 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56139429 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56139458 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56139472 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56147359 original size:28 final size:28
Alignment explanation
Indices: 56147290--56147390 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56147280 GACAAGATTG
* * * *
56147290 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56147320 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56147348 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56147377 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56147391 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56150624 original size:206 final size:206
Alignment explanation
Indices: 56150251--56150806 Score: 826
Period size: 206 Copynumber: 2.7 Consensus size: 206
56150241 AAATTTGCTT
* *
56150251 CTTCGATTTATTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTGAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * * *
56150316 GCGAAAACCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * ** *
56150381 GGATCTGCTTCAGGCTAAGCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATG
131 GGATCTGCTTCAGGATAAACATCTAAAGGCCAGATCTGCTATGTATCTGCCCTCCATCGAATATG
56150446 GAGACGCCAAA
196 GAGACGCCAAA
* *
56150457 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
56150522 GTGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * * *
56150586 TGGATCTGCTTTAGTATAAACATCTAAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATAT
130 TGGATCTGCTTCAGGATAAACATCTAAAGGCCAGATCTGCTATGTATCTGCCCTCCATCGAATAT
56150651 GGAGACGCCAAA
195 GGAGACGCCAAA
* * * * *
56150663 CTTTGATTTGTTTTCTGACAATACAAATATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
*
56150728 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
56150793 AGATCTTGCTTCAG
131 GGATC-TGCTTCAG
56150807 CCAGATCTGC
Statistics
Matches: 312, Mismatches: 35, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
205 1 0.00
206 303 0.97
207 8 0.03
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGGATAAACATCTAAAGGCCAGATCTGCTATGTATCTGCCCTCCATCGAATATG
GAGACGCCAAA
Found at i:56151700 original size:1 final size:1
Alignment explanation
Indices: 56151696--56151800 Score: 93
Period size: 1 Copynumber: 105.0 Consensus size: 1
56151686 CTCTTCTCTC
* ** * * * * *
56151696 TTTTTCTTTTTTCCTTTTTTTTGTTTTTTGTTTTTTTTTTTTTGTTTTTTTTTGTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
56151761 TTTTTTTTTTTTTATTTTCTATTTGTTATTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
56151801 GATTTTCAAA
Statistics
Matches: 80, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.03, C:0.04, G:0.06, T:0.88
Consensus pattern (1 bp):
T
Found at i:56151732 original size:32 final size:32
Alignment explanation
Indices: 56151696--56151800 Score: 117
Period size: 31 Copynumber: 3.3 Consensus size: 32
56151686 CTCTTCTCTC
*
56151696 TTTTTCTTTTTTCCTTTTTTTTG-TTTTTTGT
1 TTTTTTTTTTTTCCTTTTTTTTGTTTTTTTGT
**
56151727 TTTTTTTTTTTTGTTTTTTTTTGTTTTTTTGT
1 TTTTTTTTTTTTCCTTTTTTTTGTTTTTTTGT
* * * *
56151759 TTTTTTTTTTTT--TTTATTTTCTATTTGTTAT
1 TTTTTTTTTTTTCCTTTTTTTTGT-TTTTTTGT
56151790 TTTTTTTTTTT
1 TTTTTTTTTTT
56151801 GATTTTCAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
30 8 0.12
31 37 0.57
32 20 0.31
ACGTcount: A:0.03, C:0.04, G:0.06, T:0.88
Consensus pattern (32 bp):
TTTTTTTTTTTTCCTTTTTTTTGTTTTTTTGT
Found at i:56162811 original size:21 final size:22
Alignment explanation
Indices: 56162778--56162821 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56162768 ATAAGATAAT
*
56162778 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
56162800 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
56162821 A
1 A
56162822 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:56167469 original size:25 final size:25
Alignment explanation
Indices: 56167436--56167485 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
56167426 AAATGTTAGG
56167436 TATATATGAGTGCTCAAGTAAAAAA
1 TATATATGAGTGCTCAAGTAAAAAA
56167461 TATATATGAGTGCTCAAGTAAAAAA
1 TATATATGAGTGCTCAAGTAAAAAA
56167486 CATCCTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (25 bp):
TATATATGAGTGCTCAAGTAAAAAA
Found at i:56169499 original size:34 final size:33
Alignment explanation
Indices: 56169452--56169521 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
56169442 TTAGTCGCAA
*
56169452 TATCATGTAGGCCTTAACCCAA-TACAGTATCAG
1 TATCATGTAGGCCTTAACCCAACT-CAGTAACAG
* *
56169485 TATCAGTGTGGGCCTTAGCCCAACTCAGTAACAG
1 TATCA-TGTAGGCCTTAACCCAACTCAGTAACAG
56169519 TAT
1 TAT
56169522 TAGAAATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 5 0.16
34 26 0.81
35 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (33 bp):
TATCATGTAGGCCTTAACCCAACTCAGTAACAG
Found at i:56186036 original size:2 final size:2
Alignment explanation
Indices: 56186029--56186056 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56186019 ACCCAAAATG
56186029 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56186057 AGTTAAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56191394 original size:43 final size:41
Alignment explanation
Indices: 56191238--56191399 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 41
56191228 TAGGATTCCG
* * *
56191238 ATATGTGATTTCATGTAAGACCATGTCTAGGACATTGGCATC
1 ATATTTGATTACATGTAAGACCATGTCTGGGACA-TGGCATC
* *
56191280 A-ATTTGAGATTAACGTGTAAGACCATATCTGGGACATCGGCATC
1 ATATTT--GATT-ACATGTAAGACCATGTCTGGGACAT-GGCATC
* * * *
56191324 ATATTTGATTTCGTGTAAGATCC-TGTCTGGGATAGTGACATC
1 ATATTTGATTACATGTAAGA-CCATGTCTGGGACA-TGGCATC
*
56191366 GATATTTGATTACATGTAAGACAATGTCTGGGAC
1 -ATATTTGATTACATGTAAGACCATGTCTGGGAC
56191400 GTTGGCATTG
Statistics
Matches: 98, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
41 3 0.03
42 25 0.26
43 39 0.40
44 27 0.28
45 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (41 bp):
ATATTTGATTACATGTAAGACCATGTCTGGGACATGGCATC
Found at i:56202494 original size:49 final size:49
Alignment explanation
Indices: 56202430--56202644 Score: 412
Period size: 49 Copynumber: 4.4 Consensus size: 49
56202420 TACATATATG
56202430 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56202479 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56202528 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56202577 TGTGATAAGGCCCAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56202626 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
56202645 TAATGCAAGA
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 162 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:56202801 original size:37 final size:37
Alignment explanation
Indices: 56202746--56202904 Score: 282
Period size: 37 Copynumber: 4.3 Consensus size: 37
56202736 GGAATATGTT
* * *
56202746 CCGGGTGAGACCCAATGACTACGTGTGGAGATTATAA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56202783 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56202820 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56202857 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56202894 CCGGGTAAGAC
1 CCGGGTAAGAC
56202905 TTCTTTTATA
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 118 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56205020 original size:29 final size:29
Alignment explanation
Indices: 56204988--56205206 Score: 357
Period size: 29 Copynumber: 7.6 Consensus size: 29
56204978 CGTTAACCGA
56204988 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
56205017 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56205046 GCACTATGTGTGCGAGATCAGTAATCAAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
* *
56205075 GCACTATGTGTGCGAGATCAGTGATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
* *
56205104 GCACTATGTGTGCAAGATCAGTAATCAAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
* *
56205133 GAACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56205162 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56205191 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
56205207 TTTTTCAACA
Statistics
Matches: 176, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 176 1.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATCGAG
Found at i:56208769 original size:49 final size:49
Alignment explanation
Indices: 56208705--56208870 Score: 323
Period size: 49 Copynumber: 3.4 Consensus size: 49
56208695 TACATATATG
56208705 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56208754 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56208803 TGTGATAAGGCCCAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56208852 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
56208871 TAATGCAAGA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 115 1.00
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:56209058 original size:37 final size:37
Alignment explanation
Indices: 56208972--56209126 Score: 255
Period size: 37 Copynumber: 4.3 Consensus size: 37
56208962 GGAATATGTT
* *
56208972 CCGGGTGAGACCCAATGACTACGTGTGGAGA-T-T-A
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56209006 CC-GGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56209042 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56209079 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56209116 CCGGGTAAGAC
1 CCGGGTAAGAC
56209127 TTCTTTTATA
Statistics
Matches: 114, Mismatches: 3, Indels: 5
0.93 0.02 0.04
Matches are distributed among these distances:
33 26 0.23
34 3 0.03
35 1 0.01
36 3 0.03
37 81 0.71
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56211243 original size:29 final size:29
Alignment explanation
Indices: 56211211--56211429 Score: 366
Period size: 29 Copynumber: 7.6 Consensus size: 29
56211201 CGTTAACCGA
56211211 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56211240 GCACTATGTGTGCGAGATCAGTAATCAAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56211269 GCACTATGTGTGCGAGATCAGTAATCAAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
* *
56211298 GCACTATGTGTGCGAGATCAGTGATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56211327 GCACTATGTGTGCGAGATCAGTAATCAAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56211356 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56211385 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56211414 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
56211430 TTTTTCAACA
Statistics
Matches: 180, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 180 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATCGAG
Found at i:56214991 original size:49 final size:49
Alignment explanation
Indices: 56214927--56215141 Score: 412
Period size: 49 Copynumber: 4.4 Consensus size: 49
56214917 TACATATATG
56214927 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56214976 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56215025 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
56215074 TGTGATAAGGCCCAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
56215123 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
56215142 TAATGCAAGA
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 162 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:56215293 original size:37 final size:37
Alignment explanation
Indices: 56215243--56215327 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
56215233 GGAATATGTT
*
56215243 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56215280 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56215317 CCGGGTAAGAC
1 CCGGGTAAGAC
56215328 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56217441 original size:29 final size:29
Alignment explanation
Indices: 56217409--56217504 Score: 174
Period size: 29 Copynumber: 3.3 Consensus size: 29
56217399 CGTTAACCGA
56217409 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56217438 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
56217467 GCACTATGTGTGTGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
56217496 GCACTATGT
1 GCACTATGT
56217505 AGATGGACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATCGAG
Found at i:56217448 original size:58 final size:58
Alignment explanation
Indices: 56217377--56217504 Score: 170
Period size: 58 Copynumber: 2.2 Consensus size: 58
56217367 CGAATGATTA
* *
56217377 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAAA-TCAG-TAACCGAGGCACTATGTGTGCGAGATCAGTAATC
* ** *
56217435 GAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATGTGTGTGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATC
56217493 GAGGCACTATGT
1 GAGGCACTATGT
56217505 AGATGGACAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
57 5 0.08
58 55 0.89
59 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (58 bp):
GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:56222819 original size:18 final size:17
Alignment explanation
Indices: 56222796--56222829 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
56222786 TTGGGCCAAA
56222796 ATGGGCCGTGTGGGCCCT
1 ATGGG-CGTGTGGGCCCT
*
56222814 ATGGGCTTGTGGGCCC
1 ATGGGCGTGTGGGCCC
56222830 CACACGGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.06, C:0.26, G:0.44, T:0.24
Consensus pattern (17 bp):
ATGGGCGTGTGGGCCCT
Found at i:56226193 original size:33 final size:33
Alignment explanation
Indices: 56226151--56226216 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
56226141 GCATGTAGTA
* *
56226151 ACAGTCTGGGCCTAAGCCCTATTCAGTATCAGT
1 ACAGTCTGGGCCTAAGCCCTATACAGTAACAGT
*
56226184 ACAGTCTGGGCCTTAGCCCTATACAGTAACAGT
1 ACAGTCTGGGCCTAAGCCCTATACAGTAACAGT
56226217 GTAGTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (33 bp):
ACAGTCTGGGCCTAAGCCCTATACAGTAACAGT
Found at i:56226397 original size:27 final size:27
Alignment explanation
Indices: 56226367--56226421 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
56226357 AGCTGCCAAA
*
56226367 AATAGTAAATGTGGCAAAGCCACCAGT
1 AATAGTAAATGTGACAAAGCCACCAGT
* * *
56226394 AATAGTGAATGTGACATAGTCACCAGT
1 AATAGTAAATGTGACAAAGCCACCAGT
56226421 A
1 A
56226422 CAGTACTTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (27 bp):
AATAGTAAATGTGACAAAGCCACCAGT
Found at i:56226592 original size:27 final size:27
Alignment explanation
Indices: 56226562--56226812 Score: 308
Period size: 27 Copynumber: 9.4 Consensus size: 27
56226552 GGGCACAATC
* *
56226562 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
56226589 GTCATTTTACCCTATAGGGGCATTATA
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
56226616 GTTATTTTACCATACA-GGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
56226642 ATCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
56226669 ATCATTTTACCTTACAGGGGCGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
56226696 ATCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
56226723 ATCATTTTACCCTACAGAAGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
56226750 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
56226777 GTCATTTTACCCTACA-GGGCAGTACG
1 GTCATTTTACCCTACAGGGGCATTACG
56226803 GTCATTTTAC
1 GTCATTTTAC
56226813 GGTCATTTTA
Statistics
Matches: 192, Mismatches: 31, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 37 0.19
27 155 0.81
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:56226624 original size:54 final size:54
Alignment explanation
Indices: 56226562--56226970 Score: 469
Period size: 54 Copynumber: 7.4 Consensus size: 54
56226552 GGGCACAATC
* * **
56226562 GTCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTATAGGGGCATTATA
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* * * *
56226616 GTTATTTTACCATACA-GGGTATTACGATCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* * ** * * **
56226669 ATCATTTTACCTTACAGGGGCGTTACGATCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* ** * *
56226723 ATCATTTTACCCTACAGAAGCATTACGGTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
*
56226777 GTCATTTTACCCTACAGGGCAGTACGGTCATTTTACGGTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACA--G--G---GGT-A--TTACGGTCATTTTACCCTATAGGGGTATTACG
* *
56226841 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAAGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* *
56226895 GTCATTTTACCCTACAGGGGCATTACGGTCACTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* *
56226949 GTCAATTTACCTTACAGGGGTA
1 GTCATTTTACCCTACAGGGGTA
56226971 CCCTATAGGG
Statistics
Matches: 312, Mismatches: 32, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
53 47 0.15
54 208 0.67
56 2 0.01
57 3 0.01
60 1 0.00
61 1 0.00
62 2 0.01
64 48 0.15
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
Found at i:56226755 original size:81 final size:80
Alignment explanation
Indices: 56226563--56226967 Score: 452
Period size: 81 Copynumber: 4.9 Consensus size: 80
56226553 GGCACAATCG
* * * * ** * *
56226563 TCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTATAGGGGCATTATAGTTATTTTACCA
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
*
56226628 TACAGGGTATTACGA
66 TACAGGGCATTACGA
* * * ** *
56226643 TCATTTTACCCTATAGGGGCATTACGATCATTTTACCTTACAGGGGCGTTACGATCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
56226708 TACAGGGACATTACGA
66 TACAGGG-CATTACGA
**
56226724 TCATTTTACCCTACAGAAGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
*
56226789 TACAGGGCAGTACGGTCATTTTACGG
66 T--A---CAG---GG-CA--TTACGA
*
56226815 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
* *
56226880 TATAAGGGTATTAC-A
66 TA-CAGGGCATTACGA
* * *
56226895 GTCATTTTACCCTACAGGGGCATTACGGTCACTTTACCCTATAGGGGTATTACGGTCAATTTACC
1 -TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
*
56226960 TTACAGGG
65 CTACAGGG
56226968 GTACCCTATA
Statistics
Matches: 277, Mismatches: 36, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
80 64 0.23
81 131 0.47
83 2 0.01
84 2 0.01
86 3 0.01
87 2 0.01
89 5 0.02
91 68 0.25
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (80 bp):
TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
TACAGGGCATTACGA
Found at i:56226815 original size:11 final size:11
Alignment explanation
Indices: 56226799--56226823 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56226789 TACAGGGCAG
56226799 TACGGTCATTT
1 TACGGTCATTT
56226810 TACGGTCATTT
1 TACGGTCATTT
56226821 TAC
1 TAC
56226824 CCTACAGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (11 bp):
TACGGTCATTT
Found at i:56226822 original size:37 final size:38
Alignment explanation
Indices: 56226772--56226850 Score: 133
Period size: 37 Copynumber: 2.1 Consensus size: 38
56226762 TACAGGGGTA
56226772 TTACGGTCATTTTACCCTACA-GGGCAGTACGGTCATT
1 TTACGGTCATTTTACCCTACAGGGGCAGTACGGTCATT
* *
56226809 TTACGGTCATTTTACCCTACAGGGGTATTACGGTCATT
1 TTACGGTCATTTTACCCTACAGGGGCAGTACGGTCATT
56226847 TTAC
1 TTAC
56226851 CCTACAGGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 21 0.54
38 18 0.46
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (38 bp):
TTACGGTCATTTTACCCTACAGGGGCAGTACGGTCATT
Found at i:56226847 original size:27 final size:27
Alignment explanation
Indices: 56226809--56226970 Score: 252
Period size: 27 Copynumber: 6.0 Consensus size: 27
56226799 TACGGTCATT
56226809 TTACGGTCATTTTACCCTACAGGGGTA
1 TTACGGTCATTTTACCCTACAGGGGTA
56226836 TTACGGTCATTTTACCCTACAGGGGTA
1 TTACGGTCATTTTACCCTACAGGGGTA
* *
56226863 TTACGGTCATTTTACCCTATAAGGGTA
1 TTACGGTCATTTTACCCTACAGGGGTA
* *
56226890 TTACAGTCATTTTACCCTACAGGGGCA
1 TTACGGTCATTTTACCCTACAGGGGTA
* *
56226917 TTACGGTCACTTTACCCTATAGGGGTA
1 TTACGGTCATTTTACCCTACAGGGGTA
* *
56226944 TTACGGTCAATTTACCTTACAGGGGTA
1 TTACGGTCATTTTACCCTACAGGGGTA
56226971 CCCTATAGGG
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
TTACGGTCATTTTACCCTACAGGGGTA
Found at i:56226873 original size:91 final size:89
Alignment explanation
Indices: 56226724--56227026 Score: 354
Period size: 81 Copynumber: 3.4 Consensus size: 89
56226714 GACATTACGA
**
56226724 TCATTTTACCCTACAGAAGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
*
56226789 TACAGGGCAGTACGGTCATTTTACGG
66 TACAGGG-AGTACGGT-ATTTTACAG
*
56226815 TCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
*
56226880 TATA---AG---GGTA--TTACAG
66 TACAGGGAGTACGGTATTTTACAG
* * * *
56226896 TCATTTTACCCTACAGGGGCATTACGGTCACTTTACCCTATAGGGGTATTACGGTCAATTTACCT
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
**
56226961 TACAGGG-GTACCCTATAGGGGTATTACAG
66 TACAGGGAGTACGGTAT-----T-TTACAG
* *
56226990 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACC
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACC
56227027 TATTTTGGGG
Statistics
Matches: 182, Mismatches: 16, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
81 68 0.37
83 2 0.01
84 3 0.02
86 2 0.01
87 2 0.01
91 65 0.36
94 40 0.22
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (89 bp):
TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
TACAGGGAGTACGGTATTTTACAG
Found at i:56226899 original size:118 final size:119
Alignment explanation
Indices: 56226691--56226931 Score: 367
Period size: 118 Copynumber: 2.0 Consensus size: 119
56226681 TACAGGGGCG
56226691 TTACGATCATTTTACCCTACAGGGACATTACGATCATTTTACCCTACAGAAGCATTACGGTCATT
1 TTACGATCATTTTACCCTACAGGGACATTACGATCATTTTACCCTACAGAAGCATTACGGTCATT
* * *
56226756 TTACCCTACAGGGGTATTACGGTCATTTTACCCTACA-GGGCAGTACGGTCATT
66 TTACCCTACAAGGGTATTACAGTCATTTTACCCTACAGGGGCAGTACGGTCACT
* ** * ** *
56226809 TTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATT
1 TTACGATCATTTTACCCTACAGGGACATTACGATCATTTTACCCTACAGAAGCATTACGGTCATT
* *
56226874 TTACCCTATAAGGGTATTACAGTCATTTTACCCTACAGGGGCATTACGGTCACT
66 TTACCCTACAAGGGTATTACAGTCATTTTACCCTACAGGGGCAGTACGGTCACT
56226928 TTAC
1 TTAC
56226932 CCTATAGGGG
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
118 92 0.84
119 18 0.16
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (119 bp):
TTACGATCATTTTACCCTACAGGGACATTACGATCATTTTACCCTACAGAAGCATTACGGTCATT
TTACCCTACAAGGGTATTACAGTCATTTTACCCTACAGGGGCAGTACGGTCACT
Found at i:56226984 original size:40 final size:40
Alignment explanation
Indices: 56226929--56227010 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
56226919 ACGGTCACTT
* *
56226929 TACCCTATAGGGGTATTACGGTCAATTTACCTTACAGGGG
1 TACCCTATAGGGGTATTACAGTCAATTTACCCTACAGGGG
*
56226969 TACCCTATAGGGGTATTACAGTCATTTTACCCTACAGGGG
1 TACCCTATAGGGGTATTACAGTCAATTTACCCTACAGGGG
56227009 TA
1 TA
56227011 TTACAGTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TACCCTATAGGGGTATTACAGTCAATTTACCCTACAGGGG
Found at i:56227001 original size:27 final size:27
Alignment explanation
Indices: 56226969--56227026 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
56226959 CTTACAGGGG
*
56226969 TACCCTATAGGGGTATTACAGTCATTT
1 TACCCTACAGGGGTATTACAGTCATTT
56226996 TACCCTACAGGGGTATTACAGTCATTT
1 TACCCTACAGGGGTATTACAGTCATTT
56227023 TACC
1 TACC
56227027 TATTTTGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
TACCCTACAGGGGTATTACAGTCATTT
Found at i:56227010 original size:67 final size:67
Alignment explanation
Indices: 56226902--56227027 Score: 189
Period size: 67 Copynumber: 1.9 Consensus size: 67
56226892 ACAGTCATTT
* * *
56226902 TACCCTACAGGGGCATTACGGTCACTTTACCCTATAGGGGTATTACGGTCAATTTACCTTACAGG
1 TACCCTACAGGGGCATTACAGTCACTTTACCCTACAGGGGTATTACAGTCAATTTACCTTACAGG
56226967 GG
66 GG
* * * *
56226969 TACCCTATAGGGGTATTACAGTCATTTTACCCTACAGGGGTATTACAGTCATTTTACCT
1 TACCCTACAGGGGCATTACAGTCACTTTACCCTACAGGGGTATTACAGTCAATTTACCT
56227028 ATTTTGGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (67 bp):
TACCCTACAGGGGCATTACAGTCACTTTACCCTACAGGGGTATTACAGTCAATTTACCTTACAGG
GG
Found at i:56228350 original size:12 final size:12
Alignment explanation
Indices: 56228333--56228358 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56228323 GGGAATTATG
56228333 GAGAAGAGAAAA
1 GAGAAGAGAAAA
56228345 GAGAAGAGAAAA
1 GAGAAGAGAAAA
56228357 GA
1 GA
56228359 AAAGCTTCGG
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
GAGAAGAGAAAA
Found at i:56232860 original size:27 final size:27
Alignment explanation
Indices: 56232766--56232840 Score: 132
Period size: 27 Copynumber: 2.8 Consensus size: 27
56232756 CTAAATTGAC
*
56232766 AAAATGACTATTTTGCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTAAGTGGT
*
56232793 AAAATGACTGTTTTGCCCTTAAGTGGT
1 AAAATGACTATTTTGCCCTTAAGTGGT
56232820 AAAATGACTATTTTGCCCTTA
1 AAAATGACTATTTTGCCCTTA
56232841 CGTGTTAGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTAAGTGGT
Found at i:56237561 original size:40 final size:39
Alignment explanation
Indices: 56237470--56237620 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
56237460 ATAACCACGT
* *
56237470 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
56237510 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
56237550 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
56237590 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
56237621 TCATTCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 85 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:56237604 original size:80 final size:80
Alignment explanation
Indices: 56237470--56237619 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
56237460 ATAACCACGT
* *
56237470 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
56237534 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
56237550 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
56237613 CCCGGAT
64 CCCGGAT
56237620 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:56243634 original size:16 final size:16
Alignment explanation
Indices: 56243613--56243647 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
56243603 TAATGGCTGA
56243613 ATATGAAAAGTCTAAC
1 ATATGAAAAGTCTAAC
56243629 ATATGAAAAGTCTAAC
1 ATATGAAAAGTCTAAC
56243645 ATA
1 ATA
56243648 GGCATTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (16 bp):
ATATGAAAAGTCTAAC
Found at i:56248062 original size:21 final size:21
Alignment explanation
Indices: 56248019--56248064 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
56248009 GTTTTTCATG
* *
56248019 CAAGAAGCTTCTAGGGACGTT
1 CAAGAAGCTTCTAAGGAAGTT
56248040 CAAGAAGCTTC-AAGGAAGTTT
1 CAAGAAGCTTCTAAGGAAG-TT
56248061 CAAG
1 CAAG
56248065 GCAATTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (21 bp):
CAAGAAGCTTCTAAGGAAGTT
Found at i:56256536 original size:21 final size:21
Alignment explanation
Indices: 56256493--56256538 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
56256483 GTTTTTCATG
* *
56256493 CAAGAAGCTTCTAGGGATGTT
1 CAAGAAGCTTCAAGGAATGTT
56256514 CAAGAAGCTTCAAGGAA-GTTT
1 CAAGAAGCTTCAAGGAATG-TT
56256535 CAAG
1 CAAG
56256539 GAAATTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (21 bp):
CAAGAAGCTTCAAGGAATGTT
Found at i:56258490 original size:138 final size:138
Alignment explanation
Indices: 56258132--56258697 Score: 798
Period size: 138 Copynumber: 4.1 Consensus size: 138
56258122 GCGAACATAG
* * *
56258132 ATATATTTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
* * * * * * * *
56258197 AATATAAATAGTTATATTAACTAATTT-TGTTCAAAATATAAAATGCATGGAAAGTAATATTCTT
66 AATATAAATAATTATATTAATTAATTTCAGATCAAAATAT-AAAGGCATGAAAATTAATATTATT
*
56258261 TTGGAATGA
130 TTGGAAAGA
56258270 ATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTA
1 ATATAATT-A-ATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTA
* *
56258335 TTAATATAAACAATTATATTAATTAATTTCAG-TCAAAATATAAAGGACATGAAAATCAATATTA
64 TTAATATAAATAATTATATTAATTAATTTCAGATCAAAATATAAAGG-CATGAAAATTAATATTA
56258399 TTTTGGAAAGA
128 TTTTGGAAAGA
* * **
56258410 ATATAATTAATATATGAACTTGATTCATACAAAATATTAATTGCATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
* ** *
56258475 AATATAAATAGTTATATTAATTAATTTCAG-TCAAAATATATTTGGCATGGAAATTAATATTATT
66 AATATAAATAATTATATTAATTAATTTCAGATCAAAATATA-AAGGCATGAAAATTAATATTATT
56258539 TTGGAAAGA
130 TTGGAAAGA
* * *
56258548 ATATATTTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACTAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
* *
56258613 AATATAAATAATTATATTAATTAATTTC-GATCAAAATATAAAAGACATGAAAATTAATATTCTT
66 AATATAAATAATTATATTAATTAATTTCAGATCAAAATAT-AAAGGCATGAAAATTAATATTATT
56258677 TTGGAAAGA
130 TTGGAAAGA
56258686 ATATAATATAAT
1 ATATAAT-TAAT
56258698 CCTATATTCT
Statistics
Matches: 385, Mismatches: 35, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
137 1 0.00
138 252 0.65
139 13 0.03
140 118 0.31
141 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
AATATAAATAATTATATTAATTAATTTCAGATCAAAATATAAAGGCATGAAAATTAATATTATTT
TGGAAAGA
Found at i:56258510 original size:67 final size:66
Alignment explanation
Indices: 56258161--56258651 Score: 187
Period size: 67 Copynumber: 7.1 Consensus size: 66
56258151 TTGATTTATA
* * * * *
56258161 CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAATAGTTATATTAACTAATTT-T
1 CAAAATATTAATTGCATATATTTTA-CTAATTTATTAATATAAATAATTATATTAATTAATTTCA
56258225 GTT
65 G-T
* * * ** * ** * * *
56258228 CAAAATATAAAATGCATGGAAAGTAATATTCTTTTGGAATGAATATAATTAATATATATGAATTT
1 CAAAATATTAATTGCAT--ATA-TTTTACTAATTT---ATTAATATAAATAAT-TATATTAA-TT
*
56258293 GA-TTCA-T
58 AATTTCAGT
* * *
56258300 ACAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTC
1 -CAAAATATTAATTGCATATATTTTA-CTAATTTATTAATATAAATAATTATATTAATTAATTTC
56258365 AGT
64 AGT
** * ** * * ** * *
56258368 CAAAATA-TAAAGGACATGAAAATCAATATTATTTTGGAAAGAATATAATTAA-TATATGAACTT
1 CAAAATATTAATTG-CAT--ATAT-TTTACTAATTT---ATTAATATAAATAATTATATTAA-TT
*
56258431 GA-TTCA-T
58 AATTTCAGT
*
56258438 ACAAAATATTAATTGCATATATTTTACTGAATTTATTAATATAAATAGTTATATTAATTAATTTC
1 -CAAAATATTAATTGCATATATTTTACT-AATTTATTAATATAAATAATTATATTAATTAATTTC
56258503 AGT
64 AGT
* * * * * ** ** *
56258506 CAAAATA-TATTTGGCATGGAAATTAATATTATTTTGGAAAGAATATATTTAA-TATATGAATTT
1 CAAAATATTAATT-GCAT--ATATT-TTACTAATTT---ATTAATATAAATAATTATATTAA-TT
*
56258569 GA-TTCA-T
58 AATTTCAGT
* *
56258576 AAAAAATATTAATTGTATATATTTTACTAAATTTATTAATATAAATAATTATATTAATTAATTTC
1 -CAAAATATTAATTGCATATATTTTACT-AATTTATTAATATAAATAATTATATTAATTAATTTC
56258641 -GAT
64 AG-T
56258644 CAAAATAT
1 CAAAATAT
56258652 AAAAGACATG
Statistics
Matches: 296, Mismatches: 86, Indels: 84
0.64 0.18 0.18
Matches are distributed among these distances:
66 37 0.12
67 73 0.25
68 21 0.07
69 35 0.12
70 13 0.04
71 46 0.16
72 46 0.16
73 23 0.08
74 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (66 bp):
CAAAATATTAATTGCATATATTTTACTAATTTATTAATATAAATAATTATATTAATTAATTTCAG
T
Found at i:56258689 original size:276 final size:278
Alignment explanation
Indices: 56258132--56258697 Score: 890
Period size: 276 Copynumber: 2.0 Consensus size: 278
56258122 GCGAACATAG
* * * *
56258132 ATATATTTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAACTTGATTCATACAAAATATTAATTGCATATATTTTACCGAATTTATT
* *
56258197 AATATAAATAGTTATATTAACTAATTTTGTTCAAAATATAAAATGCATGGAAAGTAATATTCTTT
66 AATATAAATAGTTATATTAACTAATTTAGTTCAAAATATAAAATGCATGGAAAGTAATATTATTT
* *
56258262 TGGAATGAATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAC
131 TGGAAAGAATATAATTAATATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTAC
*
56258327 CAAATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAGGACATGAAAATC
196 CAAATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATC
56258392 AATATTATTTTGGAAAGA
261 AATATTATTTTGGAAAGA
*
56258410 ATATAATTAATATATGAACTTGATTCATACAAAATATTAATTGCATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAACTTGATTCATACAAAATATTAATTGCATATATTTTACCGAATTTATT
* ** *
56258475 AATATAAATAGTTATATTAATTAATTTCAG-TCAAAATAT-ATTTGGCATGGAAATTAATATTAT
66 AATATAAATAGTTATATTAACTAATTT-AGTTCAAAATATAAAAT-GCATGGAAAGTAATATTAT
*
56258538 TTTGGAAAGAATAT-ATTTA-ATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTT
129 TTTGGAAAGAATATAATTAATATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTT
* *
56258601 ACTAAATTTATTAATATAAATAATTATATTAATTAATTTC-GATCAAAATATAAAAGACATGAAA
194 ACCAAATTTATTAATATAAACAATTATATTAATTAATTTCAG-TCAAAATATAAAAGACATGAAA
* *
56258665 ATTAATATTCTTTTGGAAAGA
258 ATCAATATTATTTTGGAAAGA
56258686 ATATAATATAAT
1 ATATAAT-TAAT
56258698 CCTATATTCT
Statistics
Matches: 265, Mismatches: 19, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
275 1 0.00
276 128 0.48
277 10 0.04
278 125 0.47
279 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (278 bp):
ATATAATTAATATATGAACTTGATTCATACAAAATATTAATTGCATATATTTTACCGAATTTATT
AATATAAATAGTTATATTAACTAATTTAGTTCAAAATATAAAATGCATGGAAAGTAATATTATTT
TGGAAAGAATATAATTAATATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTAC
CAAATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATC
AATATTATTTTGGAAAGA
Found at i:56261124 original size:27 final size:27
Alignment explanation
Indices: 56261094--56261430 Score: 353
Period size: 27 Copynumber: 12.5 Consensus size: 27
56261084 TGCCCTCAAA
* *
56261094 TTGTAAAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* *
56261121 TTGTAAAAGTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* *
56261148 TTATAAAATTACAAAAATACCCCT-AGT
1 TTGTAAAATTACCAAAATACCCCTGA-T
56261175 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
56261202 TTTTGAAATTACCAAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT-GAT
* *
56261229 TTGTAAAATTACCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
**
56261256 TTACAAAATTACC-AAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
56261282 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
* * * *
56261309 TTATGAAATTACCAAAATA-ACCTTAGT
1 TTGTAAAATTACCAAAATACCCCTGA-T
* **
56261336 TTGCAAAATTACTGAAATA-CCCTCGAT
1 TTGTAAAATTACCAAAATACCCCT-GAT
* *
56261363 TTGTAAAATTACTAAAATACCCC-GAC
1 TTGTAAAATTACCAAAATACCCCTGAT
* *
56261389 TTGTAAAAATTACCAAAGTACCCCTAAT
1 TTGT-AAAATTACCAAAATACCCCTGAT
* *
56261417 TTATAGAATTACCA
1 TTGTAAAATTACCA
56261431 TTTTACCCTC
Statistics
Matches: 258, Mismatches: 42, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
26 36 0.14
27 210 0.81
28 12 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:56261480 original size:27 final size:27
Alignment explanation
Indices: 56261450--56261573 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
56261440 CGATTTACAA
*
56261450 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
56261477 AATTATCGAAATACCCCTCTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
56261504 AATTATCGAAATACCCTTGTAGAGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
56261531 AATTA-CTGAAATACCTCTATAGGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
* *
56261558 AATTACCGAGATACCC
1 AATTATCGAAATACCC
56261574 TTATCGGGTA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 82 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:56261582 original size:27 final size:27
Alignment explanation
Indices: 56261457--56261591 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
56261447 CAAAATTATT
* * *
56261457 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTATAGGGTAGAATTACC
* * *
56261484 GAAATACCCCTCTAGGGTAGAATTATC
1 GAAATACCCTTATAGGGTAGAATTACC
* * *
56261511 GAAATACCCTTGTAGAGTAGAATTACT
1 GAAATACCCTTATAGGGTAGAATTACC
56261538 GAAATA-CCTCTATAGGGTAGAATTACC
1 GAAATACCCT-TATAGGGTAGAATTACC
* * *
56261565 GAGATACCCTTATCGGGTAAAATTACC
1 GAAATACCCTTATAGGGTAGAATTACC
56261592 ATTTTGCCCT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.03
27 88 0.94
28 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
GAAATACCCTTATAGGGTAGAATTACC
Found at i:56261589 original size:54 final size:55
Alignment explanation
Indices: 56261457--56261590 Score: 164
Period size: 54 Copynumber: 2.5 Consensus size: 55
56261447 CAAAATTATT
* * * *
56261457 GAAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCCTCTAGGGTAGAATTATC
1 GAAATACCCTTATAGGGTAGAATTACTCGAAATACCCCTATAGGGTAGAATTACC
* * *
56261511 GAAATACCCTTGTAGAGTAGAATTACT-GAAATACCTCTATAGGGTAGAATTACC
1 GAAATACCCTTATAGGGTAGAATTACTCGAAATACCCCTATAGGGTAGAATTACC
* * *
56261565 GAGATACCCTTATCGGGTAAAATTAC
1 GAAATACCCTTATAGGGTAGAATTAC
56261591 CATTTTGCCC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
54 68 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (55 bp):
GAAATACCCTTATAGGGTAGAATTACTCGAAATACCCCTATAGGGTAGAATTACC
Found at i:56261830 original size:25 final size:25
Alignment explanation
Indices: 56261796--56261865 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
56261786 AGGAAGTGCT
*
56261796 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
56261821 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
56261846 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56261866 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:56261878 original size:24 final size:24
Alignment explanation
Indices: 56261795--56261878 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
56261785 GAGGAAGTGC
*
56261795 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
56261820 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
56261844 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
56261868 TAAAAGAGGCT
1 TAAAAG-GGCT
56261879 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 38 0.75
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:56263297 original size:29 final size:29
Alignment explanation
Indices: 56263253--56263365 Score: 176
Period size: 29 Copynumber: 3.9 Consensus size: 29
56263243 GAAAGCATGT
56263253 ATATGAATGTGATTTGGG-CTAAATGGGCC
1 ATATGAATGTGATTTGGGCCT-AATGGGCC
*
56263282 ACATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
56263311 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
56263340 ATATGAATGAGA-TTAGGCCTAATGGG
1 ATATGAATGTGATTTGGGCCTAATGGG
56263366 TTATATGCAT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
28 13 0.16
29 64 0.81
30 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:56264665 original size:45 final size:45
Alignment explanation
Indices: 56264591--56264719 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 45
56264581 TACAGACATC
* * *
56264591 ATGTCATAGTGTTTTTCAAAC-ATTTTCTTATTCAATTTTGGTATA
1 ATGTCATAGTGTCTTTC-AACTATGTTCTTATTCAATTTTAGTATA
* *
56264636 ATGTCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTCCAGTATA
1 ATGTCATAGTGTCTTTCAACTATGTTCTTATTCAATTT-TAGTATA
* **
56264681 GTACCATAGTGTCTTTCAACTATGTTCTTATTCAATTTT
1 ATGTCATAGTGTCTTTCAACTATGTTCTTATTCAATTTT
56264720 CAAGCCAATT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
44 7 0.10
45 60 0.85
46 4 0.06
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.48
Consensus pattern (45 bp):
ATGTCATAGTGTCTTTCAACTATGTTCTTATTCAATTTTAGTATA
Found at i:56264953 original size:171 final size:171
Alignment explanation
Indices: 56264668--56265011 Score: 625
Period size: 171 Copynumber: 2.0 Consensus size: 171
56264658 TGGTCTTATT
* *
56264668 CATTTCCAGTATAGTACCATAGTGTCTTTCAACTATGTTCTTATTCAATTTTCAAGCCAATTAAC
1 CATTTCCAGTATAGTACCACAGTGTCTTTCAACTATGGTCTTATTCAATTTTCAAGCCAATTAAC
*
56264733 TTGATATCCACATACATAAATAGATATTAAATTATCAAAACAATAACTAATTAATTTAACCAATT
66 TTGATATCCACATACATAAATAGATATTAAATTATCAAAACAATAACTAATTAATTTAACCAAGT
56264798 TATGAACTTACCTAATCCAAAAACGACAACAAACTCAACAC
131 TATGAACTTACCTAATCCAAAAACGACAACAAACTCAACAC
*
56264839 CATTTCCAGTATAGTGCCACAGTGTCTTTCAACTATGGTCTTATTCAATTTTCAAGCCAATTAAC
1 CATTTCCAGTATAGTACCACAGTGTCTTTCAACTATGGTCTTATTCAATTTTCAAGCCAATTAAC
*
56264904 TTGATCTCCACATACATAAATAGATATTAAATTATCAAAACAATAACTAATTAATTTAACCAAGT
66 TTGATATCCACATACATAAATAGATATTAAATTATCAAAACAATAACTAATTAATTTAACCAAGT
* *
56264969 TATGAACTTACCTAATCCAAAAATGACAATAAACTCAACAC
131 TATGAACTTACCTAATCCAAAAACGACAACAAACTCAACAC
56265010 CA
1 CA
56265012 ATTATTACAC
Statistics
Matches: 166, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
171 166 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.32
Consensus pattern (171 bp):
CATTTCCAGTATAGTACCACAGTGTCTTTCAACTATGGTCTTATTCAATTTTCAAGCCAATTAAC
TTGATATCCACATACATAAATAGATATTAAATTATCAAAACAATAACTAATTAATTTAACCAAGT
TATGAACTTACCTAATCCAAAAACGACAACAAACTCAACAC
Found at i:56277052 original size:30 final size:30
Alignment explanation
Indices: 56277018--56277108 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
56277008 ATTAATGAAA
56277018 TATATTAAAATAAATTATTTAATATAACTT
1 TATATTAAAATAAATTATTTAATATAACTT
* *
56277048 TATATT----T-TATTATTTAATTTAA--T
1 TATATTAAAATAAATTATTTAATATAACTT
* *
56277071 CATGCATGAAAATAAATTATTTAATATAACTT
1 TAT--ATTAAAATAAATTATTTAATATAACTT
56277103 TATATT
1 TATATT
56277109 TTATTATTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 18
0.63 0.11 0.26
Matches are distributed among these distances:
23 3 0.07
25 15 0.34
26 1 0.02
29 1 0.02
30 21 0.48
32 3 0.07
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (30 bp):
TATATTAAAATAAATTATTTAATATAACTT
Found at i:56277065 original size:25 final size:25
Alignment explanation
Indices: 56277031--56277120 Score: 81
Period size: 25 Copynumber: 3.4 Consensus size: 25
56277021 ATTAAAATAA
56277031 ATTATTTAATATAACTTTATATTTT
1 ATTATTTAATATAACTTTATATTTT
* * * * **
56277056 ATTATTTAATTTAATCATGCATGAAAATAA
1 ATTATTTAATATAA-C-T---TTATATTTT
56277086 ATTATTTAATATAACTTTATATTTT
1 ATTATTTAATATAACTTTATATTTT
56277111 ATTATTTAAT
1 ATTATTTAAT
56277121 TTAATCATGC
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
25 27 0.56
26 1 0.02
27 1 0.02
28 1 0.02
29 1 0.02
30 17 0.35
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTATTTAATATAACTTTATATTTT
Found at i:56277083 original size:55 final size:55
Alignment explanation
Indices: 56277024--56277134 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
56277014 GAAATATATT
56277024 AAAATAAATTATTTAATATAACTTTATATTTTATTATTTAATTTAATCATGCATG
1 AAAATAAATTATTTAATATAACTTTATATTTTATTATTTAATTTAATCATGCATG
56277079 AAAATAAATTATTTAATATAACTTTATATTTTATTATTTAATTTAATCATGCATG
1 AAAATAAATTATTTAATATAACTTTATATTTTATTATTTAATTTAATCATGCATG
56277134 A
1 A
56277135 CCCACTTTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (55 bp):
AAAATAAATTATTTAATATAACTTTATATTTTATTATTTAATTTAATCATGCATG
Found at i:56277123 original size:30 final size:30
Alignment explanation
Indices: 56277034--56277125 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
56277024 AAAATAAATT
56277034 ATTTAATATAACTTTATATTTTATTATTTA
1 ATTTAATATAACTTTATATTTTATTATTTA
* * * * * *
56277064 ATTTAATCAT-GCATGA-A---AATAAATT-
1 ATTTAAT-ATAACTTTATATTTTATTATTTA
56277089 ATTTAATATAACTTTATATTTTATTATTTA
1 ATTTAATATAACTTTATATTTTATTATTTA
56277119 ATTTAAT
1 ATTTAAT
56277126 CATGCATGAC
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
24 2 0.05
25 10 0.23
26 6 0.14
29 6 0.14
30 17 0.40
31 2 0.05
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTTAATATAACTTTATATTTTATTATTTA
Found at i:56279552 original size:12 final size:12
Alignment explanation
Indices: 56279535--56279559 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56279525 AATAATGCAA
56279535 TGTTGTATCATG
1 TGTTGTATCATG
56279547 TGTTGTATCATG
1 TGTTGTATCATG
56279559 T
1 T
56279560 CTTAATGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (12 bp):
TGTTGTATCATG
Found at i:56281712 original size:2 final size:2
Alignment explanation
Indices: 56281705--56281740 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
56281695 GTTTGGATGA
56281705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56281741 GCATTCGGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56283660 original size:47 final size:47
Alignment explanation
Indices: 56283606--56283705 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 47
56283596 TTAGGATTTT
* * *
56283606 ATGTGATGAATGTGAACGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAAGCCGAATGGCCA
* * * *
56283653 ATGTGATGATTGTGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAAGCCGAATGGCCA
56283700 ATGTGA
1 ATGTGA
56283706 AATATATATG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAAGCCGAATGGCCA
Found at i:56283877 original size:50 final size:50
Alignment explanation
Indices: 56283675--56283858 Score: 336
Period size: 50 Copynumber: 3.7 Consensus size: 50
56283665 TGAACATGCA
56283675 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
56283723 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
*
56283773 TATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
*
56283823 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
56283859 GTAGGCGATG
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
48 30 0.23
49 2 0.02
50 99 0.76
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.32
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
Found at i:56284064 original size:37 final size:37
Alignment explanation
Indices: 56283963--56284106 Score: 200
Period size: 37 Copynumber: 3.9 Consensus size: 37
56283953 GGAAATATAT
* *
56283963 TCCGGGTAAGGCCCGATCACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
56284000 TCTGGGTAAGACTC-ATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56284036 TCCGGGTAAGACCCGATGACTACGTGTGGATATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56284073 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
56284107 TCGTCTGAGC
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
36 32 0.34
37 61 0.66
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56284082 original size:73 final size:74
Alignment explanation
Indices: 56283963--56284106 Score: 202
Period size: 73 Copynumber: 2.0 Consensus size: 74
56283953 GGAAATATAT
* * * *
56283963 TCCGGGTAAGGCCCGATCACTACGTGTGGAGATTATGTCTGGGTAAGACTC-ATGACTAT-GTGT
1 TCCGGGTAAGACCCGATCACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACT-TCGTGT
56284026 GGAGATTATG
65 GGAGATTATG
* * *
56284036 TCCGGGTAAGACCCGATGACTACGTGTGGATATTTTGTCCGGGTAAGACCCGATAACTTCGTGTG
1 TCCGGGTAAGACCCGATCACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTTCGTGTG
56284101 GAGATT
66 GAGATT
56284107 TCGTCTGAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
73 46 0.74
74 16 0.26
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (74 bp):
TCCGGGTAAGACCCGATCACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTTCGTGTG
GAGATTATG
Found at i:56289642 original size:43 final size:43
Alignment explanation
Indices: 56289576--56289745 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 43
56289566 AGCTCATACA
* * * *
56289576 ATGCCAACGTCTCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATATCG
* * **
56289619 ATGCCACTATCCCAGACAGGGTCTTACACAAAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATATCG
* *
56289661 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAAAT-T-G
1 ATGCCAATGTCCCAGACAGGGTCTTACATG-AA-ATCAAATATCG
*
56289704 ATGCCAATGTCCCAGAC-GTGGTCTTACATGAAATCACATATC
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCAAATATC
56289746 AGAAATCCTA
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 5 0.05
42 30 0.29
43 63 0.61
44 6 0.06
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATATCG
Found at i:56289739 original size:85 final size:85
Alignment explanation
Indices: 56289571--56289731 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 85
56289561 CGAGAAGCTC
* *
56289571 ATACAATGCCAACGTCTCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATATCCCAGAC
56289636 AGGGTCTTACACAAAATCAA
66 AGGGTCTTACACAAAATCAA
* * *
56289656 ATACGATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAAAT-T-GATGCCAATGTCCCAG
1 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAA--TCAAATATCGATGCCAATATCCCAG
56289719 AC-GTGGTCTTACA
64 ACAG-GGTCTTACA
56289732 TGAAATCACA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
84 1 0.01
85 60 0.88
86 1 0.01
87 6 0.09
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCAATATCCCAGAC
AGGGTCTTACACAAAATCAA
Found at i:56291473 original size:27 final size:27
Alignment explanation
Indices: 56291387--56291473 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 27
56291377 CCCCAGTTGC
* * * *
56291387 AAAATTACCAAAGTA-CCCCGATTTAT
1 AAAATTACTAAAATAGCCTCGATTTGT
*
56291413 AAAATTACTAAAATAGCGTCGA-TTGT
1 AAAATTACTAAAATAGCCTCGATTTGT
*
56291439 AAAATTACTGAAAT-GCCCTCGATTTGT
1 AAAATTACTAAAATAG-CCTCGATTTGT
*
56291466 AGAATTAC
1 AAAATTAC
56291474 CATTTTACCC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.02
26 34 0.68
27 15 0.30
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (27 bp):
AAAATTACTAAAATAGCCTCGATTTGT
Found at i:56291484 original size:27 final size:27
Alignment explanation
Indices: 56291454--56291623 Score: 209
Period size: 27 Copynumber: 6.3 Consensus size: 27
56291444 TACTGAAATG
** *
56291454 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
56291481 CCCTCGATTTA-TAAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
*
56291507 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
56291534 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
56291561 CCCTCAATTTACAAAATTTCCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
56291588 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
56291615 CCCTCGATT
1 CCCTCGATT
56291624 GTGAAATTAT
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 23 0.19
27 100 0.81
28 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:56291619 original size:81 final size:80
Alignment explanation
Indices: 56291454--56291623 Score: 261
Period size: 81 Copynumber: 2.1 Consensus size: 80
56291444 TACTGAAATG
* * * *
56291454 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAAATTACCGTTTCACCCTCGATTTAC
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAAAAATTACCATTTCACCCTCGATTTAC
56291519 AAAATTACCGTTTTA
66 AAAATTACCGTTTTA
* *
56291534 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTTCCATTTTACCCTC-AGTTT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTA-AAAATTACCATTTCACCCTCGA-TTT
56291598 ACAAAATTACCGTTTTA
64 ACAAAATTACCGTTTTA
56291615 CCCTCGATT
1 CCCTCGATT
56291624 GTGAAATTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
80 37 0.45
81 45 0.55
ACGTcount: A:0.28, C:0.26, G:0.07, T:0.39
Consensus pattern (80 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAAAAATTACCATTTCACCCTCGATTTAC
AAAATTACCGTTTTA
Found at i:56291966 original size:27 final size:27
Alignment explanation
Indices: 56291635--56291959 Score: 368
Period size: 27 Copynumber: 12.0 Consensus size: 27
56291625 TGAAATTATT
*
56291635 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * ** *
56291662 AAAATACCCCAG-ATTTGTAAAATTACC
1 GAAATACCCCTGTA-GGGTAGAATTACC
* **
56291689 AAAATACCCCTG-ATTTGT-GAAATTACC
1 GAAATACCCCTGTA-GGGTAG-AATTACC
* *
56291716 GAAATACCCTTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
56291743 GAAATACCCCTGCAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
56291770 GAAATACCACTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
56291797 GAAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
56291824 GGAATACCCTTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
56291851 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
56291878 GCAATACCCCTGTAGGGTAGAATTCCC
1 GAAATACCCCTGTAGGGTAGAATTACC
** *
56291905 GAAATACCTTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
56291932 AAAATACCCCTGTAGGGTGGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
56291959 G
1 G
56291960 CGATACCTTG
Statistics
Matches: 253, Mismatches: 41, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
26 1 0.00
27 250 0.99
28 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:56292664 original size:27 final size:27
Alignment explanation
Indices: 56292634--56292735 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
56292624 ATTCTGTTAA
* *
56292634 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
56292661 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
56292688 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
56292715 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
56292736 ATAACTGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.78
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:56292904 original size:6 final size:6
Alignment explanation
Indices: 56292895--56292991 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
56292885 ATTTTGTTAC
* * *
56292895 CTGATA CTGATT CTGATT TTGATT CT-ATT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * *
56292944 TTGATT CTG-TCAC CTAATT CTGATT CTAATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
56292992 AATGCTTCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
5 5 0.07
6 57 0.81
7 5 0.07
8 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:56292918 original size:31 final size:31
Alignment explanation
Indices: 56292872--56292982 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
56292862 TTGCATTCAC
*
56292872 ATTCTGATTTTTGATTTTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
56292904 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
56292935 ATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
56292966 ATTCTAATTCTGATTCT
1 ATTCTGATTTTGATTCT
56292983 AGTTCTGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 64 0.90
32 7 0.10
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:56295038 original size:26 final size:27
Alignment explanation
Indices: 56294937--56295075 Score: 79
Period size: 27 Copynumber: 5.3 Consensus size: 27
56294927 TTAGTTTACC
* * *
56294937 AAATTACTGAAATATCCC-C-AGTTGCA
1 AAATTACTAAAATA-CCCTCGATTTGTA
* * * * *
56294963 AAATTACCAAAGTACCCCCAATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
*
56294990 AAATTACTAAAATACCGTCGA-TTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
56295016 AAATTACTGAAATGCCCTTGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *** *
56295043 GAATTACCATTTTACCCTCGATTTAT-
1 AAATTACTAAAATACCCTCGATTTGTA
56295069 AAATTAC
1 AAATTAC
56295076 CGTTTCACCC
Statistics
Matches: 84, Mismatches: 26, Indels: 6
0.72 0.22 0.05
Matches are distributed among these distances:
25 3 0.04
26 39 0.46
27 42 0.50
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:56295060 original size:27 final size:27
Alignment explanation
Indices: 56295044--56295199 Score: 208
Period size: 27 Copynumber: 5.8 Consensus size: 27
56295034 TGATTTGTAG
*
56295044 AATTACCATTTTACCCTCGATTTA-TA
1 AATTACCATTTTACCCTCGATTTACAA
* *
56295070 AATTACCGTTTCACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
* * *
56295097 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
*
56295124 AATTACCATTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
*
56295151 AATTACCATTTTACCCT-TAGTTTACAA
1 AATTACCATTTTACCCTCGA-TTTACAA
*
56295178 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
56295200 GTGAAATTAC
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.20
27 90 0.79
28 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:56295099 original size:80 final size:81
Alignment explanation
Indices: 56295015--56295199 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
56295005 CGTCGATTGT
* * * * * * *
56295015 AAAATTACTGAAATGCCCTTGATTTGTAGAATTACCATTTTACCCTCGATTTA-TAAATTACCGT
1 AAAATTACCGAAATACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAT
56295079 TTCACCCTCGA-TTTAC
66 TTCACCCT-GAGTTTAC
***
56295095 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAT
1 AAAATTACCGAAATACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAT
* *
56295160 TTTACCCTTAGTTTAC
66 TTCACCCTGAGTTTAC
***
56295176 AAAATTACCGTTTTACCCTCGATT
1 AAAATTACCGAAATACCCTCGATT
56295200 GTGAAATTAC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 46 0.51
81 45 0.49
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (81 bp):
AAAATTACCGAAATACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCAT
TTCACCCTGAGTTTAC
Found at i:56295188 original size:81 final size:80
Alignment explanation
Indices: 56295030--56295199 Score: 252
Period size: 81 Copynumber: 2.1 Consensus size: 80
56295020 TACTGAAATG
* * * * * *
56295030 CCCTTGATTTGTAGAATTACCATTTTACCCTCGATTTATAAATTACCGTTTCACCCTCGATTTAC
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAAAAATTACCATTTCACCCTAGATTTAC
56295095 AAAATTACCGTTTTA
66 AAAATTACCGTTTTA
*
56295110 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTACCATTTTACCCTTAG-TTT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTA-AAAATTACCATTTCACCC-TAGATTT
56295174 ACAAAATTACCGTTTTA
64 ACAAAATTACCGTTTTA
56295191 CCCTCGATT
1 CCCTCGATT
56295200 GTGAAATTAC
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 35 0.43
81 44 0.54
82 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (80 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAAAAATTACCATTTCACCCTAGATTTAC
AAAATTACCGTTTTA
Found at i:56295234 original size:27 final size:27
Alignment explanation
Indices: 56295204--56295541 Score: 387
Period size: 27 Copynumber: 12.6 Consensus size: 27
56295194 TCGATTGTGA
* *
56295204 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** *
56295231 AATTACCAAAATACCCCT-AATTTGTAA
1 AATTACCGAAATACCCCTGTA-GGGTAG
* * **
56295258 AATTACCAAAACACCCCTG-ATTTGT-G
1 AATTACCGAAATACCCCTGTA-GGGTAG
*
56295284 AAATTACCGAAATACCCTTGTAGGGTAG
1 -AATTACCGAAATACCCCTGTAGGGTAG
* *
56295312 AATTATCGAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56295339 AATTACCGAAATACGCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
56295366 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56295393 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
56295420 AATTACCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56295446 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56295473 AATTCCCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
56295500 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56295527 AATTACCGAGATACC
1 AATTACCGAAATACC
56295542 TTGTGTGGTA
Statistics
Matches: 265, Mismatches: 40, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
26 24 0.09
27 239 0.90
28 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:56295557 original size:107 final size:107
Alignment explanation
Indices: 56295204--56295559 Score: 360
Period size: 107 Copynumber: 3.3 Consensus size: 107
56295194 TCGATTGTGA
* * * * ** * *
56295204 AATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAA
1 AATTACCGAAATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTA-GGGTAGAATTACCGAA
* ** * * *
56295268 ACACCCCTG-ATTTGT-GAAATTACCGAAATACCCTTGTAGGGTAG
64 ATACCCCTGTA-GGGTAG-AATTACCAAAATACCCCTATAGGGTAG
* * *
56295312 AATTATCGAAATACCCCTGCAGGGTAGAATTACCGAAATACGCCTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAA
** * *
56295377 TACCCCTGTAGGGTAGAATTACCGGAATACCCTTGTAGGGTAG
65 TACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
* * *
56295420 AATTACCGAAATACCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTCCCGAAAT
1 AATTACCGAAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
* * *
56295485 ACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTGG
66 ACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
* * *
56295527 AATTACCGAGATACCTTGT-GTGGTAAAATTACC
1 AATTACCGAAATACCCTGTAG-GGTAGAATTACC
56295560 ATTTTGCCCC
Statistics
Matches: 212, Mismatches: 32, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
106 1 0.00
107 109 0.51
108 99 0.47
109 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (107 bp):
AATTACCGAAATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT
ACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
Found at i:56296036 original size:22 final size:22
Alignment explanation
Indices: 56295984--56296048 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
56295974 TTAAAGCCTT
* *
56295984 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
56296006 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
56296028 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
56296049 ATGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:56296220 original size:27 final size:27
Alignment explanation
Indices: 56296190--56296291 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
56296180 ATTCTGTTAA
* *
56296190 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
56296217 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
56296244 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
56296271 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
56296292 ATAACTGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.78
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:56296460 original size:6 final size:6
Alignment explanation
Indices: 56296451--56296547 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
56296441 ATTTTGTTAC
* * *
56296451 CTGATA CTGATT CTGATT TTGATT CT-ATT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
56296500 TTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
56296548 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 5 0.07
6 59 0.82
7 5 0.07
8 3 0.04
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:56296474 original size:31 final size:31
Alignment explanation
Indices: 56296428--56296538 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
56296418 TTGCATTCAC
*
56296428 ATTCTGATTTTTGATTTTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
56296460 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
56296491 ATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
56296522 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
56296539 AGTTCTGATA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 65 0.90
32 7 0.10
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:56300489 original size:40 final size:40
Alignment explanation
Indices: 56300362--56300491 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
56300352 ATGCTGGAAA
* * *
56300362 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
56300402 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
56300442 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
56300482 TTATATCCGG
1 TTATATCCGG
56300492 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:56304575 original size:28 final size:28
Alignment explanation
Indices: 56304510--56304610 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56304500 ATAGTGAATC
*
56304510 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
56304539 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56304567 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
56304597 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56304611 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56312492 original size:28 final size:28
Alignment explanation
Indices: 56312427--56312527 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56312417 ATAGTGAATC
*
56312427 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
56312456 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56312484 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
56312514 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56312528 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.